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28    <nav class="nav" aria-label="Primary"><a class href='/'>Resources</a><a class='active' href='/rawdata'>Raw data</a><a class href='/external'>Kidney data map</a><a class href='/pub'>Publications</a><a class href='/news'>News</a><a class href='/cite'>How to cite</a><a class href='/agree'>Data use</a><a href="https://www.med.upenn.edu/susztaklab/" target="_blank" rel="noopener" class="ext">Susztak Lab ↗</a></nav>
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34  <p class="eyebrow">Raw data</p>
35  <h1>SusztakLab raw data files</h1>
36  <p class="lead">Everything behind the browsers on this site, in the public repositories where it lives permanently: 32 summary-statistics and association files on figshare, 81 GEO series with raw reads and processed matrices, 10 Zenodo records with single-cell and spatial objects, histology and supplementary tables, the supplementary tables of the 20 source papers, our GWAS Catalog accessions, and the analysis code. All of it is free for non-commercial research under the <a href='/agree'>data use agreement</a>; please cite the paper named with each deposit and the SusztakLab Biobank (susztaklab.com).</p>
37  <p class="jump"><a href="#figshare">figshare</a> · <a href="#geo">GEO</a> · <a href="#zenodo">Zenodo</a> · <a href="#supplements">Paper supplements</a> · <a href="#gwascatalog">GWAS Catalog</a> · <a href="#code">Code</a></p>
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41  <div class="repo-tabs">
42    <a class="repo-tab" href="#figshare">figshare <span class="count">32 files</span></a>
43    <a class="repo-tab" href="#geo">
43GEO <span class="count">81 series</span></a>
44    <a class="repo-tab" href="#zenodo">Zenodo <span class="count">10 records</span></a>
45    <a class="repo-tab" href="#supplements">Paper supplements <span class="count">20 papers</span></a>
46    <a class="repo-tab" href="#gwascatalog">GWAS Catalog <span class="count">4</span></a>
47    <a class="repo-tab" href="#code">Code <span class="count">4</span></a>
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49
50  <h2 id="figshare" class="repo-h">Summary statistics and association tables (figshare)</h2>
51  <p class="repo-p">GWAS summary statistics, eQTL, pQTL, meQTL, eQTM, allele-specific expression and accessibility tables and the Genetic Scorecard, from 5 laboratory deposits. Every link is a direct download; large files are gzip-compressed text. Genome build is GRCh37 (hg19) unless the file name says otherwise.</p>
52  <section class="dl-group repo-item"><h3><a href="https://figshare.com/articles/dataset/Summary_statistics_of_human_kidney_pQTL_and_eQTL_associations/30156553" target="_blank" rel="noopener">Summary statistics of human kidney pQTL and eQTL associations</a></h3><p class="dl-meta">figshare · 2025 · DOI <a href="https://doi.org/10.6084/m9.figshare.30156553.v1" target="_blank" rel="noopener">10.6084/m9.figshare.30156553.v1</a> · 2 files, 8.6 MB · cite <a href="https://doi.org/10.1038/s41591-025-03872-8" target="_blank" rel="noopener">Hirohama et al., Nature Medicine 2025</a></p><ul class="dl-list"><li><span><a href="https://ndownloader.figshare.com/files/58066069" rel="noopener">kidney_pQTL_summary.txt.gz</a></span><span class="fmt">2.3 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/58066072" rel="noopener">kidney_eQTL_summary.txt.gz</a></span><span class="fmt">6.3 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://figshare.com/articles/dataset/Kidney_Multiome-based_Genetic_Scorecard_Reveals_Convergent_Coding_and_Regulatory_Variants_Datasets_/26299093" target="_blank" rel="noopener">Kidney Multiome-based Genetic Scorecard Reveals Convergent Coding and Regulatory Variants (Datasets)</a></h3><p class="dl-meta">figshare · 2025 · DOI <a href="https://doi.org/10.6084/m9.figshare.26299093.v3" target="_blank" rel="noopener">10.6084/m9.figshare.26299093.v3</a> · 12 files, 3 GB · cite <a href="https://www.science.org/doi/10.1126/science.adp4753" target="_blank" rel="noopener">Liu et al., Science 2025</a></p><ul class="dl-list"><li><span><a href="https://ndownloader.figshare.com/files/47668981" rel="noopener">eGFRcrea GWAS, European ancestry (N = 1,785,582)</a><span class="fname">eGFRcrea_GWAS_EUR_1.7M_Individuals_Summary_Statistics.txt.gz</span></span><span class="fmt">524.6 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/47668984" rel="noopener">eGFRcrea GWAS, African ancestry (N = 67,943)</a><span class="fname">eGFRcrea_GWAS_AFR_67K_Individuals_Summary_Statistics.txt.gz</span></span><span class="fmt">673.4 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/47668987" rel="noopener">eGFRcrea GWAS, multiancestry (N = 2,287,877) summary statistics</a><span class="fname">eGFRcrea_GWAS_Multi_2.2M_Individuals_Summary_Statistics.txt.gz</span></span><span class="fmt">672.9 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324036" rel="noopener">Glomerular allele-specific expression, 522 samples, significant associations</a><span class="fname">ASE_RASQUAL_522_Glomeruli_Significant_Associations.txt.gz</span></span><span class="fmt">76.3 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324039" rel="noopener">Tubular allele-specific expression, 613 samples, significant associations</a><span class="fname">ASE_RASQUAL_613_Tubule_Significant_Associations.txt.gz</span></span><span class="fmt">76.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324030" rel="noopener">Bulk allele-specific accessibility (bASA), 82 kidneys</a><span class="fname">bASA_RASQUAL_82_Kidney_Significant_Associations.txt.gz</span></span><span class="fmt">35.8 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324033" rel="noopener">Open4Gene peak-to-gene associations, significant (FDR &lt; 0.01)</a><span class="fname">Open4Gene_62K_Cells_Peak_to_Gene_Significant_Associations.txt.gz</span></span><span class="fmt">17.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324063" rel="noopener">Open4Gene peak-to-gene associations, summary statistics</a><span class="fname">Open4Gene_62K_Cells_Peak_to_Gene_Summary_Statistics.txt.gz</span></span><span class="fmt">616.5 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49324027" rel="noopener">Cell-type allele-specific accessibility (snASA), 237K cells</a><span class="fname">snASA_237K_Cells_Significant_Associations.txt.gz</span></span><span class="fmt">1.1 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49574424" rel="noopener">eGFRcrea GWAS, East Asian ancestry (N = 282,852)</a><span class="fname">eGFRcrea_GWAS_EAS_282K_Individuals_Summary_Statistics.txt.gz</span></span><span class="fmt">260.6 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/49817118" rel="noopener">snATAC-resolved open chromatin peaks, 96 kidneys, 62,278 cells, 19 cell types</a><span class="fname">Human.Kidney.OpenChromatin.snATAC.resolved.ATAC.Peaks.bed.gz</span></span><span class="fmt">4 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/57066494" rel="noopener">Genome_wide.Kidney.Disease.Genetic.Scorecard.xlsx</a></span><span class="fmt">63.1 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://figshare.com/articles/dataset/Kidney_epigenome_and_transcriptome-based_multi-stage_prioritization_defines_core_cell_types_genes_and_targetable_mechanisms_for_kidney_disease/15183495" target="_blank" rel="noopener">Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease (Data Set)</a></h3><p class="dl-meta">figshare · 2023 · DOI <a href="https://doi.org/10.6084/m9.figshare.15183495.v9" target="_blank" rel="noopener">10.6084/m9.figshare.15183495.v9</a> · 6 files, 1.1 GB · cite <a href="https://www.nature.com/articles/s41588-022-01097-w" target="_blank" rel="noopener">Liu et al., Nature Genetics 2022</a></p><ul class="dl-list"><li><span><a href="https://ndownloader.figshare.com/files/33928199" rel="noopener">Kidney eQTM (N = 414), 175,491 significant CpG–gene pairs (FDR &lt; 0.05)</a><span class="fname">Kidney.eQTM.S414.Significant.CpGlevel.FDR0.05.txt.gz</span></span><span class="fmt">4.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/33928202" rel="noopener">Kidney meQTL (N = 443), 13,771,378 significant SNP–CpG pairs (q &lt; 0.01)</a><span class="fname">Kidney_meQTL_S443_Significant.q0.01.txt.gz</span></span><span class="fmt">509.6 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/33957947" rel="noopener">Kidney eQTL meta-analysis (N = 686), 1,179,179 significant SNP–gene pairs (q &lt; 0.01)</a><span class="fname">
52Kidney_eQTL_Meta_S686_Significant.q0.01.txt.gz</span></span><span class="fmt">27.3 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/34014749" rel="noopener">90,950 significant eGFRcrea variants with eGFRcys and BUN validation</a><span class="fname">eGFRcrea_GWAS_S1.5million_Significant_Variants.txt.gz</span></span><span class="fmt">5.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/34014752" rel="noopener">eGFRcrea GWAS meta-analysis summary statistics</a><span class="fname">eGFRcrea_GWAS_S1.5million_Summary_Statistics.txt.gz</span></span><span class="fmt">522.4 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/41420238" rel="noopener">snATAC_Peaks_Each_CellType.tar.gz</a></span><span class="fmt">13.3 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://figshare.com/articles/dataset/Susztak_Lab_Datasets/21604026" target="_blank" rel="noopener">Susztak Lab Datasets</a></h3><p class="dl-meta">figshare · 2022 · DOI <a href="https://doi.org/10.6084/m9.figshare.21604026.v3" target="_blank" rel="noopener">10.6084/m9.figshare.21604026.v3</a> · 10 files, 368.4 MB · cite <a href="https://www.nature.com/articles/s41588-021-00909-9" target="_blank" rel="noopener">Sheng et al., Nature Genetics 2021</a></p><ul class="dl-list"><li><span><a href="https://ndownloader.figshare.com/files/38293869" rel="noopener">Blood MWAS with hemoglobin A1c</a><span class="fname">Blood_meQTL.FinalA1cSum.txt.gz</span></span><span class="fmt">5 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38293872" rel="noopener">Blood MWAS with albuminuria</a><span class="fname">Blood_meQTL.FinalAlbuSum.txt.gz</span></span><span class="fmt">12.3 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38293878" rel="noopener">Blood MWAS with eGFR</a><span class="fname">Blood_meQTL.FinaleGFRSum.txt.gz</span></span><span class="fmt">12.9 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38293881" rel="noopener">Blood MWAS with eGFR slope</a><span class="fname">Blood_meQTL.FinalSlpSum.txt.gz</span></span><span class="fmt">5 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38293971" rel="noopener">Blood mQTL, 12,354,191 significant SNP–CpG pairs (FDR &lt; 0.05)</a><span class="fname">Blood_meQTL.mqtlFinalSum.txt.gz</span></span><span class="fmt">271 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38295870" rel="noopener">Glomerular eQTL (N = 119), significant pairs (FDR &lt; 0.05)</a><span class="fname">Kidney_eQTL.CXGlomsigeQTLsFormated.txt.gz</span></span><span class="fmt">8.6 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38295873" rel="noopener">Tubule eQTL (N = 121), significant pairs (FDR &lt; 0.05)</a><span class="fname">Kidney_eQTL.CXTubsigeQTLsFormated.txt.gz</span></span><span class="fmt">7.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38295876" rel="noopener">Kidney_eQTL.FormatedeQTLcis.txt.gz</a></span><span class="fmt">747 KB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38295879" rel="noopener">Glomerular eQTL (N = 303), significant pairs (FDR &lt; 0.05)</a><span class="fname">Kidney_eQTL.GlomsigeQTLsFormated.txt.gz</span></span><span class="fmt">23.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/38295906" rel="noopener">Tubule eQTL (N = 356), significant pairs (FDR &lt; 0.05)</a><span class="fname">Kidney_eQTL.TubsigeQTLsFormated.txt.gz</span></span><span class="fmt">22.4 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://figshare.com/articles/dataset/Mapping_the_genetic_architecture_of_human_traits_to_cell_types_in_the_kidney_identifies_mechanisms_of_disease_and_potential_treatments/14718015" target="_blank" rel="noopener">Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments</a></h3><p class="dl-meta">figshare · 2021 · DOI <a href="https://doi.org/10.6084/m9.figshare.14718015.v1" target="_blank" rel="noopener">10.6084/m9.figshare.14718015.v1</a> · 2 files, 45.6 MB · cite <a href="https://www.nature.com/articles/s41588-021-00909-9" target="_blank" rel="noopener">Sheng et al., Nature Genetics 2021</a></p><ul class="dl-list"><li><span><a href="https://ndownloader.figshare.com/files/28277373" rel="noopener">GlomsigeQTLsFormated.txt.gz</a></span><span class="fmt">23.2 MB</span></li><li><span><a href="https://ndownloader.figshare.com/files/28277478" rel="noopener">TubsigeQTLsFormated.txt.gz</a></span><span class="fmt">22.5 MB</span></li></ul></section>
53
54  <h2 id="geo" class="repo-h">Sequencing data (Gene Expression Omnibus)</h2>
55  <p class="repo-p">81 series (1,397 samples) with Susztak as a contributing author, from the 2004 diabetic nephropathy arrays to the 2026 CUT&amp;RUN and spatial data: bulk and single-cell RNA-seq, snATAC-seq, ChIP-seq, whole-genome bisulfite and methylation arrays in human, mouse, rat and fly. Retrieved from GEO DataSets (<code>Susztak[Author]</code>), September 2026. Each accession page holds the raw reads (SRA), processed matrices and the linked paper. Human genotype data are not in GEO; they are available through the controlled-access mechanism described 
55in each paper.</p>
56  <div class="repo-filter"><input id="geo-q" type="search" placeholder="Filter GEO series: e.g. snATAC, human, methylation, 2021" aria-label="Filter GEO series"></div>
57  <div class="tablewrap"><table class="geo" id="geo-table"><thead><tr><th>Accession</th><th>Series</th><th>Organism</th><th>Assay</th><th>PubMed</th></tr></thead><tbody><tr class="yr"><th colspan="5">2026</th></tr><tr data-search="gse306009 acly-driven metabolic reprogramming promotes histone acetylation and inflammation-associated fibrosis in chronic kidney disease mus musculus chromatin (atac / chip / cut&amp;run) 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE306009" target="_blank" rel="noopener"><b>GSE306009</b></a></td><td>ACLY-driven metabolic reprogramming promotes histone acetylation and inflammation-associated fibrosis in chronic kidney disease</td><td>mouse</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41990244/" target="_blank" rel="noopener" title="ACLY-Driven Metabolic Reprogramming Promotes Histone Acetylation and Inflammation-Associated Fibrosis in Chronic Kidney Disease.">41990244</a> </td></tr><tr data-search="gse319933 bulk rna-seq profiling of primary mouse tubular epithelial cells following advcre-mediated elf3 deletion under tnfα and ifnγ stimulation mus musculus rna / single-cell rna 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319933" target="_blank" rel="noopener"><b>GSE319933</b></a></td><td>Bulk RNA-seq profiling of primary mouse tubular epithelial cells following AdvCre-mediated ELF3 deletion under TNFα and IFNγ stimulation</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm">—</td></tr><tr data-search="gse319877 transcriptomic profiling of human rptecs following tnfα and ifnγ stimulation at early and late time points homo sapiens rna / single-cell rna 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319877" target="_blank" rel="noopener"><b>GSE319877</b></a></td><td>Transcriptomic profiling of human RPTECs following TNFα and IFNγ stimulation at early and late time points</td><td>human</td><td>RNA / single-cell RNA<span class="n">20 samples</span></td><td class="pm">—</td></tr><tr data-search="gse319848 cut&amp;run profiling of elf3 and nfkb2 binding landscapes in primary mouse tubular epithelial cells under tnfα and ifnγ stimulation mus musculus chromatin (atac / chip / cut&amp;run) 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319848" target="_blank" rel="noopener"><b>GSE319848</b></a></td><td>CUT&amp;RUN profiling of ELF3 and NFKB2 binding landscapes in primary mouse tubular epithelial cells under TNFα and IFNγ stimulation</td><td>mouse</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">2 samples</span></td><td class="pm">—</td></tr><tr data-search="gse278614 single-cell spatial mapping of human kidney development reveals cellular niches and lineage dynamics [cosmx] homo sapiens spatial / other 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE278614" target="_blank" rel="noopener"><b>GSE278614</b></a></td><td>Single-Cell Spatial Mapping of Human Kidney Development Reveals Cellular Niches and Lineage Dynamics [CosMx]</td><td>human</td><td>spatial / other<span class="n">3 samples</span></td><td class="pm">—</td></tr><tr data-search="gse297989 hnf1b integrates signals in a feed-forward loop driving kidney disease progression [rnaseq_uuod1] mus musculus rna / single-cell rna 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297989" target="_blank" rel="noopener"><b>GSE297989</b></a></td><td>HNF1B integrates signals in a feed-forward loop driving kidney disease progression [RNAseq_UUOd1]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41990178/" target="_blank" rel="noopener" title="HNF1B integrates signals in a feed-forward loop driving kidney disease progression.">41990178</a> </td></tr><tr data-search="gse297988 hnf1b integrates signals in a feed-forward loop driving kidney disease progression [rnaseq_p60d2] mus musculus rna / single-cell rna 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297988" target="_blank" rel="noopener"><b>GSE297988</b></a></td><td>HNF1B integrates signals in a feed-forward loop driving kidney disease progression [RNAseq_P60d2]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41990178/" target="_blank" rel="noopener" title="HNF1B integrates signals in a feed-forward loop driving kidney disease progression.">41990178</a> </td></tr><tr data-search="gse297987 hnf1b integrates signals in a feed-forward loop driving kidney disease progression [chipseq_hnf1b] mus musculus chromatin (atac / chip / cut&amp;run) 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297987" target="_blank" rel="noopener"><b>GSE297987</b></a></td><td>HNF1B integrates signals in a feed-forward loop driving kidney disease progression [ChIPseq_Hnf1b]</td><td>mouse</td><td>
57chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">5 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41990178/" target="_blank" rel="noopener" title="HNF1B integrates signals in a feed-forward loop driving kidney disease progression.">41990178</a> </td></tr><tr data-search="gse233078 single-cell resolution drug effects on renin-angiotensin-aldosterone blockade in zsf1 rat diabetic kidney disease rattus norvegicus rna / single-cell rna 2026"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE233078" target="_blank" rel="noopener"><b>GSE233078</b></a></td><td>Single-cell resolution drug effects on renin-angiotensin-aldosterone blockade in ZSF1 rat diabetic kidney disease</td><td>rat</td><td>RNA / single-cell RNA<span class="n">11 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41563360/" target="_blank" rel="noopener" title="Single-Cell Resolution Drug Effects of Renin-Angiotensin-Aldosterone Blockade in ZSF1 Rat Diabetic Kidney Disease.">41563360</a> </td></tr><tr class="yr"><th colspan="5">2025</th></tr><tr data-search="gse283166 cell-specific inducible human apol1 risk variant expression cause hypertension and renal damage mus musculus rna / single-cell rna 2025"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE283166" target="_blank" rel="noopener"><b>GSE283166</b></a></td><td>Cell-specific Inducible Human APOL1 Risk Variant Expression Cause Hypertension and Renal Damage</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41376591/" target="_blank" rel="noopener" title="Cell-Specific Inducible Human APOL1 Risk Variant Expression in Mice Causes Hypertension and Renal Damage.">41376591</a> </td></tr><tr data-search="gse291551 analysis of individual patient pathway coordination in a cross-species single-cell kidney atlas  homo sapiens; mus musculus rna / single-cell rna 2025"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE291551" target="_blank" rel="noopener"><b>GSE291551</b></a></td><td>Analysis of individual patient pathway coordination in a cross-species single-cell kidney atlas </td><td>human; mouse</td><td>RNA / single-cell RNA<span class="n">11 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/40775269/" target="_blank" rel="noopener" title="Analysis of individual patient pathway coordination in a cross-species single-cell kidney atlas.">40775269</a> </td></tr><tr class="yr"><th colspan="5">2024</th></tr><tr data-search="gse273027 germline tet2 variants contribute to the pathogenesis of kidney disease through impaired dna damage repair and the activation of cytosolic nucleotide sensors homo sapiens; mus musculus rna / single-cell rna 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE273027" target="_blank" rel="noopener"><b>GSE273027</b></a></td><td>Germline TET2 variants contribute to the pathogenesis of kidney disease through impaired DNA damage repair and the activation of cytosolic nucleotide sensors</td><td>human; mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm">—</td></tr><tr data-search="gse223777 transcriptomic analysis of pepck-vpr mouse kidney mus musculus rna / single-cell rna 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE223777" target="_blank" rel="noopener"><b>GSE223777</b></a></td><td>Transcriptomic analysis of Pepck-Vpr mouse kidney</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">4 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39032602/" target="_blank" rel="noopener" title="Single-Nucleus RNA Sequencing Reveals Loss of Distal Convoluted Tubule 1 Renal Tubules in HIV Viral Protein R Transgenic Mice.">39032602</a> </td></tr><tr data-search="gse243871 single-cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by wilms tumor-associated enl mutation in the developing kidney homo sapiens; mus musculus rna / single-cell rna, chromatin (atac / chip / cut&amp;run) 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243871" target="_blank" rel="noopener"><b>GSE243871</b></a></td><td>Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney</td><td>human; mouse</td><td>
57RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">28 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39009564/" target="_blank" rel="noopener" title="Single-cell multiomics reveals ENL mutation perturbs kidney developmental trajectory by rewiring gene regulatory landscape.">39009564</a> </td></tr><tr data-search="gse243870 single-cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by wilms tumor-associated enl mutation in the developing kidney (scrna-seq) mus musculus rna / single-cell rna 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243870" target="_blank" rel="noopener"><b>GSE243870</b></a></td><td>Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (scRNA-Seq)</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">3 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39009564/" target="_blank" rel="noopener" title="Single-cell multiomics reveals ENL mutation perturbs kidney developmental trajectory by rewiring gene regulatory landscape.">39009564</a> </td></tr><tr data-search="gse243868 single-cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by wilms tumor-associated enl mutation in the developing kidney (snatac-seq) mus musculus chromatin (atac / chip / cut&amp;run) 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243868" target="_blank" rel="noopener"><b>GSE243868</b></a></td><td>Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (snATAC-Seq)</td><td>mouse</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">2 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39009564/" target="_blank" rel="noopener" title="Single-cell multiomics reveals ENL mutation perturbs kidney developmental trajectory by rewiring gene regulatory landscape.">39009564</a> </td></tr><tr data-search="gse243867 single-cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by wilms tumor-associated enl mutation in the developing kidney (rna-seq) homo sapiens rna / single-cell rna 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243867" target="_blank" rel="noopener"><b>GSE243867</b></a></td><td>Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (RNA-Seq)</td><td>human</td><td>RNA / single-cell RNA<span class="n">18 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39009564/" target="_blank" rel="noopener" title="Single-cell multiomics reveals ENL mutation perturbs kidney developmental trajectory by rewiring gene regulatory landscape.">39009564</a> </td></tr><tr data-search="gse243866 single-cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by wilms tumor-associated enl mutation in the developing kidney (chip-seq) homo sapiens chromatin (atac / chip / cut&amp;run) 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243866" target="_blank" rel="noopener"><b>GSE243866</b></a></td><td>Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (ChIP-Seq)</td><td>human</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">5 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/39009564/" target="_blank" rel="noopener" title="Single-cell multiomics reveals ENL mutation perturbs kidney developmental trajectory by rewiring gene regulatory landscape.">39009564</a> </td></tr><tr data-search="gse211785 spatially resolved human kidney multi-omics single cell atlas highlights the key role of fibrotic microenvironment in kidney disease progression. homo sapiens rna / single-cell rna, chromatin (atac / chip / cut&amp;run) 2024"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE211785" target="_blank" rel="noopener"><b>GSE211785</b></a></td><td>Spatially resolved human kidney multi-omics single cell atlas highlights the key role of fibrotic microenvironment in kidney disease progression.</td><td>human</td><td>
57RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">80 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/38217002/" target="_blank" rel="noopener" title="Niche-DE: niche-differential gene expression analysis in spatial transcriptomics data identifies context-dependent cell-cell interactions.">38217002</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38514613/" target="_blank" rel="noopener" title="Author Correction: Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development.">38514613</a> <a href="https://pubmed.ncbi.nlm.nih.gov/39048792/" target="_blank" rel="noopener" title="Single-cell multi-omic and spatial profiling of human kidneys implicates the fibrotic microenvironment in kidney disease progression.">39048792</a> <a href="https://pubmed.ncbi.nlm.nih.gov/41376591/" target="_blank" rel="noopener" title="Cell-Specific Inducible Human APOL1 Risk Variant Expression in Mice Causes Hypertension and Renal Damage.">41376591</a> <a href="https://pubmed.ncbi.nlm.nih.gov/40796935/" target="_blank" rel="noopener" title="The proteogenomic landscape of the human kidney and implications for cardio-kidney-metabolic health.">40796935</a> </td></tr><tr class="yr"><th colspan="5">2023</th></tr><tr data-search="gse183842 single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism rattus norvegicus rna / single-cell rna, chromatin (atac / chip / cut&amp;run) 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183842" target="_blank" rel="noopener"><b>GSE183842</b></a></td><td>Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism</td><td>rat</td><td>RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">47 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37906287/" target="_blank" rel="noopener" title="Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.">37906287</a> </td></tr><tr data-search="gse183841 single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [bulk rna-seq] rattus norvegicus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183841" target="_blank" rel="noopener"><b>GSE183841</b></a></td><td>Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [bulk RNA-seq]</td><td>rat</td><td>RNA / single-cell RNA<span class="n">16 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37906287/" target="_blank" rel="noopener" title="Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.">37906287</a> </td></tr><tr data-search="gse183840 single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snatac-seq] rattus norvegicus chromatin (atac / chip / cut&amp;run) 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183840" target="_blank" rel="noopener"><b>GSE183840</b></a></td><td>Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snATAC-seq]</td><td>rat</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">9 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37906287/" target="_blank" rel="noopener" title="Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.">37906287</a> </td></tr><tr data-search="gse183839 single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snrna-seq] rattus norvegicus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183839" target="_blank" rel="noopener"><b>GSE183839</b></a></td><td>Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snRNA-seq]</td><td>rat</td><td>RNA / single-cell RNA<span class="n">22 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37906287/" target="_blank" rel="noopener" title="Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.">37906287</a> </td></tr>
57<tr data-search="gse242095 endogenous renal adiponectin drives gluconeogenesis through enhancing pyruvate and fatty acid utilization mus musculus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE242095" target="_blank" rel="noopener"><b>GSE242095</b></a></td><td>Endogenous renal adiponectin drives gluconeogenesis through enhancing pyruvate and fatty acid utilization</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37848446/" target="_blank" rel="noopener" title="Endogenous renal adiponectin drives gluconeogenesis through enhancing pyruvate and fatty acid utilization.">37848446</a> </td></tr><tr data-search="gse220493 unified mouse and human kidney single-cell expression atlas reveal commonalities and differences in disease states mus musculus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE220493" target="_blank" rel="noopener"><b>GSE220493</b></a></td><td>Unified Mouse and Human Kidney Single-Cell Expression Atlas Reveal Commonalities and Differences in Disease States</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm">—</td></tr><tr data-search="gse209821 treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution rattus norvegicus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE209821" target="_blank" rel="noopener"><b>GSE209821</b></a></td><td>Treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution</td><td>rat</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/37023747/" target="_blank" rel="noopener" title="Treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution.">37023747</a> </td></tr><tr data-search="gse207587 the rna-seq for the kidneys injected with cisplatin and nad precursors. mus musculus rna / single-cell rna 2023"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE207587" target="_blank" rel="noopener"><b>GSE207587</b></a></td><td>The RNA-seq for the kidneys injected with cisplatin and NAD precursors.</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">16 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/36914909/" target="_blank" rel="noopener" title="NAD(+) precursor supplementation prevents mtRNA/RIG-I-dependent inflammation during kidney injury.">36914909</a> </td></tr><tr class="yr"><th colspan="5">2022</th></tr><tr data-search="gse212715 tet2 and tet3 mediated active cytosine hydroxymethylation in six2 progenitor cells is critical for nephron progenitor differentiation and nephron endowment mus musculus rna / single-cell rna, dna methylation 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE212715" target="_blank" rel="noopener"><b>GSE212715</b></a></td><td>Tet2 and Tet3 mediated active cytosine hydroxymethylation in Six2 progenitor cells is critical for nephron progenitor differentiation and nephron endowment</td><td>mouse</td><td>RNA / single-cell RNA, DNA methylation<span class="n">4 samples</span></td><td class="pm">—</td></tr><tr data-search="gse137570 loss of ferm domain-containing protein 3 (frmd3) is associated with severity of chronic kidney disease homo sapiens rna / single-cell rna 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE137570" target="_blank" rel="noopener"><b>GSE137570</b></a></td><td>Loss of FERM domain-containing protein 3 (FRMD3) is associated with severity of chronic kidney disease</td><td>human</td><td>RNA / single-cell RNA<span class="n">41 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/36550108/" target="_blank" rel="noopener" title="PubMed 36550108">36550108</a> </td></tr><tr data-search="gse205217 hepatocyte nuclear factor 1β gene regulation in e14.5 ureteric bud cells mus musculus rna / single-cell rna 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE205217" target="_blank" rel="noopener"><b>GSE205217</b></a></td><td>Hepatocyte nuclear factor 1β gene regulation in E14.5 ureteric bud cells</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">10 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/36266461/" target="_blank" rel="noopener" title="Multiomics analysis reveals that hepatocyte nuclear factor 1β regulates axon guidance genes in the developing mouse kidney.">36266461</a> </td></tr><tr data-search="gse205189 hepatocyte nuclear factor 1β binding in e14.5 kidney mus musculus chromatin (atac / chip / cut&amp;run) 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE205189" target="_blank" rel="noopener"><b>GSE205189</b></a></td><td>Hepatocyte nuclear factor 1β binding in E14.5 kidney</td><td>mouse</td><td>
57chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/36266461/" target="_blank" rel="noopener" title="Multiomics analysis reveals that hepatocyte nuclear factor 1β regulates axon guidance genes in the developing mouse kidney.">36266461</a> </td></tr><tr data-search="gse200547 epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease homo sapiens chromatin (atac / chip / cut&amp;run) 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE200547" target="_blank" rel="noopener"><b>GSE200547</b></a></td><td>Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease</td><td>human</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">4 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/35710981/" target="_blank" rel="noopener" title="Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease.">35710981</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38287030/" target="_blank" rel="noopener" title="Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development.">38287030</a> </td></tr><tr data-search="gse182256 single cell analysis identifies the key role of basophils orchestrating th17 immunity and kidney fibrosis mus musculus rna / single-cell rna 2022"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE182256" target="_blank" rel="noopener"><b>GSE182256</b></a></td><td>Single cell analysis identifies the key role of basophils orchestrating Th17 immunity and kidney fibrosis</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/35552540/" target="_blank" rel="noopener" title="Single-cell analysis identifies the interaction of altered renal tubules with basophils orchestrating kidney fibrosis.">35552540</a> </td></tr><tr class="yr"><th colspan="5">2021</th></tr><tr data-search="gse176465 urine single cell rna-sequencing in focal segmental glomerulosclerosis reveals inflammatory signatures in immune cells and podocytes homo sapiens rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE176465" target="_blank" rel="noopener"><b>GSE176465</b></a></td><td>Urine single cell RNA-sequencing in focal segmental glomerulosclerosis reveals inflammatory signatures in immune cells and podocytes</td><td>human</td><td>RNA / single-cell RNA<span class="n">23 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/35155868/" target="_blank" rel="noopener" title="Urine Single-Cell RNA Sequencing in Focal Segmental Glomerulosclerosis Reveals Inflammatory Signatures.">35155868</a> <a href="https://pubmed.ncbi.nlm.nih.gov/36644347/" target="_blank" rel="noopener" title="PubMed 36644347">36644347</a> </td></tr><tr data-search="gse181671 african american-specific apol1  risk variants in endothelial cells exacerbate sepsis and covid19 severity mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE181671" target="_blank" rel="noopener"><b>GSE181671</b></a></td><td>African American-specific APOL1  risk variants in endothelial cells exacerbate sepsis and COVID19 severity</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">2 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/41376591/" target="_blank" rel="noopener" title="Cell-Specific Inducible Human APOL1 Risk Variant Expression in Mice Causes Hypertension and Renal Damage.">41376591</a> </td></tr><tr data-search="gse180420 single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE180420" target="_blank" rel="noopener"><b>GSE180420</b></a></td><td>Single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">20 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/35821371/" target="_blank" rel="noopener" title="Single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration.">35821371</a> </td></tr><tr data-search="gse173343 mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments [rna-seq] homo sapiens rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173343" target="_blank" rel="noopener"><b>GSE173343</b></a></td><td>Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments [RNA-seq]</td><td>human</td><td>RNA / single-cell RNA<span class="n">68 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/34385711/" target="_blank" rel="noopener" title="Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments.">34385711</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38287030/" target="_blank" rel="noopener" title="Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development.">38287030</a> <a href="https://pubmed.ncbi.nlm.nih.gov/39048792/" target="_blank" rel="noopener" title="Single-cell multi-omic and spatial profiling of human kidneys implicates the fibrotic microenvironment in kidney disease progression.">39048792</a> </td></tr><tr data-search="gse168676 identification of dachshund-1 (dach1) transcriptional target genes in podocytes at baseline and in experimental diabetes mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE168676" target="_blank" rel="noopener"><b>GSE168676</b></a></td><td>Identification of dachshund-1 (DACH1) transcriptional target genes in podocytes at baseline and in experimental diabetes</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33998601/" target="_blank" rel="noopener" title="DACH1 protects podocytes from experimental diabetic injury and modulates PTIP-H3K4Me3 activity.">33998601</a> </td></tr><tr data-search="gse172008 mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments homo sapiens chromatin (atac / chip / cut&amp;run) 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE172008" target="_blank" rel="noopener"><b>GSE172008</b></a></td><td>Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments</td><td>human</td><td>
57chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">2 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/34385711/" target="_blank" rel="noopener" title="Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments.">34385711</a> <a href="https://pubmed.ncbi.nlm.nih.gov/34426578/" target="_blank" rel="noopener" title="A single genetic locus controls both expression of DPEP1/CHMP1A and kidney disease development via ferroptosis.">34426578</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38287030/" target="_blank" rel="noopener" title="Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development.">38287030</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38287344/" target="_blank" rel="noopener" title="PubMed 38287344">38287344</a> </td></tr><tr data-search="gse166355 defining the lineage of thermogenic perivascular adipose tissue [thoracic pvat] homo sapiens; mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE166355" target="_blank" rel="noopener"><b>GSE166355</b></a></td><td>Defining the lineage of thermogenic perivascular adipose tissue [Thoracic PVAT]</td><td>human; mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33846639/" target="_blank" rel="noopener" title="Defining the lineage of thermogenic perivascular adipose tissue.">33846639</a> </td></tr><tr data-search="gse164528 defining the lineage of thermogenic perivascular adipose tissue homo sapiens; mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164528" target="_blank" rel="noopener"><b>GSE164528</b></a></td><td>Defining the lineage of thermogenic perivascular adipose tissue</td><td>human; mouse</td><td>RNA / single-cell RNA<span class="n">42 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33846639/" target="_blank" rel="noopener" title="Defining the lineage of thermogenic perivascular adipose tissue.">33846639</a> </td></tr><tr data-search="gse164527 defining the lineage of thermogenic perivascular adipose tissue [pvat v iwat] mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164527" target="_blank" rel="noopener"><b>GSE164527</b></a></td><td>Defining the lineage of thermogenic perivascular adipose tissue [PVAT v IWAT]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33846639/" target="_blank" rel="noopener" title="Defining the lineage of thermogenic perivascular adipose tissue.">33846639</a> </td></tr><tr data-search="gse164526 defining the lineage of thermogenic perivascular adipose tissue [pup aorta] mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164526" target="_blank" rel="noopener"><b>GSE164526</b></a></td><td>Defining the lineage of thermogenic perivascular adipose tissue [Pup Aorta]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33846639/" target="_blank" rel="noopener" title="Defining the lineage of thermogenic perivascular adipose tissue.">33846639</a> </td></tr><tr data-search="gse164525 defining the lineage of thermogenic perivascular adipose tissue [adult aorta] mus musculus rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164525" target="_blank" rel="noopener"><b>GSE164525</b></a></td><td>Defining the lineage of thermogenic perivascular adipose tissue [Adult Aorta]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33846639/" target="_blank" rel="noopener" title="Defining the lineage of thermogenic perivascular adipose tissue.">33846639</a> </td></tr><tr data-search="gse157640 urinary single cell profiling captures cellular diversity of the kidney homo sapiens rna / single-cell rna 2021"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157640" target="_blank" rel="noopener"><b>GSE157640</b></a></td><td>Urinary single cell profiling captures cellular diversity of the kidney</td><td>human</td><td>RNA / single-cell RNA<span class="n">18 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33531352/" target="_blank" rel="noopener" title="Urinary Single-Cell Profiling Captures the Cellular Diversity of the Kidney.">33531352</a> </td></tr><tr class="yr"><th colspan="5">2020</th></tr><tr data-search="gse156686 renal proximal tubule cell state and metabolism are coupled by nuclear receptors mus musculus rna / single-cell rna 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE156686" target="_blank" rel="noopener"><b>GSE156686</b></a></td><td>Renal proximal tubule cell state and metabolism are coupled by nuclear receptors</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33301705/" target="_blank" rel="noopener" title="The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation.">33301705</a> </td></tr><tr data-search="gse152765 metabolic programming drives proximal tubule differentiation and kidney dysfunction homo sapiens rna / single-cell rna 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE152765" target="_blank" rel="noopener"><b>GSE152765</b></a></td><td>Metabolic programming drives proximal tubule differentiation and kidney dysfunction</td><td>human</td><td>RNA / single-cell RNA<span class="n">1 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33301705/" target="_blank" rel="noopener" title="The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation.">33301705</a> </td></tr><tr data-search="gse157079 single cell resolution regulatory landscape of the mouse kidney highlights cellular differentiation programs and renal disease targets mus musculus rna / single-cell rna, chromatin (atac / chip / cut&amp;run) 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157079" target="_blank" rel="noopener"><b>GSE157079</b></a></td><td>Single cell resolution regulatory landscape of the mouse kidney highlights cellular differentiation programs and renal disease targets</td><td>mouse</td><td>
57RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">13 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/33859189/" target="_blank" rel="noopener" title="Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets.">33859189</a> <a href="https://pubmed.ncbi.nlm.nih.gov/34426578/" target="_blank" rel="noopener" title="A single genetic locus controls both expression of DPEP1/CHMP1A and kidney disease development via ferroptosis.">34426578</a> </td></tr><tr data-search="gse149638 asep: gene-based detection of allele-specific expression cross individuals in a population by rna sequencing homo sapiens rna / single-cell rna 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE149638" target="_blank" rel="noopener"><b>GSE149638</b></a></td><td>ASEP: gene-based detection of allele-specific expression cross individuals in a population by RNA sequencing</td><td>human</td><td>RNA / single-cell RNA<span class="n">96 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/32392242/" target="_blank" rel="noopener" title="ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing.">32392242</a> </td></tr><tr data-search="gse145477 single cell transcriptomics analysis of bone marrow mesenchymal lineage cells mus musculus rna / single-cell rna 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE145477" target="_blank" rel="noopener"><b>GSE145477</b></a></td><td>Single cell transcriptomics analysis of bone marrow mesenchymal lineage cells</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">4 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/32286228/" target="_blank" rel="noopener" title="Single cell transcriptomics identifies a unique adipose lineage cell population that regulates bone marrow environment.">32286228</a> <a href="https://pubmed.ncbi.nlm.nih.gov/35393948/" target="_blank" rel="noopener" title="PubMed 35393948">35393948</a> </td></tr><tr data-search="gse146974 deep learning enables accurate clustering with batch effect removal in single-cell rna-seq analysis homo sapiens rna / single-cell rna 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE146974" target="_blank" rel="noopener"><b>GSE146974</b></a></td><td>Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis</td><td>human</td><td>RNA / single-cell RNA<span class="n">3 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/32393754/" target="_blank" rel="noopener" title="Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis.">32393754</a> <a href="https://pubmed.ncbi.nlm.nih.gov/34035047/" target="_blank" rel="noopener" title="PubMed 34035047">34035047</a> </td></tr><tr data-search="gse134267 dnmt3a and dnmt3b-mediated decommissioning of fetal enhancers linked to kidney disease mus musculus rna / single-cell rna, dna methylation 2020"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE134267" target="_blank" rel="noopener"><b>GSE134267</b></a></td><td>Dnmt3a and Dnmt3b-mediated decommissioning of fetal enhancers linked to kidney disease</td><td>mouse</td><td>RNA / single-cell RNA, DNA methylation<span class="n">19 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/32127410/" target="_blank" rel="noopener" title="Dnmt3a and Dnmt3b-Decommissioned Fetal Enhancers are Linked to Kidney Disease.">32127410</a> </td></tr><tr class="yr"><th colspan="5">2019</th></tr><tr data-search="gse126823 ascorbic acid–induced tet activation mitigates adverse hydroxymethylcystosine loss in renal cell carcinoma homo sapiens dna methylation 2019"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126823" target="_blank" rel="noopener"><b>GSE126823</b></a></td><td>Ascorbic acid–induced TET activation mitigates adverse hydroxymethylcystosine loss in renal cell carcinoma</td><td>human</td><td>DNA methylation<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/30702441/" target="_blank" rel="noopener" title="Ascorbic acid-induced TET activation mitigates adverse hydroxymethylcytosine loss in renal cell carcinoma.">30702441</a> </td></tr><tr data-search="gse124610 loss of hydroxymethylcytosine is an independent adverse prognostic factor in clear cell renal cell carcinoma (ccrcc) and can be abrogated by ascorbic acid mediated tet activation homo sapiens dna methylation 2019"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124610" target="_blank" rel="noopener"><b>GSE124610</b></a></td><td>Loss of hydroxymethylcytosine is an independent adverse prognostic factor in clear cell Renal Cell Carcinoma (ccRCC) and can be abrogated by ascorbic acid mediated TET activation</td><td>human</td><td>DNA methylation<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/30702441/" target="_blank" rel="noopener" title="Ascorbic acid-induced TET activation mitigates adverse hydroxymethylcytosine loss in renal cell carcinoma.">30702441</a> </td></tr><tr data-search="gse110481 dnmt1 in six2 progenitor cells is essential for transposable element silencing and kidney development mus musculus rna / single-cell rna, dna methylation 2019"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE110481" target="_blank" rel="noopener"><b>GSE110481</b></a></td><td>DNMT1 in Six2 progenitor cells is essential for transposable element silencing and kidney development</td><td>mouse</td><td>RNA / single-cell RNA, DNA methylation<span class="n">15 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/30850438/" target="_blank" rel="noopener" title="DNMT1 in Six2 Progenitor Cells Is Essential for Transposable Element Silencing and Kidney Development.">30850438</a> </td></tr><tr class="yr"><th colspan="5">2018</th></tr><tr data-search="gse115098 kidney compartment specific eqtl studies highlight causal genes and pathways for renal disease development homo sapiens rna / single-cell rna 2018"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE115098" target="_blank" rel="noopener"><b>GSE115098</b></a></td><td>Kidney compartment specific eQTL studies highlight causal genes and pathways for renal disease development</td><td>human</td><td>RNA / single-cell RNA<span class="n">20 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/30275566/" target="_blank" rel="noopener" title="Renal compartment-specific genetic variation analyses identify new pathways in chronic kidney disease.">30275566</a> <a href="https://pubmed.ncbi.nlm.nih.gov/31167971/" target="_blank" rel="noopener" title="Functional methylome analysis of human diabetic kidney disease.">31167971</a> <a href="https://pubmed.ncbi.nlm.nih.gov/31451708/" target="_blank" rel="noopener" title="Mapping eGFR loci to the renal transcriptome and phenome in the VA Million Veteran Program.">31451708</a> <a href="https://pubmed.ncbi.nlm.nih.gov/34426578/" target="_blank" rel="noopener" title="A single genetic locus controls both expression of DPEP1/CHMP1A and kidney disease development via ferroptosis.">34426578</a> <a href="https://pubmed.ncbi.nlm.nih.gov/38287030/" target="_blank" rel="noopener" title="Unraveling the epigenetic code: human kidney DNA methylation and chromatin dynamics in renal disease development.">38287030</a> <a href="https://pubmed.ncbi.nlm.nih.gov/39048792/" target="_blank" rel="noopener" title="Single-cell multi-omic and spatial profiling of human kidneys implicates the fibrotic microenvironment in kidney disease progression.">39048792</a> </td></tr><tr data-search="gse104907 errγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease mus musculus rna / single-cell rna, chromatin (atac / chip / cut&amp;run) 2018"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104907" target="_blank" rel="noopener"><b>GSE104907</b></a></td><td>ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease</td><td>mouse</td><td>
57RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">9 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/29735694/" target="_blank" rel="noopener" title="Genomic integration of ERRγ-HNF1β regulates renal bioenergetics and prevents chronic kidney disease.">29735694</a> </td></tr><tr data-search="gse104906 errγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [rna-seq] mus musculus rna / single-cell rna 2018"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104906" target="_blank" rel="noopener"><b>GSE104906</b></a></td><td>ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [RNA-seq]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">15 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/29735694/" target="_blank" rel="noopener" title="Genomic integration of ERRγ-HNF1β regulates renal bioenergetics and prevents chronic kidney disease.">29735694</a> </td></tr><tr data-search="gse104905 errγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [chip-seq] mus musculus chromatin (atac / chip / cut&amp;run) 2018"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104905" target="_blank" rel="noopener"><b>GSE104905</b></a></td><td>ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [ChIP-seq]</td><td>mouse</td><td>chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">9 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/29735694/" target="_blank" rel="noopener" title="Genomic integration of ERRγ-HNF1β regulates renal bioenergetics and prevents chronic kidney disease.">29735694</a> </td></tr><tr data-search="gse107585 comprehensive single cell rnaseq analysis of the kidney reveals novel cell types and unexpected cell plasticity mus musculus rna / single-cell rna 2018"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE107585" target="_blank" rel="noopener"><b>GSE107585</b></a></td><td>Comprehensive single cell RNAseq analysis of the kidney reveals novel cell types and unexpected cell plasticity</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">7 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/29622724/" target="_blank" rel="noopener" title="Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease.">29622724</a> </td></tr><tr class="yr"><th colspan="5">2017</th></tr><tr data-search="gse108106 rna sequence on the fed and fasted state of kidneys in mice mus musculus rna / single-cell rna 2017"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE108106" target="_blank" rel="noopener"><b>GSE108106</b></a></td><td>RNA sequence on the fed and fasted state of kidneys in mice</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">9 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/28404638/" target="_blank" rel="noopener" title="Kidney triglyceride accumulation in the fasted mouse is dependent upon serum free fatty acids.">28404638</a> </td></tr><tr data-search="gse77432 alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero mus musculus rna / single-cell rna, dna methylation 2017"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77432" target="_blank" rel="noopener"><b>GSE77432</b></a></td><td>Alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero</td><td>mouse</td><td>RNA / single-cell RNA, DNA methylation<span class="n">8 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/28911167/" target="_blank" rel="noopener" title="In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice.">28911167</a> </td></tr><tr data-search="gse77431 alterations in the hepatic gene expression in mice exposed to a maternal high fat diet in utero [microarray] mus musculus rna / single-cell rna 2017"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77431" target="_blank" rel="noopener"><b>GSE77431</b></a></td><td>Alterations in the hepatic gene expression in mice exposed to a maternal high fat diet in utero [Microarray]</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">2 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/28911167/" target="_blank" rel="noopener" title="In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice.">28911167</a> </td></tr><tr data-search="gse77430 alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero [help] mus musculus dna methylation 2017"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77430" target="_blank" rel="noopener"><b>GSE77430</b></a></td><td>Alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero [HELP]</td><td>mouse</td><td>DNA methylation<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/28911167/" target="_blank" rel="noopener" title="In Utero Exposure to a High-Fat Diet Programs Hepatic Hypermethylation and Gene Dysregulation and Development of Metabolic Syndrome in Male Mice.">28911167</a> </td></tr><tr data-search="gse81492 apol1 variant expression in mouse podocytes cause kidney disease mus musculus rna / single-cell rna 2017"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81492" target="_blank" rel="noopener"><b>GSE81492</b></a></td><td>APOL1 variant expression in mouse podocytes cause kidney disease</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">10 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/28218918/" target="_blank" rel="noopener" title="Transgenic expression of human APOL1 risk variants in podocytes induces kidney disease in mice.">28218918</a> <a href="https://pubmed.ncbi.nlm.nih.gov/41376591/" target="_blank" rel="noopener" title="Cell-Specific Inducible Human APOL1 Risk Variant Expression in Mice Causes Hypertension and Renal Damage.">41376591</a> </td></tr><tr class="yr"><th colspan="5">2016</th></tr><tr data-search="gse80384 notch pathway is overexpressed and is a therapeutic target in clear cell renal cancer mus musculus rna / single-cell rna 2016"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80384" target="_blank" rel="noopener"><b>GSE80384</b></a></td><td>Notch pathway is overexpressed and is a therapeutic target in clear cell renal cancer</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/27909050/" target="_blank" rel="noopener" title="Notch Pathway Is Activated via Genetic and Epigenetic Alterations and Is a Therapeutic Target in Clear 
57Cell Renal Cancer.">27909050</a> </td></tr><tr class="yr"><th colspan="5">2015</th></tr><tr data-search="gse70544 transcriptional signatures of hypoxic and inflammatory renal epithelial injury homo sapiens rna / single-cell rna 2015"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE70544" target="_blank" rel="noopener"><b>GSE70544</b></a></td><td>Transcriptional Signatures of Hypoxic and Inflammatory Renal Epithelial Injury</td><td>human</td><td>RNA / single-cell RNA<span class="n">12 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/26400545/" target="_blank" rel="noopener" title="The long noncoding RNA landscape in hypoxic and inflammatory renal epithelial injury.">26400545</a> </td></tr><tr data-search="gse69815 expression array of glucosamine-fed drosophila heart/nephrocyte complexes drosophila melanogaster rna / single-cell rna 2015"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE69815" target="_blank" rel="noopener"><b>GSE69815</b></a></td><td>Expression array of glucosamine-fed Drosophila heart/nephrocyte complexes</td><td>fly</td><td>RNA / single-cell RNA<span class="n">6 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/26190114/" target="_blank" rel="noopener" title="Diet-Induced Podocyte Dysfunction in Drosophila and Mammals.">26190114</a> </td></tr><tr class="yr"><th colspan="5">2014</th></tr><tr data-search="gse60119 next generation sequencing facilitates quantitative analysis of normal human kidney transcriptomes homo sapiens rna / single-cell rna 2014"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE60119" target="_blank" rel="noopener"><b>GSE60119</b></a></td><td>Next Generation Sequencing Facilitates Quantitative Analysis of Normal Human Kidney Transcriptomes</td><td>human</td><td>RNA / single-cell RNA<span class="n">2 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/25231882/" target="_blank" rel="noopener" title="Functional genomic annotation of genetic risk loci highlights inflammation and epithelial biology networks in CKD.">25231882</a> </td></tr><tr data-search="gse49420 integrative analysis demonstrates widespread notch pathway activation in patients with renal cancer and reveals aberrant dna methylation that targets the regulatory regions of the kidney genome homo sapiens dna methylation 2014"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49420" target="_blank" rel="noopener"><b>GSE49420</b></a></td><td>Integrative analysis demonstrates widespread NOTCH pathway activation in patients with renal cancer and reveals aberrant DNA methylation that targets the regulatory regions of the kidney genome</td><td>human</td><td>DNA methylation<span class="n">26 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/24916699/" target="_blank" rel="noopener" title="Kidney cancer is characterized by aberrant methylation of tissue-specific enhancers that are prognostic for overall survival.">24916699</a> </td></tr><tr class="yr"><th colspan="5">2013</th></tr><tr data-search="gse50874 methylation profiling of human kidney tubules homo sapiens dna methylation 2013"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE50874" target="_blank" rel="noopener"><b>GSE50874</b></a></td><td>Methylation Profiling of Human Kidney Tubules</td><td>human</td><td>DNA methylation<span class="n">85 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/24098934/" target="_blank" rel="noopener" title="Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development.">24098934</a> <a href="https://pubmed.ncbi.nlm.nih.gov/28556588/" target="_blank" rel="noopener" title="PubMed 28556588">28556588</a> </td></tr><tr data-search="gse49637 histone tail modification profiles of human renal tubule epithelial cells homo sapiens chromatin (atac / chip / cut&amp;run) 2013"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49637" target="_blank" rel="noopener"><b>GSE49637</b></a></td><td>Histone tail modification profiles of human renal tubule epithelial cells</td><td>human</td><td>
57chromatin (ATAC / ChIP / CUT&amp;RUN)<span class="n">7 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/24098934/" target="_blank" rel="noopener" title="Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development.">24098934</a> <a href="https://pubmed.ncbi.nlm.nih.gov/25007794/" target="_blank" rel="noopener" title="Copy number polymorphisms near SLC2A9 are associated with serum uric acid concentrations.">25007794</a> <a href="https://pubmed.ncbi.nlm.nih.gov/28575649/" target="_blank" rel="noopener" title="Genetic-Variation-Driven Gene-Expression Changes Highlight Genes with Important Functions for Kidney Disease.">28575649</a> </td></tr><tr data-search="gse49557 methylation profiles of human kidney tubules homo sapiens dna methylation 2013"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49557" target="_blank" rel="noopener"><b>GSE49557</b></a></td><td>Methylation profiles of Human kidney tubules</td><td>human</td><td>DNA methylation<span class="n">26 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/24098934/" target="_blank" rel="noopener" title="Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development.">24098934</a> </td></tr><tr data-search="gse48944 gene expression profiles of human kidneys homo sapiens rna / single-cell rna 2013"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE48944" target="_blank" rel="noopener"><b>GSE48944</b></a></td><td>Gene expression profiles of human kidneys</td><td>human</td><td>RNA / single-cell RNA<span class="n">25 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/24098934/" target="_blank" rel="noopener" title="Cytosine methylation changes in enhancer regions of core pro-fibrotic genes characterize kidney fibrosis development.">24098934</a> </td></tr><tr class="yr"><th colspan="5">2011</th></tr><tr data-search="gse30566 transcriptome analysis of human diabetic kidney disease (control glomeruli vs. control tubuli) homo sapiens rna / single-cell rna 2011"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30566" target="_blank" rel="noopener"><b>GSE30566</b></a></td><td>Transcriptome Analysis of Human Diabetic Kidney Disease (Control Glomeruli vs. Control Tubuli)</td><td>human</td><td>RNA / single-cell RNA<span class="n">25 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/21752957/" target="_blank" rel="noopener" title="Transcriptome analysis of human diabetic kidney disease.">21752957</a> </td></tr><tr data-search="gse30529 transcriptome analysis of human diabetic kidney disease (dkd tubuli vs. control tubuli) homo sapiens rna / single-cell rna 2011"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30529" target="_blank" rel="noopener"><b>GSE30529</b></a></td><td>Transcriptome Analysis of Human Diabetic Kidney Disease (DKD Tubuli vs. Control Tubuli)</td><td>human</td><td>RNA / single-cell RNA<span class="n">22 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/21752957/" target="_blank" rel="noopener" title="Transcriptome analysis of human diabetic kidney disease.">21752957</a> </td></tr><tr data-search="gse30528 transcriptome analysis of human diabetic kidney disease (dkd glomeruli vs. control glomeruli) homo sapiens rna / single-cell rna 2011"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30528" target="_blank" rel="noopener"><b>GSE30528</b></a></td><td>Transcriptome Analysis of Human Diabetic Kidney Disease (DKD Glomeruli vs. Control Glomeruli)</td><td>human</td><td>RNA / single-cell RNA<span class="n">22 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/21752957/" target="_blank" rel="noopener" title="Transcriptome analysis of human diabetic kidney disease.">21752957</a> </td></tr><tr data-search="gse30122 transcriptome analysis of human diabetic kidney disease homo sapiens rna / single-cell rna 2011"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30122" target="_blank" rel="noopener"><b>GSE30122</b></a></td><td>Transcriptome Analysis of Human Diabetic Kidney Disease</td><td>human</td><td>RNA / single-cell RNA<span class="n">69 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/21752957/" target="_blank" rel="noopener" title="Transcriptome analysis of human diabetic kidney disease.">21752957</a> <a href="https://pubmed.ncbi.nlm.nih.gov/26190114/" target="_blank" rel="noopener" title="Diet-Induced Podocyte Dysfunction in Drosophila and Mammals.">26190114</a> </td></tr><tr class="yr"><th colspan="5">2010</th></tr><tr data-search="gse12682 expression data from human kidney (hk) samples homo sapiens rna / single-cell rna 2010"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12682" target="_blank" rel="noopener"><b>GSE12682</b></a></td><td>Expression data from Human Kidney (HK) samples</td><td>human</td><td>RNA / single-cell RNA<span class="n">52 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/19277126/" target="_blank" rel="noopener" title="Human and murine kidneys show gender- and species-specific gene expression differences in response to injury.">19277126</a> </td></tr><tr class="yr"><th colspan="5">2009</th></tr><tr data-search="gse12683 expression data from balb/c mice kidney s
57amples mus musculus rna / single-cell rna 2009"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12683" target="_blank" rel="noopener"><b>GSE12683</b></a></td><td>Expression data from Balb/c mice kidney samples</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">20 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/19277126/" target="_blank" rel="noopener" title="Human and murine kidneys show gender- and species-specific gene expression differences in response to injury.">19277126</a> </td></tr><tr class="yr"><th colspan="5">2004</th></tr><tr data-search="gse710 diabetic nephropathy streptozotocin db db mus musculus rna / single-cell rna 2004"><td><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE710" target="_blank" rel="noopener"><b>GSE710</b></a></td><td>diabetic nephropathy streptozotocin db db</td><td>mouse</td><td>RNA / single-cell RNA<span class="n">50 samples</span></td><td class="pm"><a href="https://pubmed.ncbi.nlm.nih.gov/14988265/" target="_blank" rel="noopener" title="Molecular profiling of diabetic mouse kidney reveals novel genes linked to glomerular disease.">14988265</a> </td></tr></tbody></table></div>
58
59  <h2 id="zenodo" class="repo-h">Single-cell objects, histology and supplementary data (Zenodo)</h2>
60  <p class="repo-p">Analysis-ready h5ad objects, whole-slide H&amp;E images, supplementary tables and archived code that accompany our papers, each with a DOI (10 records).</p>
61  <section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/19868428" target="_blank" rel="noopener">Data repository: Spatial atlas of diabetic kidney disease  reveals a B cell-rich subgroup</a></h3><p class="dl-meta">Zenodo · Dataset · 2026 · DOI <a href="https://doi.org/10.5281/zenodo.19868428" target="_blank" rel="noopener">10.5281/zenodo.19868428</a> · 2 files, 8.1 GB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/19868428/files/Diagnosis.xlsx?download=1" rel="noopener">Diagnosis.xlsx</a><span class="fmt">12.2 KB</span></li><li><a href="https://zenodo.org/records/19868428/files/spatial_adata_xenium_cosmx_zenodo.h5ad?download=1" rel="noopener">spatial_adata_xenium_cosmx_zenodo.h5ad</a><span class="fmt">8.1 GB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/18165537" target="_blank" rel="noopener">High-resolution H&amp;E images from the HistoSweep study across multiple tissues and diseases</a></h3><p class="dl-meta">Zenodo · Dataset · 2026 · DOI <a href="https://doi.org/10.5281/zenodo.18165537" target="_blank" rel="noopener">10.5281/zenodo.18165537</a> · 6 files, 11.7 GB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/18165537/files/Artery_Atherosclerosis.zip?download=1" rel="noopener">Artery_Atherosclerosis.zip</a><span class="fmt">5.6 GB</span></li><li><a href="https://zenodo.org/records/18165537/files/Kidney_RCC.zip?download=1" rel="noopener">Kidney_RCC.zip</a><span class="fmt">873.4 MB</span></li><li><a href="https://zenodo.org/records/18165537/files/Kidney_MultiSample_T2D.zip?download=1" rel="noopener">Kidney_MultiSample_T2D.zip</a><span class="fmt">849.5 MB</span></li><li><a href="https://zenodo.org/records/18165537/files/LymphNode_Melanoma.zip?download=1" rel="noopener">LymphNode_Melanoma.zip</a><span class="fmt">68.6 MB</span></li><li><a href="https://zenodo.org/records/18165537/files/Lung_AAH.zip?download=1" rel="noopener">Lung_AAH.zip</a><span class="fmt">901.3 MB</span></li><li><a href="https://zenodo.org/records/18165537/files/Lung_AD.zip?download=1" rel="noopener">Lung_AD.zip</a><span class="fmt">3.4 GB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/17965639" target="_blank" rel="noopener">Spatial Dataset</a></h3><p class="dl-meta">Zenodo · Dataset · 2025 · DOI <a href="https://doi.org/10.5281/zenodo.17965639" target="_blank" rel="noopener">10.5281/zenodo.17965639</a></p><p class="dl-meta">Files are listed on the Zenodo record page (embargoed or restricted at the time of listing).</p><ul class="dl-list"></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/17228449" target="_blank" rel="noopener">Human Kidney T2D and Normal HE</a></h3><p class="dl-meta">
61Zenodo · Image · 2025 · DOI <a href="https://doi.org/10.5281/zenodo.17228449" target="_blank" rel="noopener">10.5281/zenodo.17228449</a> · 1 files, 460.6 MB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/17228449/files/kidney_he.jpg?download=1" rel="noopener">kidney_he.jpg</a><span class="fmt">460.6 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/15007208" target="_blank" rel="noopener">A cross-species single-cell kidney atlas: Data repository</a></h3><p class="dl-meta">Zenodo · Dataset · 2025 · DOI <a href="https://doi.org/10.5281/zenodo.15007208" target="_blank" rel="noopener">10.5281/zenodo.15007208</a> · 12 files, 29.8 GB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/15007208/files/Human_ext_metadata.csv?download=1" rel="noopener">Human_ext_metadata.csv</a><span class="fmt">8.3 KB</span></li><li><a href="https://zenodo.org/records/15007208/files/KRAD31_raw_feature_bc_matrix.h5?download=1" rel="noopener">KRAD31_raw_feature_bc_matrix.h5</a><span class="fmt">16.7 MB</span></li><li><a href="https://zenodo.org/records/15007208/files/KRAD70_raw_feature_bc_matrix.h5?download=1" rel="noopener">KRAD70_raw_feature_bc_matrix.h5</a><span class="fmt">180.2 MB</span></li><li><a href="https://zenodo.org/records/15007208/files/Human_extended.h5ad?download=1" rel="noopener">Human_extended.h5ad</a><span class="fmt">9.1 GB</span></li><li><a href="https://zenodo.org/records/15007208/files/Mouse.h5ad?download=1" rel="noopener">Mouse.h5ad</a><span class="fmt">4.6 GB</span></li><li><a href="https://zenodo.org/records/15007208/files/SISKA_metadata.csv?download=1" rel="noopener">SISKA_metadata.csv</a><span class="fmt">7.5 KB</span></li><li><a href="https://zenodo.org/records/15007208/files/KRAD34_raw_feature_bc_matrix.h5?download=1" rel="noopener">KRAD34_raw_feature_bc_matrix.h5</a><span class="fmt">36.1 MB</span></li><li><a href="https://zenodo.org/records/15007208/files/SISKA.h5ad?download=1" rel="noopener">SISKA.h5ad</a><span class="fmt">8.8 GB</span></li><li><a href="https://zenodo.org/records/15007208/files/Rat.h5ad?download=1" rel="noopener">Rat.h5ad</a><span class="fmt">3 GB</span></li><li><a href="https://zenodo.org/records/15007208/files/KRAD60_raw_feature_bc_matrix.h5?download=1" rel="noopener">KRAD60_raw_feature_bc_matrix.h5</a><span class="fmt">20.6 MB</span></li><li><a href="https://zenodo.org/records/15007208/files/KRAD46_raw_feature_bc_matrix.h5?download=1" rel="noopener">KRAD46_raw_feature_bc_matrix.h5</a><span class="fmt">18 MB</span></li><li><a href="https://zenodo.org/records/15007208/files/Human.h5ad?download=1" rel="noopener">Human.h5ad</a><span class="fmt">4.1 GB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/12768472" target="_blank" rel="noopener">Open4Gene: a hurdle model-based method for peak-to-gene linkage analysis</a></h3><p class="dl-meta">Zenodo · Software · 2024 · DOI <a href="https://doi.org/10.5281/zenodo.12768472" target="_blank" rel="noopener">10.5281/zenodo.12768472</a> · 1 files, 5.9 MB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/12768472/files/hbliu/Open4Gene-v1.0.0.zip?download=1" rel="noopener">hbliu/Open4Gene-v1.0.0.zip</a><span class="fmt">5.9 MB</span></li></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/8189327" target="_blank" rel="noopener">Suppl. Data for ZSF1_RAASi</a></h3><p class="dl-meta">Zenodo · Dataset · 2023 · DOI <a href="https://doi.org/10.5281/zenodo.8189327" target="_blank" rel="noopener">10.5281/zenodo.8189327</a></p><p class="dl-meta">Files are listed on the Zenodo record page (embargoed or restricted at the time of listing).</p><ul class="dl-list"></ul></section><section class="dl-group repo-item"><h3><a href="https://zenodo.org/records/6950236" target="_blank" rel="noopener">Suppl. Data for ZSF1rat sGC</a></h3><p class="dl-meta">Zenodo · Dataset · 2022 · DOI <a href="https://doi.org/10.5281/zenodo.6950236" target="_blank" rel="noopener">10.5281/zenodo.6950236</a> · 21 files, 21.5 MB</p><ul class="dl-list"><li><a href="https://zenodo.org/records/6950236/files/Suppl. Dataset 10__DEGs PT &amp; Stroma Obese vs. Lean.xlsx?download=1" rel="noopener">Suppl. Dataset 10__DEGs PT &amp; Stroma Obese vs. Lean.xlsx</a><span class="fmt">2 MB</span></li><li><a href="https://zenodo.org/records/6950236/files/Suppl. Dataset 09__DEGs PT &amp;
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62
63  <h2 id="supplements" class="repo-h">Supplementary tables and data of the source papers</h2>
64  <p class="repo-p">The 20 papers behind the 30 resources on this site, each with its supplementary tables, supplementary data and source data files (direct downloads from the publisher where available), the free full text at PubMed Central, and the GEO accessions linked to the paper. The supplementary tables often hold the complete result lists (all significant loci, QTLs, differentially expressed genes and cell-type markers) that the browsers summarise.</p>
65  <section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41586-026-10363-4" target="_blank" rel="noopener">Spatial atlas of diabetic kidney disease reveals a B cell-rich subgroup.</a></h3><p class="dl-meta">Bernhard Dumoulin, Jonathan Levinsohn, Konstantin A. Klötzer et al. and Katalin Susztak · Dumoulin et al., Nature 2026 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/42056516/" target="_blank" rel="noopener">42056516</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/samui/from.html?url=susztaklab.com/samui/files/bernard/&amp;s=output_1001&amp;s=output_1003&amp;s=output_1004&amp;s=output_1005&amp;s=output_1006&amp;s=output_1007&amp;s=output_1008&amp;s=output_1009&amp;s=output_1010&amp;s=output_1011&amp;s=output_1012&amp;s=output_1013&amp;s=output_HK2695&amp;s=output_HK2753&amp;s=output_HK3106">Human Single-Cell Spatial Atlas</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM1_ESM.pdf" rel="noopener">Supplementary Figures <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM3_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM5_ESM.zip" rel="noopener">Supplementary Data <span class="fmt">zip</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM7_ESM.xlsx" rel="noopener">Source Data Fig. 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM8_ESM.xlsx" rel="noopener">Source Data Fig. 3 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM9_ESM.xlsx" rel="noopener">Source Data Fig. 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM10_ESM.xlsx" rel="noopener">Source Data Fig. 5 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM11_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 7 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41586-026-10363-4/MediaObjects/41586_2026_10363_MOESM12_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 10 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC13216073/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC13216073) ↗</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1038/s41588-026-02665-0" target="_blank" rel="noopener">Single-cell spatial mapping of human kidney development implicates the microenvironment in guiding cell fate decisions.</a></h3><p class="dl-meta">Jonathan Levinsohn, Samuel Grindel, Bernhard Dumoulin et al. and Katalin Susztak · Levinsohn, Grindel et al., Nature Genetics 2026 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/42533102/" target="_blank" rel="noopener">42533102</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/samui2/from.html?url=susztaklab.com/samui/files/&amp;s=FK1">Human Fetal Kidney Spatial Atlas</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-026-02665-0/MediaObjects/41588_2026_2665_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-026-02665-0/MediaObjects/41588_2026_2665_MOESM3_ESM.html" rel="noopener">Supplementary Data 1 <span class="fmt">html</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-026-02665-0/MediaObjects/41588_2026_2665_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC13447095/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC13447095) ↗</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1681/ASN.0000000995" target="_blank" rel="noopener">Single-Cell Resolution Drug Effects of Renin-Angiotensin-Aldosterone Blockade in ZSF1 Rat Diabetic Kidney Disease.</a></h3><p class="dl-meta">Michael S. Balzer, Jianfu Zhou, Amin Abedini et al. and Katalin Susztak · Balzer et al., J Am Soc Nephrol 2026 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/41563360/" target="_blank" rel="noopener">41563360</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/ZSF1_RAASi">RAAS Inhibition in DKD Atlas</a></p><div class="supp-links"><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC13337198/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC13337198) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE233078" target="_blank" rel="noopener">GSE233078</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1038/s41591-025-03872-8" target="_blank" rel="noopener">The proteogenomic landscape of the human kidney and implications for cardio-kidney-metabolic health.</a></h3><p class="dl-meta">Daigoro Hirohama, João Fadista, Eunji Ha et al. and Katalin Susztak · Hirohama et al., Nature Medicine 2025 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/40796935/" target="_blank" rel="noopener">40796935</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/pl/pQTL">Human Kidney Protein QTL Atlas</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM3_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM4_ESM.xlsx" rel="noopener">Supplementary Data 1 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM5_ESM.xlsx" rel="noopener">Source Data Fig. 1 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM6_ESM.xlsx" rel="noopener">Source Data Fig. 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM7_ESM.xlsx" rel="noopener">Source Data Fig. 3 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM8_ESM.xlsx" rel="noopener">Source Data Fig. 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM9_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM10_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM11_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 7 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-025-03872-8/MediaObjects/41591_2025_3872_MOESM12_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 10 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC12435990/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC12435990) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE211785" target="_blank" rel="noopener">GSE211785</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41588-025-02285-0" target="_blank" rel="noopener">Analysis of individual patient pathway coordination in a cross-species single-cell kidney atlas.<
65/a></h3><p class="dl-meta">Konstantin A. Klötzer, Amin Abedini, Shen Li, Michael S. Balzer et al. and Katalin Susztak · Klötzer et al., Nature Genetics 2025 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/40775269/" target="_blank" rel="noopener">40775269</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/SISKA/mouse">SISKA</a> · <a href="https://data.susztaklab.com/rhge">Rodent–Human Gene Expression Coordination</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM5_ESM.xlsx" rel="noopener">Source Data Fig. 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM6_ESM.xlsx" rel="noopener">Source Data Fig. 5 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM7_ESM.xlsx" rel="noopener">Source Data Fig. 6 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM8_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM9_ESM.xlsx" rel="noopener">Source Data Extended Data Fig. 8 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-025-02285-0/MediaObjects/41588_2025_2285_MOESM10_ESM.xlsx" rel="noopener">Source Data Extended Data Fig.10 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC12415535/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC12415535) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE291551" target="_blank" rel="noopener">GSE291551</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.science.org/doi/10.1126/science.adp4753" target="_blank" rel="noopener">Kidney multiome-based genetic scorecard reveals convergent coding and regulatory variants.</a></h3><p class="dl-meta">Hongbo Liu, Amin Abedini, Eunji Ha, Ziyuan Ma et al. and Katalin Susztak · Liu et al., Science 2025 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/39913582/" target="_blank" rel="noopener">39913582</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/GWAS2M/index.php">eGFR GWAS (2.2 million) and ScoreCard</a></p><div class="supp-links"><a class="supp" href="https://www.science.org/doi/suppl/10.1126/science.adp4753" target="_blank" rel="noopener">Supplementary materials at the journal ↗</a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC12013656/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC12013656) ↗</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1038/s41588-024-01802-x" target="_blank" rel="noopener">Single-cell multi-omic and spatial profiling of human kidneys implicates the fibrotic microenvironment in kidney disease progression.</a></h3><p class="dl-meta">Amin Abedini, Jonathan Levinsohn, Konstantin A. Klötzer et al. and Katalin Susztak · Abedini, Levinsohn et al., Nature Genetics 2024 · PMI
65D <a href="https://pubmed.ncbi.nlm.nih.gov/39048792/" target="_blank" rel="noopener">39048792</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Human_CKD_snATAC/index.php">Human Kidney Disease snATAC-seq</a> · <a href="https://data.susztaklab.com/samui/from.html?url=susztaklab.com/samui/files/&amp;s=sample_HK2671&amp;s=sample_HK2770&amp;s=sample_HK2844&amp;s=sample_HK2852&amp;s=sample_HK2871&amp;s=sample_HK2873&amp;s=sample_HK3035">Human Kidney Spatial Transcriptome</a> · <a href="https://data.susztaklab.com/hk_genemap/scRNA">Single-Cell Transcriptome (Susztak)</a> · <a href="https://data.susztaklab.com/hk_genemap_kpmp/scRNA">Single-Cell Transcriptome (Susztak and KPMP)</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-024-01802-x/MediaObjects/41588_2024_1802_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-024-01802-x/MediaObjects/41588_2024_1802_MOESM3_ESM.xlsx" rel="noopener">Supplementary Tables 1–26 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC11592391/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC11592391) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE211785" target="_blank" rel="noopener">GSE211785</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173343" target="_blank" rel="noopener">GSE173343</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE115098" target="_blank" rel="noopener">GSE115098</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1172/JCI157165" target="_blank" rel="noopener">Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.</a></h3><p class="dl-meta">Amin Abedini, Andrea Sánchez-Navaro, Junnan Wu, Konstantin A. Klötzer et al. and Katalin Susztak · Abedini et al., J Clin Invest 2024 · PMI
65D <a href="https://pubmed.ncbi.nlm.nih.gov/37906287/" target="_blank" rel="noopener">37906287</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/genemap_rat">Rat DOCA gene map</a> · <a href="https://data.susztaklab.com/DOCA_Rat_snATAC">Rat DOCA snATAC-seq (IGV)</a></p><div class="supp-links"><a class="supp" href="https://www.jci.org/articles/view/157165/sd" target="_blank" rel="noopener">Supplementary materials at the journal ↗</a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC10760974/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC10760974) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183842" target="_blank" rel="noopener">GSE183842</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183841" target="_blank" rel="noopener">GSE183841</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183840" target="_blank" rel="noopener">GSE183840</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183839" target="_blank" rel="noopener">GSE183839</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://doi.org/10.1681/ASN.0000000000000217" target="_blank" rel="noopener">Unified Mouse and Human Kidney Single-Cell Expression Atlas Reveal Commonalities and Differences in Disease States.</a></h3><p class="dl-meta">Jianfu Zhou, Amin Abedini, Michael S. Balzer et al. and Katalin Susztak · Zhou et al., J Am Soc Nephrol 2023 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/37639336/" target="_blank" rel="noopener">37639336</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Mouse_scRNA_Atlas/index.php">Mouse Kidney scRNA-seq Atlas</a></p><div class="supp-links"><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC10631616/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC10631616) ↗</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.sciencedirect.com/science/article/pii/S2666379123000988" target="_blank" rel="noopener">Treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution.</a></h3><p class="dl-meta">Michael S. Balzer, Mira Pavkovic, Julia Frederick, Amin Abedini et al. and Katalin Susztak · Balzer et al., Cell Reports Medicine 2023 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/37023747/" target="_blank" rel="noopener">37023747</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/ZSF1_sGC_snRNA/index.php">Rat DKD snRNA-seq (UMAP)</a></p><div class="supp-links"><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC10140477/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC10140477) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE209821" target="_blank" rel="noopener">GSE209821</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41467-022-31772-9" target="_blank" rel="noopener">Single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration.</a></h3><p class="dl-meta">Michael S. Balzer, Tomohito Doke, Ya-Wen Yang, Daniel L. Aldridge, Hailong Hu, Hung Mai, Dhanunjay Mukhi, Ziyuan Ma, Rojesh Shrestha, Matthew B. Palmer, Christopher A. Hunter and Katalin Susztak · Balzer et al., Nature Communications 2022 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/35821371/" target="_blank" rel="noopener">35821371</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Mouse_IRI_scRNA/index.php">Mouse Kidney IRI scRNA-seq</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM4_ESM.xlsx" rel="noopener">Supplementary Dataset 1 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM5_ESM.xlsx" rel="noopener">Supplementary Dataset 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM6_ESM.xlsx" rel="noopener">Supplementary Dataset 3 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM7_ESM.xlsx" rel="noopener">Supplementary Dataset 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM8_ESM.xlsx" rel="noopener">Supplementary Dataset 5 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM9_ESM.xlsx" rel="noopener">Supplementary Dataset 6 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM10_ESM.xlsx" rel="noopener">Supplementary Dataset 7 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM11_ESM.xlsx" rel="noopener">
65Supplementary Dataset 8 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM12_ESM.xlsx" rel="noopener">Supplementary Dataset 9 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM13_ESM.xlsx" rel="noopener">Supplementary Dataset 10 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM14_ESM.xlsx" rel="noopener">Supplementary Dataset 11 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM15_ESM.xlsx" rel="noopener">Supplementary Dataset 12 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM16_ESM.xlsx" rel="noopener">Supplementary Dataset 13 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM17_ESM.xlsx" rel="noopener">Supplementary Dataset 14 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM18_ESM.xlsx" rel="noopener">Supplementary Dataset 15 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-022-31772-9/MediaObjects/41467_2022_31772_MOESM19_ESM.xlsx" rel="noopener">Supplementary Dataset 16 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC9276703/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC9276703) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE180420" target="_blank" rel="noopener">GSE180420</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41588-022-01097-w" target="_blank" rel="noopener">Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease.</a></h3><p class="dl-meta">Hongbo Liu, Tomohito Doke, Dong Guo, Xin Sheng, Ziyuan Ma, Joseph Park, Ha My T. Vy, Girish N. Nadkarni, Amin Abedini, Zhen Miao, Matthew Palmer, Benjamin F. Voight, Hongzhe Li, Christopher D. Brown, Marylyn D. Ritchie, Yan Shu and Katalin Susztak · Liu et al., Nature Genetics 2022 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/35710981/" target="_blank" rel="noopener">35710981</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/GWAS/index.php">eGFRcrea GWAS</a> · <a href="https://data.susztaklab.com/Kidney_eQTL/eQTLmeta.php">Kidney eQTL</a> · <a href="https://data.susztaklab.com/Kidney_meQTL/index.php">Kidney meQTL</a> · <a href="https://data.susztaklab.com/Human_snATAC/index.php">Kidney snATAC-seq</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-022-01097-w/MediaObjects/41588_2022_1097_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-022-01097-w/MediaObjects/41588_2022_1097_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-022-01097-w/MediaObjects/41588_2022_1097_MOESM5_ESM.pdf" rel="noopener">Source Data Fig. 8 <span class="fmt">pdf</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC11626562/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC11626562) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE200547" target="_blank" rel="noopener">GSE200547</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41590-022-01200-7" target="_blank" rel="noopener">Single-cell analysis identifies the interaction of altered renal tubules with basophils orchestrating kidney fibrosis.</a></h3><p class="dl-meta">Tomohito Doke, Amin Abedini, Daniel L. Aldridge, Ya-Wen Yang, Jihwan Park, Christina M. Hernandez, Michael S. Balzer, Rojesh Shrestha, Gaia Coppock, Juan M. Inclan Rico, Seung Yub Han, Xin Sheng, Adrian M. Piliponsky, Marco Angelozzi, Veronique Lefebvre, Mark C. Siracusa, Christopher A. Hunter and Katalin Susztak · Doke et al., Nature Immunology 2022 · PMI
65D <a href="https://pubmed.ncbi.nlm.nih.gov/35552540/" target="_blank" rel="noopener">35552540</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/EH/doke/">Mouse UUO scRNA-seq</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41590-022-01200-7/MediaObjects/41590_2022_1200_MOESM1_ESM.pdf" rel="noopener">Supplementary Figs. 1–10 <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41590-022-01200-7/MediaObjects/41590_2022_1200_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables 1–8 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC11783796/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC11783796) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE182256" target="_blank" rel="noopener">GSE182256</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41467-021-22266-1" target="_blank" rel="noopener">Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets.</a></h3><p class="dl-meta">Zhen Miao, Michael S. Balzer, Ziyuan Ma, Hongbo Liu, Junnan Wu, Rojesh Shrestha, Tamas Aranyi, Amy Kwan, Ayano Kondo, Marco Pontoglio, Junhyong Kim, Mingyao Li, Klaus H. Kaestner and Katalin Susztak · Miao, Balzer et al., Nature Communications 2021 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/33859189/" target="_blank" rel="noopener">33859189</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/developing_adult_kidney/scRNA/">Developing Kidney scRNA-seq</a> · <a href="https://data.susztaklab.com/developing_adult_kidney/igv/">Developing Kidney snATAC-seq (IGV)</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM4_ESM.xlsx" rel="noopener">Supplementary Data 1 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM5_ESM.xlsx" rel="noopener">Supplementary Data 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM6_ESM.xlsx" rel="noopener">Supplementary Data 3 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM7_ESM.xlsx" rel="noopener">Supplementary Data 4 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM8_ESM.csv" rel="noopener">Supplementary Data 5 <span class="fmt">csv</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM9_ESM.xlsx" rel="noopener">Supplementary Data 6 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM10_ESM.xlsx" rel="noopener">Supplementary Data 7 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM11_ESM.xlsx" rel="noopener">Supplementary Data 8 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM12_ESM.xlsx" rel="noopener">Supplementary Data 9 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM13_ESM.xlsx" rel="noopener">Supplementary Data 10 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM14_ESM.xlsx" rel="noopener">Supplementary Data 11 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM15_ESM.xlsx" rel="noopener">Supplementary Data 12 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM16_ESM.xlsx" rel="noopener">Supplementary Data 13 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM17_ESM.xlsx" rel="noopener">Supplementary Data 14 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM18_ESM.xlsx" rel="noopener">Supplementary Data 15 <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41467-021-22266-1/MediaObjects/41467_2021_22266_MOESM19_ESM.xlsx" rel="noopener">Supplementary Data 16 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC8050063/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC8050063) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157079" target="_blank" rel="noopener">GSE157079</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41588-021-00909-9" target="_blank" rel="noopener">Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments.</a></h3><p class="dl-meta">Xin Sheng, Yuting Guan, Ziyuan Ma, Junnan Wu, Hongbo Liu, Chengxiang Qiu, Steven Vitale, Zhen Miao, Matthew J. Seasock, Matthew Palmer, Myung K. Shin, Kevin L. Duffin, Steven S. Pullen, Todd L. Edwards, Jacklyn N. Hellwege, Adriana M. Hung, Mingyao Li, Benjamin F. Voight, Thomas M. Coffman, Christopher D. Brown and Katalin Susztak · Sheng et al., Nature Genetics 2021 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/34385711/" target="_blank" rel="noopener">34385711</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Kidney_eQTL/index.php">Kidney eQTL atlases</a> · <a href="https://data.susztaklab.com/human_kidney/igv/">Kidney snATAC-seq (IGV)</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-021-00909-9/MediaObjects/41588_2021_909_MOESM1_ESM.pdf" rel="noopener">Supplementary Information <span class="fmt">pdf</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-021-00909-9/MediaObjects/41588_2021_909_MOESM4_ESM.xlsx" rel="noopener">Supplementary Tables <span class="fmt">xlsx</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-021-00909-9/MediaObjects/41588_2021_909_MOESM5_ESM.tif" rel="noopener">Source Data Fig. 2 <span class="fmt">tif</span></a><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41588-021-00909-9/MediaObjects/41588_2021_909_MOESM6_ESM.xlsx" rel="noopener">Source Data Fig. 2 <span class="fmt">xlsx</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC9338440/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC9338440) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173343" target="_blank" rel="noopener">GSE173343</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE172008" target="_blank" rel="noopener">GSE172008</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.sciencedirect.com/science/article/pii/S1550413120306069" target="_blank" rel="noopener">The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation.</a></h3><p class="dl-meta">Poonam Dhillon, Jihwan Park, Carmen Hurtado Del Pozo, Lingzhi Li, Tomohito Doke, Shizheng Huang, Juanjuan Zhao, Hyun Mi Kang, Rojesh Shrestha, Michael S. Balzer, Shatakshee Chatterjee, Patricia Prado, Seung Yub Han, Hongbo Liu, Xin Sheng, Pieterjan Dierickx, Kirill Batmanov, Juan P. Romero, Felipe Prósper, Mingyao Li, Liming Pei, Junhyong Kim, Nuria Montserrat and Katalin Susztak · Dhillon, Park et al., Cell Metabolism 2021 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/33301705/" target="_blank" rel="noopener">33301705</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/EH/dhillon/">Mouse Folic Acid Nephropathy scRNA-seq</a></p><div class="supp-links"><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC9259369/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC9259369) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE156686" target="_blank" rel="noopener">GSE156686</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE152765" target="_blank" rel="noopener">GSE152765</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.pnas.org/doi/10.1073/pnas.2005905117" target="_blank" rel="noopener">Systematic integrated analysis of genetic and epigenetic variation in diabetic kidney disease.</a></h3><p class="dl-meta">Xin Sheng, Chengxiang Qiu, Hongbo Liu, Caroline Gluck, Jesse Y. Hsu, Jiang He, Chi-Yuan Hsu, Daohang Sha, Matthew R. Weir, Tamara Isakova, Dominic Raj, Hernan Rincon-Choles, Harold I. Feldman, Raymond Townsend, Hongzhe Li and Katalin Susztak · Sheng et al., PNAS 2020 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/33144501/" target="_blank" rel="noopener">33144501</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/mqtl/">Human Blood mQTL Atlas</a></p><div class="supp-links"><a class="supp" href="https://www.pnas.org/doi/suppl/10.1073/pnas.2005905117" target="_blank" rel="noopener">Supplementary materials at the journal ↗</a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC7682409/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC7682409) ↗</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.nature.com/articles/s41591-018-0194-4" target="_blank" rel="noopener">Renal compartment-specific genetic variation analyses identify new pathways in chronic kidney disease.</a></h3><p class="dl-meta">Chengxiang Qiu, Shizheng Huang, Jihwan Park, YoSon Park, Yi-An Ko, Matthew J. Seasock, Joshua S. Bryer, Xiang-Xi Xu, Wen-Chao Song, Matthew Palmer, Jon Hill, Paolo Guarnieri, Julie Hawkins, Carine M. Boustany-Kari, Steven S. Pullen, Christopher D. Brown and Katalin Susztak · Qiu et al., Nature Medicine 2018 · PMI
65D <a href="https://pubmed.ncbi.nlm.nih.gov/30275566/" target="_blank" rel="noopener">30275566</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Kidney_eQTL/beQTL.php">Kidney eQTL (bulk)</a></p><div class="supp-links"><a class="supp" href="https://media.springernature.com/original/springer-static/esm/art%3A10.1038%2Fs41591-018-0194-4/MediaObjects/41591_2018_194_MOESM1_ESM.pdf" rel="noopener">Supplementary Text and Figures Supplementary Figures 1–9 and Supplementary Tables 1–4 <span class="fmt">pdf</span></a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC6301011/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC6301011) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE115098" target="_blank" rel="noopener">GSE115098</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.science.org/doi/10.1126/science.aar2131" target="_blank" rel="noopener">Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease.</a></h3><p class="dl-meta">Jihwan Park, Rojesh Shrestha, Chengxiang Qiu, Ayano Kondo, Shizheng Huang, Max Werth, Mingyao Li, Jonathan Barasch and Katalin Susztak · Park et al., Science 2018 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/29622724/" target="_blank" rel="noopener">29622724</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/EH/park">Mouse Kidney scRNA-seq Atlas (UMAP)</a></p><div class="supp-links"><a class="supp" href="https://www.science.org/doi/suppl/10.1126/science.aar2131" target="_blank" rel="noopener">Supplementary materials at the journal ↗</a><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC6188645/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC6188645) ↗</a><a class="supp" href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE107585" target="_blank" rel="noopener">GSE107585</a></div></section><section class="dl-group repo-item supp-item"><h3><a href="https://www.sciencedirect.com/science/article/pii/S2352396417303675" target="_blank" rel="noopener">Human kidney tubule-specific gene expression based dissection of chronic kidney disease traits.</a></h3><p class="dl-meta">Pazit Beckerman, Chengxiang Qiu, Jihwan Park, Nora Ledo, Yi-An Ko, Ae-Seo Deok Park, Sang-Youb Han, Peter Choi, Matthew Palmer and Katalin Susztak · Beckerman et al., EBioMedicine 2017 · PMID <a href="https://pubmed.ncbi.nlm.nih.gov/28970079/" target="_blank" rel="noopener">28970079</a></p><p class="dl-meta">Resources on this site: <a href="https://data.susztaklab.com/Kidney_Fibrosis/index.php">Bulk Expression and Disease Correlation</a></p><div class="supp-links"><a class="supp" href="https://pmc.ncbi.nlm.nih.gov/articles/PMC5652292/" target="_blank" rel="noopener">Free full text and supplements (PubMed Central PMC5652292) ↗</a></div></section>
66
67  <h2 id="gwascatalog" class="repo-h">GWAS Catalog accessions</h2>
68  <p class="repo-p">Study accessions in the NHGRI-EBI GWAS Catalog for genome-wide association studies from the laboratory and its consortia; the catalog provides harmonised summary statistics where available.</p>
69  <ul class="dl-list plain"><li><span><a href="https://www.ebi.ac.uk/gwas/studies/GCST90100220" target="_blank" rel="noopener"><b>GCST90100220</b></a> — eGFRcrea GWAS, 1.5 million individuals (European and East Asian ancestry) — full summary statistics · cite <a href="https://www.nature.com/articles/s41588-022-01097-w" target="_blank" rel="noopener">Liu et al., Nature Genetics 2022</a></span></li><li><span><a href="https://www.ebi.ac.uk/gwas/studies/GCST008747" target="_blank" rel="noopener"><b>GCST008747</b></a> — eGFR GWAS, Million Veteran Program (Hellwege et al., Nature Communications 2019), combined</span></li><li><span><a href="https://www.ebi.ac.uk/gwas/studies/GCST008745" target="_blank" rel="noopener"><b>GCST008745</b></a> — eGFR GWAS, Million Veteran Program, non-diabetic individuals</span></li><li><span>
69<a href="https://www.ebi.ac.uk/gwas/studies/GCST008746" target="_blank" rel="noopener"><b>GCST008746</b></a> — eGFR GWAS, Million Veteran Program, individuals with diabetes</span></li></ul>
70
71  <h2 id="code" class="repo-h">Analysis code</h2>
72  <p class="repo-p">Methods developed for these datasets, on GitHub with archived releases on Zenodo.</p>
73  <div class="grid ext-grid"><a class="ext-card" href="https://github.com/hbliu/Open4Gene" target="_blank" rel="noopener"><h3>Open4Gene <span class="arrow">↗</span></h3><p>Hurdle-model method for peak-to-gene linkage in single-nucleus multiome data (Liu et al., Science 2025). Archived at Zenodo 10.5281/zenodo.12768472.</p><div class="tags"><span class="tag">R</span><span class="tag">snATAC</span><span class="tag">multiome</span></div><span class="host">github.com</span></a><a class="ext-card" href="https://github.com/hbliu/Kidney_Epi_Pri" target="_blank" rel="noopener"><h3>Kidney_Epi_Pri <span class="arrow">↗</span></h3><p>Kidney epigenome- and transcriptome-based multi-stage prioritization pipeline (Liu et al., Nature Genetics 2022). Archived at Zenodo 10.5281/zenodo.6392494.</p><div class="tags"><span class="tag">prioritization</span><span class="tag">GWAS</span><span class="tag">eQTL</span></div><span class="host">github.com</span></a><a class="ext-card" href="https://github.com/hbliu/QDMR" target="_blank" rel="noopener"><h3>QDMR <span class="arrow">↗</span></h3><p>Quantitative differentially methylated region calling for bisulfite sequencing data.</p><div class="tags"><span class="tag">DNA methylation</span></div><span class="host">github.com</span></a><a class="ext-card" href="https://github.com/hbliu/SMART2" target="_blank" rel="noopener"><h3>SMART2 <span class="arrow">↗</span></h3><p>Specific Methylation Analysis and Report Tool for bisulfite sequencing platforms.</p><div class="tags"><span class="tag">DNA methylation</span></div><span class="host">github.com</span></a></div>
74</section>
75<p class="pub-foot">Repository inventories retrieved September 2026 from the GEO, figshare, Zenodo and GWAS Catalog APIs. Missing something you need? Write to <a href="mailto:[email protected]">[email protected]</a>.</p>
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97<script id="catalog" type="application/json">{"datasets": [{"title": "eGFR GWAS (2.2 million) and ScoreCard", "category": "Human genetics and QTL atlases", "tags": ["Human", "GWAS", "Browser"], "note": "Meta-analysis of kidney function in more than 2.2 million individuals, with a variant-to-gene ScoreCard.", "url": "https://data.susztaklab.com/GWAS2M/index.php", "papers": [{"label": "Liu et al., Science 2025", "url": "https://www.science.org/doi/10.1126/science.adp4753"}]}, {"title": "eGFR GWAS (1.5 million) and Prioritization", "category": "Human genetics and QTL atlases", "tags": ["Human", "GWAS", "Browser"], "note": "eGFRcrea meta-analysis with target gene prioritization.", "url": "https://data.susztaklab.com/GWAS/index.php", "papers": [{"label": "Liu et al., Nature Genetics 2022", "url": "https://www.nature.com/articles/s41588-022-01097-w"}]}, {"title": "Human Kidney Expression QTL Atlases", "category": "Human genetics and QTL atlases", "tags": ["Human", "eQTL", "Browser"], "note": "Bulk, compartment-specific, cell-fraction and cell-type-interaction eQTLs.", "url": "https://data.susztaklab.com/Kidney_eQTL/index.php", "papers": [{"label": "Qiu et al., Nature Medicine 2018", "url": "https://www.nature.com/articles/s41591-018-0194-4"}, {"label": "Sheng et al., Nature Genetics 2021", "url": "https://www.nature.com/articles/s41588-021-00909-9"}, {"label": "Liu et al., Nature Genetics 2022", "url": "https://www.nature.com/articles/s41588-022-01097-w"}]}, {"title": "Human Kidney Protein QTL Atlas", "category": "Human genetics and QTL atlases", "tags": ["Human", "pQTL", "Browser"], "note": "Proteogenomic landscape of the human kidney and cardio-kidney-metabolic health.", "url": "https://data.susztaklab.com/pl/pQTL", "papers": [{"label": "Hirohama et al., Nature Medicine 2025", "url": "https://doi.org/10.1038/s41591-025-03872-8"}]}, {"title": "Human Kidney Single-Nucleus Multiome QTL Atlas", "category": "Human genetics and QTL atlases", "tags": ["Human", "snMultiome", "eQTL", "caQTL", "Browser"], "note": "Cell-type-resolved expression and chromatin accessibility QTLs (eQTL and caQTL) from single-nucleus multiome profiling of 94 human kidneys, with fine-mapping and colocalization with kidney function GWAS.", "url": "https://35.255.159.98.sslip.io/kidney-snmultiome", "papers": [{"label": "Pan et al., manuscript under review (2026)", "url": null}]}, {"title": "Human Kidney Methylation QTL Atlas", "category": "Human genetics and QTL atlases", "tags": ["Human", "meQTL", "Browser"], "note": "Cytosine methylation quantitative trait loci in human kidney tissue.", "url": "https://data.susztaklab.com/Kidney_meQTL/index.php", "papers": [{"label": "Liu et al., Nature Genetics 2022", "url": "https://www.nature.com/articles/s41588-022-01097-w"}]}, {"title": "Human Blood (CRIC) Methylation QTL Atlas", "category": "Human genetics and QTL atlases", "tags": ["Human", "mQTL", "Browser"], "note": "Whole-blood mQTLs from the Chronic Renal Insufficiency Cohort.", "url": "https://data.susztaklab.com/mqtl/", "papers": [{"label": "Sheng et al., PNAS 2020", "url": "https://www.pnas.org/doi/10.1073/pnas.2005905117"}]}, {"title": "Human Kidney Bulk Gene Expression and Disease Correlation", "category": "Human genetics and QTL atlases", "tags": ["Human", "Bulk RNA-seq", "Browser"], "note": "Tubule and glomerular expression correlated with eGFR and fibrosis.", "url": "https://data.susztaklab.com/Kidney_Fibrosis/index.php", "papers": [{"label": "Beckerman et al., EBioMedicine 2017", "url": "https://www.sciencedirect.com/science/article/pii/S2352396417303675"}]}, {"title": "Human Kidney snATAC-seq (Version 1)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "snATAC-seq", "IGV"], "note": "12,720 nuclei; 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"note": "Regulatory landscape of the developing mouse kidney.", "url": "https://data.susztaklab.com/developing_adult_kidney/igv/", "papers": [{"label": "Miao, Balzer et al., Nature Communications 2021", "url": "https://www.nature.com/articles/s41467-021-22266-1"}]}, {"title": "scRNA-seq of Mouse Acute Kidney Injury (IRI)", "category": "Mouse models", "tags": ["Mouse", "Injury", "scRNA-seq"], "note": "Adaptive versus fibrotic regeneration after ischemia-reperfusion injury.", "url": "https://data.susztaklab.com/Mouse_IRI_scRNA/index.php", "papers": [{"label": "Balzer et al., Nature Communications 2022", "url": "https://www.nature.com/articles/s41467-022-31772-9"}]}, {"title": "scRNA-seq of Mouse Kidney Fibrosis (UUO)", "category": "Mouse models", "tags": ["Mouse", "Fibrosis", "scRNA-seq"], "note": "Tubule-basophil interactions orchestrating kidney fibrosis.", "url": "https://data.susztaklab.com/EH/doke/", "papers": [{"label": "Doke et al., Nature Immunology 2022", "url": 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Diabetic Kidney Disease snRNA-seq (ZSF1, UMAP)", "category": "Rat models", "tags": ["Rat", "Diabetes", "snRNA-seq", "UMAP"], "note": "Soluble guanylate cyclase activation in the ZSF1 rat.", "url": "https://data.susztaklab.com/ZSF1_sGC_snRNA/index.php", "papers": [{"label": "Balzer et al., Cell Reports Medicine 2023", "url": "https://www.sciencedirect.com/science/article/pii/S2666379123000988"}]}, {"title": "NIDDK Central Repository", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Cohorts", "Biosamples", "Controlled access"], "note": "The NIH repository for clinical data and biosamples from NIDDK-funded kidney studies; request access to CRIC, NEPTUNE, CureGN, AASK, MDRD and others in one place.", "url": "https://repository.niddk.nih.gov/home", "papers": []}, {"title": "CRIC, Chronic Renal Insufficiency Cohort", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Cohort", "CKD", "Controlled access"], "note": "Longitudinal cohort of about 5,500 adults with CKD: phenotypes, outcomes, genotypes, proteomics and metabolomics; the source of our blood methylation atlas.", "url": "https://repository.niddk.nih.gov/studies/cric/", "papers": []}, {"title": "NEPTUNE, Nephrotic Syndrome Study Network", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Cohort", "Glomerular disease", "Biopsy"], "note": "Biopsy-based cohort of nephrotic syndrome (FSGS, MCD, membranous) with transcriptomics, digital pathology and outcomes; companion eQTLs are at NephQTL.", "url": "https://repository.niddk.nih.gov/studies/neptune/", "papers": []}, {"title": "CureGN, Cure Glomerulonephropathy", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Cohort", "Glomerular disease", "Biopsy"], "note": "Prospective cohort of more than 2,400 children and adults with biopsy-proven IgA nephropathy, FSGS, MCD and membranous nephropathy.", "url": "https://repository.niddk.nih.gov/studies/curegn_prime/", "papers": []}, {"title": "Kidney Precision Medicine Project (KPMP)", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Consortium", "Biopsy", "Atlas"], "note": "NIDDK consortium c
97ollecting research biopsies from people with CKD and AKI; the Kidney Tissue Atlas below holds the molecular data.", "url": "https://www.kpmp.org/", "papers": []}, {"title": "(Re)Building a Kidney (RBK)", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Consortium", "Development", "Regeneration"], "note": "NIDDK consortium on kidney development, repair and regeneration, with organoid, imaging and single-cell data.", "url": "https://www.rebuildingakidney.org/", "papers": []}, {"title": "United States Renal Data System (USRDS)", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Epidemiology", "Registry"], "note": "National surveillance system for CKD and kidney failure in the United States: incidence, prevalence, treatment and cost, with an annual data report and researcher data requests.", "url": "https://usrds.org/", "papers": []}, {"title": "dkNET", "category": "External resource (not hosted here): NIH kidney cohorts and consortia", "tags": ["Directory"], "note": "NIDDK's information network that catalogues data repositories, tools and resources for kidney, urologic and metabolic research.", "url": "https://dknet.org/", "papers": []}, {"title": "CKDGen Consortium", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Summary statistics"], "note": "Meta-analysis summary statistics for eGFR, CKD, albuminuria, urate and related kidney traits from the CKDGen consortium.", "url": "https://ckdgen.imbi.uni-freiburg.de/datasets/", "papers": []}, {"title": "Million Veteran Program (MVP)", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Multi-ancestry"], "note": "Genome-wide PheWAS and GWAS results from the VA Million Veteran Program, including kidney function traits; summary statistics are released through dbGaP.", "url": "https://www.mvp.va.gov/pwa/discover-mvp-data", "papers": []}, {"title": "Knowledge Portal Network (Broad Institute)", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Portal"], "note": "The Broad Institute's family of knowledge portals (CMDKP and others) that integrate GWAS datasets, including CKDGen, UK Biobank and MVP kidney traits, with gene-level and variant-level views.", "url": "https://kp4cd.org/", "papers": []}, {"title": "Common Metabolic Diseases Knowledge Portal", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Portal"], "note": "Aggregated genetic association results for metabolic and kidney traits, with PheWAS, gene prioritization and fine-mapping tools.", "url": "https://cmdkp.org/", "papers": []}, {"title": "FinnGen", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Biobank"], "note": "GWAS results for thousands of disease endpoints, including kidney diseases, from the Finnish biobank study; browsable summary statistics for each release.", "url": "https://www.finngen.fi/en/access_results", "papers": []}, {"title": "GWAS Catalog (EMBL-EBI)", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Catalogue"], "note": "The curated catalogue of published genome-wide association studies and summary statistics.", "url": "https://www.ebi.ac.uk/gwas/", "papers": []}, {"title": "Open Targets Genetics", "category": "External resource (not hosted here): Human genetics and GWAS", "tags": ["GWAS", "Variant to gene"], "note": "Variant-to-gene mapping, colocalization and locus-to-gene scores across GWAS and molecular QTL studies.", "url": "https://genetics.opentargets.org/", "papers": []}, {"title": "GTEx Portal", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["eQTL", "Bulk RNA-seq"], "note": "Genotype-Tissue Expression project: bulk expression, eQTLs and sQTLs across human tissues, including kidney cortex.", "url": "https://gtexportal.org/", "papers": []}, {"title": "eQTLGen", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["eQTL", "Blood"], "note": "Blood cis- and trans-eQTLs from more than 30,000 individuals.", "url": "https://www.eqtlgen.org/", "papers": []}, {"title": "NephQTL", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["eQTL", "Kidney biopsy"], "note": "Glomerular and tubulointerstitial eQTLs from NEPTUNE kidney biopsies.", "url": "https://nephqtl.org/", "papers": []}, {"title": "UK Biobank Pharma Proteomics Project (UKB-PPP)", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["pQTL", "Plasma"], "note": "Plasma proteomic pQTL summary statistics for about 3,000 proteins measured in more than 50,000 UK Biobank participants.", "url": "https://registry.opendata.aws/ukbppp/", "papers": []}, {"title": "deCODE plasma proteomics", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["pQTL", "Plasma"], "note": "Plasma pQTL summary data for 4,907 aptamers in 35,559 Icelanders.", "url": "https://www.decode.com/summarydata/", "papers": []}, {"title": "Nephroseq", "category": "External resource (not hosted here): Expression, QTL and proteomics", "tags": ["Bulk RNA-seq", "Disease cohorts"], "note": "Curated kidney transcriptomic datasets with a query interface for gene expression across disease cohorts.", "url": "https://www.nephroseq.org/", "papers": []}, {"title": "KPMP Kidney Tissue Atlas", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Single-cell", "Spatial", "Human"], "note": "Kidney Precision Medicine Project: single-cell, single-nucleus, spatial and imaging data from biopsies of healthy and diseased human kidneys.", "url": "https://atlas.kpmp.org/", "papers": []}, {"title": "HuBMAP Data Portal", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Single-cell", "Spatial"], "note": "Human BioMolecular Atlas Program: multi-modal single-cell and spatial data, including kidney, with a common coordinate framework.", "url": "https://portal.hubmapconsortium.org/", "papers": []}, {"title": "CZ CELLxGENE Discover", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Single-cell", "Browser"], "note": "Standardized, browsable single-cell datasets, including many kidney studies, with gene expression and cell-type queries.", "url": "https://cellxgene.cziscience.com/", "papers": []}, {"title": "Human Cell Atlas", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Single-cell"], "note": "Data portal of the Human Cell Atlas consortium.", "url": "https://data.humancellatlas.org/", "papers": []}, {"title": "Kidney Interactive Transcriptomics (Humphreys lab)", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Single-cell", "Mouse", "Human"], "note": "Interactive single-cell and single-nucleus kidney datasets from mouse and human injury and disease models.", "url": "https://humphreyslab.com/SingleCell/", "papers": []}, {"title": "GUDMAP", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Development", "Imaging"], "note": "GenitoUrinary Development Molecular Anatomy Project: expression, imaging and single-cell data on kidney and urinary tract development.", "url": "https://www.gudmap.org/", "papers": []}, {"title": "ENCODE", "category": "External resource (not hosted here): Single-cell, spatial and epigenome atlases", "tags": ["Epigenome", "Chromatin"], "note": "Encyclopedia of DNA Elements: chromatin accessibility, histone marks and transcription factor binding across tissues and cell types, including kidney.", "url": "https://www.encodeproject.org/", "papers": []}, {"title": "GSE306009: ACLY-driven metabolic reprogramming promotes histone acetylation and inflammation-associated fibrosis in chronic kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2026"], "note": "6 samples, released 2026/07/15.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE306009", "papers": [{"label": "PubMed 41990244", "url": "https://pubmed.ncbi.nlm.nih.gov/41990244/"}]}, {"title": "GSE319933: Bulk RNA-seq profiling of primary mouse tubular epithelial cells following AdvCre-mediated ELF3 deletion under TNFα and IFNγ stimulation", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2026"], "note": "6 samples, released 2026/06/16.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319933", "papers": []}, {"title": "GSE319877: Transcriptomic profiling of human RPTECs following TNFα and IFNγ stimulation at early and late time points", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2026"], "note": "20 samples, released 2026/06/16.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319877", "papers": []}, {"title": "GSE319848: CUT&RUN profiling of ELF3 and NFKB2 binding landscapes in primary mouse tubular epithelial cells under TNFα and IFNγ stimulation", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2026"], "note": "2 samples, released 2026/06/16.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE319848", "papers": []}, {"title": "GSE278614: Single-Cell Spatial Mapping of Human Kidney Development Reveals Cellular Niches and Lineage Dynamics [CosMx]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "spatial / other", "2026"], "note": "3 samples, released 2026/04/22.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE278614", "papers": []}, {"title": "GSE297989: HNF1B integrates signals in a feed-forward loop driving kidney disease progression [RNAseq_UUOd1]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2026"], "note": "8 samples, released 2026/04/21.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297989", "papers": [{"label": "PubMed 41990178", "url": "https://pubmed.ncbi.nlm.nih.gov/41990178/"}]}, {"title": "GSE297988: HNF1B integrates signals in a feed-forward loop driving kidney disease progression [RNAseq_P60d2]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2026"], "note": "8 samples, released 2026/04/21.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297988", "papers": [{"label": "PubMed 41990178", "url": "https://pubmed.ncbi.nlm.nih.gov/41990178/"}]}, {"title": "GSE297987: HNF1B integrates signals in a feed-forward loop driving kidney disease progression [ChIPseq_Hnf1b]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2026"], "note": "5 samples, released 2026/04/21.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297987", "papers": [{"label": "PubMed 41990178", "url": "https://pubmed.ncbi.nlm.nih.gov/41990178/"}]}, {"title": "GSE233078: Single-cell resolution drug effects on renin-angiotensin-aldosterone blockade in ZSF1 rat diabetic kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "RNA / single-cell RNA", "2026"], "note": "11 samples, released 2026/01/12.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE233078", "papers": [{"label": "PubMed 41563360", "url": "https://pubmed.ncbi.nlm.nih.gov/41563360/"}]}, {"title": "GSE283166: Cell-specific Inducible Human APOL1 Risk Variant Expression Cause Hypertension and Renal Damage", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2025"], "note": "6 samples, released 2025/12/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE283166", "papers": [{"label": "PubMed 41376591", "url": "https://pubmed.ncbi.nlm.nih.gov/41376591/"}]}, {"title": "GSE291551: Analysis of individual patient pathway coordination in a cross-species single-cell kidney atlas ", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human; mouse", "RNA / single-cell RNA", "2025"], "note": "11 samples, released 2025/06/23.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE291551", "papers": [{"label": "PubMed 40775269", "url": "https://pubmed.ncbi.nlm.nih.gov/40775269/"}]}, {"title": "GSE273027: Germline TET2 variants contribute to the pathogenesis of kidney disease through impaired DNA damage repair and the activation of cytosolic nucleotide sensors", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human; mouse", "RNA / single-cell RNA", "2024"], "note": "6 samples, released 2024/09/13.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE273027", "papers": []}, {"title": "GSE223777: Transcriptomic analysis of Pepck-Vpr mouse kidney", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2024"], "note": "4 samples, released 2024/06/12.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE223777", "papers": [{"label": "PubMed 39032602", "url": "https://pubmed.ncbi.nlm.nih.gov/39032602/"}]}, {"title": "GSE243871: Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human;
97 mouse", "RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&RUN)", "2024"], "note": "28 samples, released 2024/05/27.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243871", "papers": [{"label": "PubMed 39009564", "url": "https://pubmed.ncbi.nlm.nih.gov/39009564/"}]}, {"title": "GSE243870: Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (scRNA-Seq)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2024"], "note": "3 samples, released 2024/05/27.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243870", "papers": [{"label": "PubMed 39009564", "url": "https://pubmed.ncbi.nlm.nih.gov/39009564/"}]}, {"title": "GSE243868: Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (snATAC-Seq)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2024"], "note": "2 samples, released 2024/05/27.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243868", "papers": [{"label": "PubMed 39009564", "url": "https://pubmed.ncbi.nlm.nih.gov/39009564/"}]}, {"title": "GSE243867: Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (RNA-Seq)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2024"], "note": "18 samples, released 2024/05/27.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243867", "papers": [{"label": "PubMed 39009564", "url": "https://pubmed.ncbi.nlm.nih.gov/39009564/"}]}, {"title": "GSE243866: Single-Cell multi-omics reveals disrupted gene regulatory landscape and cell differentiation by Wilms tumor-associated ENL mutation in the developing kidney (ChIP-Seq)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "chromatin (ATAC / ChIP / CUT&RUN)", "2024"], "note": "5 samples, released 2024/05/27.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE243866", "papers": [{"label": "PubMed 39009564", "url": "https://pubmed.ncbi.nlm.nih.gov/39009564/"}]}, {"title": "GSE211785: Spatially resolved human kidney multi-omics single cell atlas highlights the key role of fibrotic microenvironment in kidney disease progression.", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&RUN)", "2024"], "note": "80 samples, released 2024/01/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE211785", "papers": [{"label": "PubMed 38217002", "url": "https://pubmed.ncbi.nlm.nih.gov/38217002/"}, {"label": "PubMed 38514613", "url": "https://pubmed.ncbi.nlm.nih.gov/38514613/"}, {"label": "PubMed 39048792", "url": "https://pubmed.ncbi.nlm.nih.gov/39048792/"}, {"label": "PubMed 41376591", "url": "https://pubmed.ncbi.nlm.nih.gov/41376591/"}, {"label": "PubMed 40796935", "url": "https://pubmed.ncbi.nlm.nih.gov/40796935/"}]}, {"title": "GSE183842: Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&RUN)", "2023"], "note": "47 samples, released 2023/11/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183842", "papers": [{"label": "PubMed 37906287", "url": "https://pubmed.ncbi.nlm.nih.gov/37906287/"}]}, {"title": "GSE183841: Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [bulk RNA-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "RNA / single-cell RNA", "2023"], "note": "16 samples, released 2023/11/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183841", "papers": [{"label": "PubMed 37906287", "url": "https://pubmed.ncbi.nlm.nih.gov/37906287/"}]}, {"title": "GSE183840: Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snATAC-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "chromatin (ATAC / ChIP / CUT&RUN)", "2023"], "note": "9 samples, released 2023/11/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183840", "papers": [{"label": "PubMed 37906287", "url": "https://pubmed.ncbi.nlm.nih.gov/37906287/"}]}, {"title": "GSE183839: Single cell transcriptomics and chromatin accessibility profiling elucidate the kidney protective mechanism of mineralocorticoid receptor antagonism [snRNA-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "RNA / single-cell RNA", "2023"], "note": "22 samples, released 2023/11/17.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE183839", "papers": [{"label": "PubMed 37906287", "url": "https://pubmed.ncbi.nlm.nih.gov/37906287/"}]}
97, {"title": "GSE242095: Endogenous renal adiponectin drives gluconeogenesis through enhancing pyruvate and fatty acid utilization", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2023"], "note": "6 samples, released 2023/09/20.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE242095", "papers": [{"label": "PubMed 37848446", "url": "https://pubmed.ncbi.nlm.nih.gov/37848446/"}]}, {"title": "GSE220493: Unified Mouse and Human Kidney Single-Cell Expression Atlas Reveal Commonalities and Differences in Disease States", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2023"], "note": "6 samples, released 2023/09/15.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE220493", "papers": []}, {"title": "GSE209821: Treatment effects of soluble guanylate cyclase modulation on diabetic kidney disease at single-cell resolution", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "rat", "RNA / single-cell RNA", "2023"], "note": "12 samples, released 2023/02/24.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE209821", "papers": [{"label": "PubMed 37023747", "url": "https://pubmed.ncbi.nlm.nih.gov/37023747/"}]}, {"title": "GSE207587: The RNA-seq for the kidneys injected with cisplatin and NAD precursors.", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2023"], "note": "16 samples, released 2023/02/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE207587", "papers": [{"label": "PubMed 36914909", "url": "https://pubmed.ncbi.nlm.nih.gov/36914909/"}]}, {"title": "GSE212715: Tet2 and Tet3 mediated active cytosine hydroxymethylation in Six2 progenitor cells is critical for nephron progenitor differentiation and nephron endowment", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, DNA methylation", "2022"], "note": "4 samples, released 2022/11/23.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE212715", "papers": []}, {"title": "GSE137570: Loss of FERM domain-containing protein 3 (FRMD3) is associated with severity of chronic kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2022"], "note": "41 samples, released 2022/10/24.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE137570", "papers": [{"label": "PubMed 36550108", "url": "https://pubmed.ncbi.nlm.nih.gov/36550108/"}]}, {"title": "GSE205217: Hepatocyte nuclear factor 1β gene regulation in E14.5 ureteric bud cells", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2022"], "note": "10 samples, released 2022/10/20.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE205217", "papers": [{"label": "PubMed 36266461", "url": "https://pubmed.ncbi.nlm.nih.gov/36266461/"}]}, {"title": "GSE205189: Hepatocyte nuclear factor 1β binding in E14.5 kidney", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2022"], "note": "6 samples, released 2022/10/20.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE205189", "papers": [{"label": "PubMed 36266461", "url": "https://pubmed.ncbi.nlm.nih.gov/36266461/"}]}, {"title": "GSE200547: Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "chromatin (ATAC / ChIP / CUT&RUN)", "2022"], "note": "4 samples, released 2022/06/16.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE200547", "papers": [{"label": "PubMed 35710981", "url": "https://pubmed.ncbi.nlm.nih.gov/35710981/"}, {"label": "PubMed 38287030", "url": "https://pubmed.ncbi.nlm.nih.gov/38287030/"}]}, {"title": "GSE182256: Single cell analysis identifies the key role of basophils orchestrating Th17 immunity and kidney fibrosis", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2022"], "note": "8 samples, released 2022/03/07.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE182256", "papers": [{"label": "PubMed 35552540", "url": "https://pubmed.ncbi.nlm.nih.gov/35552540/"}]}, {"title": "GSE176465: Urine single cell RNA-sequencing in focal segmental glomerulosclerosis reveals inflammatory signatures in immune cells and podocytes", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2021"], "note": "23 samples, released 2021/12/07.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE176465", "papers": [{"label": "PubMed 35155868", "url": "https://pubmed.ncbi.nlm.nih.gov/35155868/"}, {"label": "PubMed 36644347", "url": "https://pubmed.ncbi.nlm.nih.gov/36644347/"}]}, {"title": "GSE181671: African American-specific APOL1  risk variants in endothelial cells exacerbate sepsis and COVID19 severity", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "2 samples, released 2021/08/12.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE181671", "papers": [{"label": "PubMed 41376591", "url": "https://pubmed.ncbi.nlm.nih.gov/41376591/"}]}, {"title": "GSE180420: Single-cell analysis highlights differences in druggable pathways underlying adaptive or fibrotic kidney regeneration", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "20 samples, released 2021/07/21.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE180420", "papers": [{"label": "PubMed 35821371", "url": "https://pubmed.ncbi.nlm.nih.gov/35821371/"}]}, {"title": "GSE173343: Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments [RNA-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2021"], "note": "68 samples, released 2021/05/20.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE173343", "papers": [{"label": "PubMed 34385711", "url": "https://pubmed.ncbi.nlm.nih.gov/34385711/"}, {"label": "PubMed 38287030", "url": "https://pubmed.ncbi.nlm.nih.gov/38287030/"}, {"label": "PubMed 39048792", "url": "https://pubmed.ncbi.nlm.nih.gov/39048792/"}
97]}, {"title": "GSE168676: Identification of dachshund-1 (DACH1) transcriptional target genes in podocytes at baseline and in experimental diabetes", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "12 samples, released 2021/05/19.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE168676", "papers": [{"label": "PubMed 33998601", "url": "https://pubmed.ncbi.nlm.nih.gov/33998601/"}]}, {"title": "GSE172008: Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "chromatin (ATAC / ChIP / CUT&RUN)", "2021"], "note": "2 samples, released 2021/05/10.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE172008", "papers": [{"label": "PubMed 34385711", "url": "https://pubmed.ncbi.nlm.nih.gov/34385711/"}, {"label": "PubMed 34426578", "url": "https://pubmed.ncbi.nlm.nih.gov/34426578/"}, {"label": "PubMed 38287030", "url": "https://pubmed.ncbi.nlm.nih.gov/38287030/"}, {"label": "PubMed 38287344", "url": "https://pubmed.ncbi.nlm.nih.gov/38287344/"}]}, {"title": "GSE166355: Defining the lineage of thermogenic perivascular adipose tissue [Thoracic PVAT]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human; mouse", "RNA / single-cell RNA", "2021"], "note": "6 samples, released 2021/04/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE166355", "papers": [{"label": "PubMed 33846639", "url": "https://pubmed.ncbi.nlm.nih.gov/33846639/"}]}, {"title": "GSE164528: Defining the lineage of thermogenic perivascular adipose tissue", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human; mouse", "RNA / single-cell RNA", "2021"], "note": "42 samples, released 2021/04/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164528", "papers": [{"label": "PubMed 33846639", "url": "https://pubmed.ncbi.nlm.nih.gov/33846639/"}]}, {"title": "GSE164527: Defining the lineage of thermogenic perivascular adipose tissue [PVAT v IWAT]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "12 samples, released 2021/04/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164527", "papers": [{"label": "PubMed 33846639", "url": "https://pubmed.ncbi.nlm.nih.gov/33846639/"}]}, {"title": "GSE164526: Defining the lineage of thermogenic perivascular adipose tissue [Pup Aorta]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "12 samples, released 2021/04/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164526", "papers": [{"label": "PubMed 33846639", "url": "https://pubmed.ncbi.nlm.nih.gov/33846639/"}]}, {"title": "GSE164525: Defining the lineage of thermogenic perivascular adipose tissue [Adult Aorta]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2021"], "note": "12 samples, released 2021/04/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE164525", "papers": [{"label": "PubMed 33846639", "url": "https://pubmed.ncbi.nlm.nih.gov/33846639/"}]}, {"title": "GSE157640: Urinary single cell profiling captures cellular diversity of the kidney", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2021"], "note": "18 samples, released 2021/02/02.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157640", "papers": [{"label": "PubMed 33531352", "url": "https://pubmed.ncbi.nlm.nih.gov/33531352/"}]}, {"title": "GSE156686: Renal proximal tubule cell state and metabolism are coupled by nuclear receptors", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2020"], "note": "8 samples, released 2020/12/09.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE156686", "papers": [{"label": "PubMed 33301
97705", "url": "https://pubmed.ncbi.nlm.nih.gov/33301705/"}]}, {"title": "GSE152765: Metabolic programming drives proximal tubule differentiation and kidney dysfunction", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2020"], "note": "1 samples, released 2020/11/30.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE152765", "papers": [{"label": "PubMed 33301705", "url": "https://pubmed.ncbi.nlm.nih.gov/33301705/"}]}, {"title": "GSE157079: Single cell resolution regulatory landscape of the mouse kidney highlights cellular differentiation programs and renal disease targets", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&RUN)", "2020"], "note": "13 samples, released 2020/08/29.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE157079", "papers": [{"label": "PubMed 33859189", "url": "https://pubmed.ncbi.nlm.nih.gov/33859189/"}, {"label": "PubMed 34426578", "url": "https://pubmed.ncbi.nlm.nih.gov/34426578/"}]}, {"title": "GSE149638: ASEP: gene-based detection of allele-specific expression cross individuals in a population by RNA sequencing", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2020"], "note": "96 samples, released 2020/05/06.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE149638", "papers": [{"label": "PubMed 32392242", "url": "https://pubmed.ncbi.nlm.nih.gov/32392242/"}]}, {"title": "GSE145477: Single cell transcriptomics analysis of bone marrow mesenchymal lineage cells", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2020"], "note": "4 samples, released 2020/05/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE145477", "papers": [{"label": "PubMed 32286228", "url": "https://pubmed.ncbi.nlm.nih.gov/32286228/"}, {"label": "PubMed 35393948", "url": "https://pubmed.ncbi.nlm.nih.gov/35393948/"}]}, {"title": "GSE146974: Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2020"], "note": "3 samples, released 2020/03/21.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE146974", "papers": [{"label": "PubMed 32393754", "url": "https://pubmed.ncbi.nlm.nih.gov/32393754/"}, {"label": "PubMed 34035047", "url": "https://pubmed.ncbi.nlm.nih.gov/34035047/"}]}, {"title": "GSE134267: Dnmt3a and Dnmt3b-mediated decommissioning of fetal enhancers linked to kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, DNA methylation", "2020"], "note": "19 samples, released 2020/03/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE134267", "papers": [{"label": "PubMed 32127410", "url": "https://pubmed.ncbi.nlm.nih.gov/32127410/"}]}, {"title": "GSE126823: Ascorbic acid–induced TET activation mitigates adverse hydroxymethylcystosine loss in renal cell carcinoma", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "DNA methylation", "2019"], "note": "12 samples, released 2019/04/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126823", "papers": [{"label": "PubMed 30702441", "url": "https://pubmed.ncbi.nlm.nih.gov/30702441/"}]}, {"title": "GSE124610: Loss of hydroxymethylcytosine is an independent adverse prognostic factor in clear cell Renal Cell Carcinoma (ccRCC) and can be abrogated by ascorbic acid mediated TET activation", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "DNA methylation", "2019"], "note": "8 samples, released 2019/04/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124610", "papers": [{"label": "PubMed 30702441", "url": "https://pubmed.ncbi.nlm.nih.gov/30702441/"}]}, {"title": "GSE110481: DNMT1 in Six2 progenitor cells is essential for transposable element silencing and kidney development", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, DNA methylation", "2019"], "note": "15 samples, released 2019/03/15.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE110481", "papers": [{"label": "PubMed 30850438", "url": "https://pubmed.ncbi.nlm.nih.gov/30850438/"}]}, {"title": "GSE115098: Kidney compartment specific eQTL studies highlight causal genes and pathways for renal disease development", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2018"], "note": "20 samples, released 2018/11/16.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE115098", "papers": [{"label": "PubMed 30275566", "url": "https://pubmed.ncbi.nlm.nih.gov/30275566/"}, {"label": "PubMed 31167971", "url": "https://pubmed.ncbi.nlm.nih.gov/31167971/"}, {"label": "PubMed 31451708", "url": "https://pubmed.ncbi.nlm.nih.gov/31451708/"}, {"label": "PubMed 34426578", "url": "https://pubmed.ncbi.nlm.nih.gov/34426578/"}, {"label": "PubMed 38287030", "url": "https://pubmed.ncbi.nlm.nih.gov/38287030/"}, {"label": "PubMed 39048792", "url": "https://pubmed.ncbi.nlm.nih.gov/39048792/"}
97]}, {"title": "GSE104907: ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, chromatin (ATAC / ChIP / CUT&RUN)", "2018"], "note": "9 samples, released 2018/04/25.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104907", "papers": [{"label": "PubMed 29735694", "url": "https://pubmed.ncbi.nlm.nih.gov/29735694/"}]}, {"title": "GSE104906: ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [RNA-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2018"], "note": "15 samples, released 2018/04/25.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104906", "papers": [{"label": "PubMed 29735694", "url": "https://pubmed.ncbi.nlm.nih.gov/29735694/"}]}, {"title": "GSE104905: ERRγ coordinates a transcriptional program of mitochondrial and renal reabsorptive functions implicated in kidney disease [ChIP-seq]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "chromatin (ATAC / ChIP / CUT&RUN)", "2018"], "note": "9 samples, released 2018/04/25.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104905", "papers": [{"label": "PubMed 29735694", "url": "https://pubmed.ncbi.nlm.nih.gov/29735694/"}]}, {"title": "GSE107585: Comprehensive single cell RNAseq analysis of the kidney reveals novel cell types and unexpected cell plasticity", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2018"], "note": "7 samples, released 2018/04/05.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE107585", "papers": [{"label": "PubMed 29622724", "url": "https://pubmed.ncbi.nlm.nih.gov/29622724/"}]}, {"title": "GSE108106: RNA sequence on the fed and fasted state of kidneys in mice", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2017"], "note": "9 samples, released 2017/12/15.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE108106", "papers": [{"label": "PubMed 28404638", "url": "https://pubmed.ncbi.nlm.nih.gov/28404638/"}]}, {"title": "GSE77432: Alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA, DNA methylation", "2017"], "note": "8 samples, released 2017/10/02.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77432", "papers": [{"label": "PubMed 28911167", "url": "https://pubmed.ncbi.nlm.nih.gov/28911167/"}]}, {"title": "GSE77431: Alterations in the hepatic gene expression in mice exposed to a maternal high fat diet in utero [Microarray]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2017"], "note": "2 samples, released 2017/10/02.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77431", "papers": [{"label": "PubMed 28911167", "url": "https://pubmed.ncbi.nlm.nih.gov/28911167/"}]}, {"title": "GSE77430: Alterations in the hepatic epigenome in mice exposed to a maternal high fat diet in utero [HELP]", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "DNA methylation", "2017"], "note": "6 samples, released 2017/10/02.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77430", "papers": [{"label": "PubMed 28911167", "url": "https://pubmed.ncbi.nlm.nih.gov/28911167/"}]}, {"title": "GSE81492: APOL1 variant expression in mouse podocytes cause kidney disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2017"], "note": "10 samples, released 2017/02/15.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81492", "papers": [{"label": "PubMed 28218918", "url": "https://pubmed.ncbi.nlm.nih.gov/28218918/"}, {"label": "PubMed 41376591", "url": "https://pubmed.ncbi.nlm.nih.gov/41376591/"}]}, {"title": "GSE80384: Notch pathway is overexpressed and is a therapeutic target in clear cell renal cancer", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2016"], "note": "6 samples, released 2016/04/19.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80384", "papers": [{"label": "PubMed 27909050", "url": "https://pubmed.ncbi.nlm.nih.gov/27909050/"}]}, {"title": "GSE70544: Transcriptional Signatures of Hypoxic and Inflammatory Renal Epithelial Injury", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2015"], "note": "12 samples, released 2015/09/28.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE70544", "papers": [{"label": "PubMed 26400545", "url": "https://pubmed.ncbi.nlm.nih.gov/26400545/"}]}, {"title": "GSE69815: Expression array of glucosamine-fed Drosophila heart/nephrocyte complexes", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "fly", "RNA / single-cell RNA", "2015"], "note": "6 samples, released 2015/06/12.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE69815", "papers": [{"label": "PubMed 26190114", "url": "https://pubmed.ncbi.nlm.nih.gov/26190114/"}]}, {"title": "GSE60119: Next Generation Sequencing Facilitates Quantitative Analysis of Normal Human Kidney Transcriptomes", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2014"], "note": "2 samples, released 2014/08/06.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE60119", "papers": [{"label": "PubMed 25231882", "url": "https://pubmed.ncbi.nlm.nih.gov/25231882/"}]}, {"title": "GSE49420: Integrative analysis demonstrates widespread NOTCH pathway activation in patients with renal cancer and reveals aberrant DNA methylation that targets the regulatory regions of the kidney genome", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "DNA methylation", "2014"], "note": "26 samples, released 2014/07/31.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49420", "papers": [{"label": "PubMed 24916699", "url": "https://pubmed.ncbi.nlm.nih.gov/24916699/"}]}, {"title": "GSE50874: Methylation Profiling of Human Kidney Tubules", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "DNA methylation", "2013"], "note": "85 samples, released 2013/09/14.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE50874", "papers": [{"label": "PubMed 24098934", "url": "https://pubmed.ncbi.nlm.nih.gov/24098934/"}, {"label": "PubMed 28556588", "url": "https://pubmed.ncbi.nlm.nih.gov/28556588/"}]}, {"title": "GSE49637: Histone tail modification profiles of human renal tubule epithelial cells", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "chromatin (ATAC / ChIP / CUT&RUN)", "2013"], "note": "7 samples, released 2013/08/09.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49637", "papers": [{"label": "PubMed 24098934", "url": "https://pubmed.ncbi.nlm.nih.gov/24098934/"}, {"label": "PubMed 25007794", "url": "https://pubmed.ncbi.nlm.nih.gov/25007794/"}, {"label": "PubMed 28575649", "url": "https://pubmed.ncbi.nlm.nih.gov/28575649/"}]}, {"title": "GSE49557: Methylation profiles of Human kidney tubules", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "DNA methylation", "2013"], "note": "26 samples, released 2013/08/09.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE49557", "papers": [{"label": "PubMed 24098934", "url": "https://pubmed.ncbi.nlm.nih.gov/24098934/"}]}, {"title": "GSE48944: Gene expression profiles of human kidneys", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2013"], "note": "25 samples, released 2013/07/18.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE48944", "papers": [{"label": "PubMed 24098934", "url": "https://pubmed.ncbi.nlm.nih.gov/24098934/"}]}, {"title": "GSE30566: Transcriptome Analysis of Human Diabetic Kidney Disease (Control Glomeruli vs. Control Tubuli)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2011"], "note": "25 samples, released 2011/08/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30566", "papers": [{"label": "PubMed 21752957", "url": "https://pubmed.ncbi.nlm.nih.gov/21752957/"}]}, {"title": "GSE30529: Transcriptome Analysis of Human Diabetic Kidney Disease (DKD Tubuli vs. Control Tubuli)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2011"], "note": "22 samples, released 2011/08/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30529", "papers": [{"label": "PubMed 21752957", "url": "https://pubmed.ncbi.nlm.nih.gov/21752957/"}]}, {"title": "GSE30528: Transcriptome Analysis of Human Diabetic Kidney Disease (DKD Glomeruli vs. Control Glomeruli)", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2011"], "note": "22 samples, released 2011/08/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30528", "papers": [{"label": "PubMed 21752957", "url": "https://pubmed.ncbi.nlm.nih.gov/21752957/"}]}, {"title": "GSE30122: Transcriptome Analysis of Human Diabetic Kidney Disease", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2011"], "note": "69 samples, released 2011/08/03.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30122", "papers": [{"label": "PubMed 21752957", "url": "https://pubmed.ncbi.nlm.nih.gov/21752957/"}, {"label": "PubMed 26190114", "url": "https://pubmed.ncbi.nlm.nih.gov/26190114/"}]}, {"title": "GSE12682: Expression data from Human Kidney (HK) samples", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "human", "RNA / single-cell RNA", "2010"], "note": "52 samples, released 2010/04/13.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12682", "papers": [{"label": "PubMed 19277126", "url": "https://pubmed.ncbi.nlm.nih.gov/19277126/"}]}, {"title": "GSE12683: Expression data from Balb/c mice kidney s
97amples", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2009"], "note": "20 samples, released 2009/12/01.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE12683", "papers": [{"label": "PubMed 19277126", "url": "https://pubmed.ncbi.nlm.nih.gov/19277126/"}]}, {"title": "GSE710: diabetic nephropathy streptozotocin db db", "category": "Susztak lab deposit in GEO (raw reads and processed matrices)", "tags": ["GEO", "mouse", "RNA / single-cell RNA", "2004"], "note": "50 samples, released 2004/01/20.", "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE710", "papers": [{"label": "PubMed 14988265", "url": "https://pubmed.ncbi.nlm.nih.gov/14988265/"}]}, {"title": "Summary statistics of human kidney pQTL and eQTL associations", "category": "Susztak lab deposit on figshare (summary statistics)", "tags": ["figshare", "kidney_pQTL_summary.txt.gz", "kidney_eQTL_summary.txt.gz"], "note": " The files contain summary statistics for significant cis-pQTL and cis-eQTL associations (P ", "url": "https://figshare.com/articles/dataset/Summary_statistics_of_human_kidney_pQTL_and_eQTL_associations/30156553", "papers": []}, {"title": "Kidney Multiome-based Genetic Scorecard Reveals Convergent Coding and Regulatory Variants (Datasets)", "category": "Susztak lab deposit on figshare (summary statistics)", "tags": ["figshare", "eGFRcrea_GWAS_EUR_1.7M_Individuals_Summary_Statistics.txt.gz", "eGFRcrea_GWAS_AFR_67K_Individuals_Summary_Statistics.txt.gz", "eGFRcrea_GWAS_Multi_2.2M_Individuals_Summary_Statistics.txt.gz", "ASE_RASQUAL_522_Glomeruli_Significant_Associations.txt.gz", "ASE_RASQUAL_613_Tubule_Significant_Associations.txt.gz", "bASA_RASQUAL_82_Kidney_Significant_Associations.txt.gz", "Open4Gene_62K_Cells_Peak_to_Gene_Significant_Associations.txt.gz", "Open4Gene_62K_Cells_Peak_to_Gene_Summary_Statistics.txt.gz", "snASA_237K_Cells_Significant_Associations.txt.gz", "eGFRcrea_GWAS_EAS_282K_Individuals_Summary_Statistics.txt.gz", "Human.Kidney.OpenChromatin.snATAC.resolved.ATAC.Peaks.bed.gz", "Genome_wide.Kidney.Disease.Genetic.Scorecard.xlsx"], "note": " Kidney dysfunction is a major cause of mortality, but its genetic architecture remains elusive. In this study, we conducted a multiancestry genome-wide association study in 2.2 million individuals and identified 1026 (97 previously unknown) independent loci. 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