1<!DOCTYPE html> 2<html lang="en"> 3<head> 4<meta charset="utf-8"> 5<meta name="viewport" content="width=device-width, initial-scale=1"> 6<title>Kidney data map · SusztakLab Biobank</title> 7<meta name="description" content="A curated map of public kidney genetics, QTL, proteomics, single-cell and spatial data resources from other groups that complement the SusztakLab Biobank."> 8<meta name="author" content="Susztak Laboratory, University of Pennsylvania"> 9<meta property="og:title" content="Kidney data map · SusztakLab Biobank"> 10<meta property="og:description" content="A curated map of public kidney genetics, QTL, proteomics, single-cell and spatial data resources from other groups that complement the SusztakLab Biobank."> 11<meta property="og:type" content="website"> 12<link rel="icon" type="image/svg+xml" href="image/logo.svg"> 13<link rel="alternate icon" href="image/favicon-64.png"> 14<link rel="apple-touch-icon" href="image/apple-touch-icon.png"> 15<link rel="stylesheet" href="css/biobank.css"> 16 17 18</head> 19<body> 20<a class="skip" href="#main">Skip to content</a> 21<header class="topbar"> 22 <div class="wrap topbar-inner"> 23 <a class='brand' href='/'> 24 <img class="brand-mark" src="image/logo.svg" width="40" height="40" alt=""> 25 <span class="brand-text"><span class="brand-name">SusztakLab</span> <span class="brand-sub">Biobank</span></span> 26 </a> 27 <button class="nav-toggle" aria-label="Open menu" aria-expanded="false" onclick="document.body.classList.toggle('nav-open');this.setAttribute('aria-expanded',document.body.classList.contains('nav-open'))"><span></span><span></span><span></span></button> 28 <nav class="nav" aria-label="Primary"><a class href='/'>Resources</a><a class href='/rawdata'>Raw data</a><a class='active' 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 â</a></nav> 29 </div> 30</header> 31<main id="main"> 32 33<section class="pagehead"><div class="wrap"> 34 <p class="eyebrow">Kidney data map</p> 35 <h1>Kidney data beyond our laboratory</h1> 36 <p class="lead">A curated map of 28 public resources from other groups that complement the atlases on this site: population genetics from the large consortia and biobanks, the NIH kidney cohorts, expression and protein QTL catalogues, and the single-cell, spatial and epigenome atlases of the wider community. Together with the <a href='/'>SusztakLab Biobank</a> they make one starting point for kidney data. These resources are maintained by their own groups; follow their terms of use and cite their publications. Suggestions for additions are welcome at <a href="mailto:[email protected]">[email protected]</a>.</p> 37</div></section> 38<div class="wrap"><section class="group"><div class="group-head"><h2>NIH kidney cohorts and consortia <span class="count">8</span></h2></div><div class="grid ext-grid"><a class="ext-card" href="https://repository.niddk.nih.gov/home" target="_blank" rel="noopener"> 39 <h3>NIDDK Central Repository <span class="arrow">â</span></h3> 40 <p>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.</p> 41 <div class="tags"><span class="tag">Cohorts</span><span class="tag">Biosamples</span><span class="tag">Controlled access</span></div> 42 <span class="host">repository.niddk.nih.gov</span> 43</a><a class="ext-card" href="https://repository.niddk.nih.gov/studies/cric/" target="_blank" rel="noopener"> 44 <h3>CRIC, Chronic Renal Insufficiency Cohort <span class="arrow">â</span></h3> 45 <p>Longitudinal cohort of about 5,500 adults with CKD: phenotypes, outcomes, genotypes, proteomics and metabolomics; the source of our blood methylation atlas.</p> 46 <div class="tags"><span class="tag">Cohort</span><span class="tag">CKD</span><span class="tag">Controlled access</span></div> 47 <span class="host">repository.niddk.nih.gov</span> 48</a><a class="ext-card" href="https://repository.niddk.nih.gov/studies/neptune/" target="_blank" rel="noopener"> 49 <h3>NEPTUNE, Nephrotic Syndrome Study Network <span class="arrow">â</span></h3> 50 <p>Biopsy-based cohort of nephrotic syndrome (FSGS, MCD, membranous) with transcriptomics, digital pathology and outcomes; companion eQTLs are at NephQTL.</p> 51 <div class="tags"><span class="tag">Cohort</span><span class="tag">Glomerular disease</span><span class="tag">Biopsy</span></div> 52 <span class="host">repository.niddk.nih.gov</span> 53</a><a class="ext-card" href="https://repository.niddk.nih.gov/studies/curegn_prime/" target="_blank" rel="noopener"> 54 <h3>CureGN, Cure Glomerulonephropathy <span class="arrow">â</span></h3> 55 <p>Prospective cohort of more than 2,400 children and adults with biopsy-proven IgA nephropathy, FSGS, MCD and membranous nephropathy.</p> 56 <div class="tags"><span class="tag">Cohort</span><span class="tag">Glomerular disease</span><span class="tag">Biopsy</span></div> 57 <span class="host">repository.niddk.nih.gov</span> 58</a><a class="ext-card" href="https://www.kpmp.org/" target="_blank" rel="noopener"> 59 <h3>Kidney Precision Medicine Project (KPMP) <span class="arrow">â</span></h3> 60 <p>
60NIDDK consortium collecting research biopsies from people with CKD and AKI; the Kidney Tissue Atlas below holds the molecular data.</p> 61 <div class="tags"><span class="tag">Consortium</span><span class="tag">Biopsy</span><span class="tag">Atlas</span></div> 62 <span class="host">kpmp.org</span> 63</a><a class="ext-card" href="https://www.rebuildingakidney.org/" target="_blank" rel="noopener"> 64 <h3>(Re)Building a Kidney (RBK) <span class="arrow">â</span></h3> 65 <p>NIDDK consortium on kidney development, repair and regeneration, with organoid, imaging and single-cell data.</p> 66 <div class="tags"><span class="tag">Consortium</span><span class="tag">Development</span><span class="tag">Regeneration</span></div> 67 <span class="host">rebuildingakidney.org</span> 68</a><a class="ext-card" href="https://usrds.org/" target="_blank" rel="noopener"> 69 <h3>United States Renal Data System (USRDS) <span class="arrow">â</span></h3> 70 <p>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.</p> 71 <div class="tags"><span class="tag">Epidemiology</span><span class="tag">Registry</span></div> 72 <span class="host">usrds.org</span> 73</a><a class="ext-card" href="https://dknet.org/" target="_blank" rel="noopener"> 74 <h3>dkNET <span class="arrow">â</span></h3> 75 <p>NIDDK's information network that catalogues data repositories, tools and resources for kidney, urologic and metabolic research.</p> 76 <div class="tags"><span class="tag">Directory</span></div> 77 <span class="host">dknet.org</span> 78</a></div></section><section class="group"><div class="group-head"><h2>Human genetics and GWAS <span class="count">7</span></h2></div><div class="grid ext-grid"><a class="ext-card" href="https://ckdgen.imbi.uni-freiburg.de/datasets/" target="_blank" rel="noopener"> 79 <h3>CKDGen Consortium <span class="arrow">â</span></h3> 80 <p>Meta-analysis summary statistics for eGFR, CKD, albuminuria, urate and related kidney traits from the CKDGen consortium.</p> 81 <div class="tags"><span class="tag">GWAS</span><span class="tag">Summary statistics</span></div> 82 <span class="host">ckdgen.imbi.uni-freiburg.de</span> 83</a><a class="ext-card" href="https://www.mvp.va.gov/pwa/discover-mvp-data" target="_blank" rel="noopener"> 84 <h3>Million Veteran Program (MVP) <span class="arrow">â</span></h3> 85 <p>Genome-wide PheWAS and GWAS results from the VA Million Veteran Program, including kidney function traits; summary statistics are released through dbGaP.</p> 86 <div class="tags"><span class="tag">GWAS</span><span class="tag">Multi-ancestry</span></div> 87 <span class="host">mvp.va.gov</span> 88</a><a class="ext-card" href="https://kp4cd.org/" target="_blank" rel="noopener"> 89 <h3>Knowledge Portal Network (Broad Institute) <span class="arrow">â</span></h3> 90 <p>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.</p> 91 <div class="tags"><span class="tag">GWAS</span><span class="tag">Portal</span></div> 92 <span class="host">kp4cd.org</span> 93</a><a class="ext-card" href="https://cmdkp.org/" target="_blank" rel="noopener"> 94 <h3>Common Metabolic Diseases Knowledge Portal <span class="arrow">â</span></h3> 95 <p>Aggregated genetic association results for metabolic and kidney traits, with PheWAS, gene prioritization and fine-mapping tools.</p> 96 <div class="tags"><span class="tag">GWAS</span><span class="tag">Portal</span></div> 97 <span class="host">cmdkp.org</span> 98</a><a class="ext-card" href="https://www.finngen.fi/en/access_results" target="_blank" rel="noopener"> 99 <h3>FinnGen <span class="arrow">â</span></h3> 100 <p>GWAS results for thousands of disease endpoints, including kidney diseases, from the Finnish biobank study; browsable summary statistics for each release.</p> 101 <div class="tags"><span class="tag">GWAS</span><span class="tag">Biobank</span></div> 102 <span class="host">finngen.fi</span> 103</a><a class="ext-card" href="https://www.ebi.ac.uk/gwas/" target="_blank" rel="noopener"> 104 <h3>GWAS Catalog (EMBL-EBI) <span class="arrow">â</span></h3> 105 <p>The curated catalogue of published genome-wide association studies and summary statistics.</p> 106 <div class="tags"><span class="tag">GWAS</span><span class="tag">Catalogue</span></div> 107 <span class="host">ebi.ac.uk</span> 108</a><a class="ext-card" href="https://genetics.opentargets.org/" target="_blank" rel="noopener"> 109 <h3>Open Targets Genetics <span class="arrow">â</span></h3> 110 <p>Variant-to-gene mapping, colocalization and locus-to-gene scores across GWAS and molecular QTL studies.</p> 111 <div class="tags"><span class="tag">GWAS</span><span class="tag">Variant to gene</span></div> 112 <span class="host">genetics.opentargets.org</span> 113</a></div></section><section class="group"><div class="group-head"><h2>Expression, QTL and proteomics <span class="count">6</span></h2></div><div class="grid ext-grid"><a class="ext-card" href="https://gtexportal.org/" target="_blank" rel="noopener"> 114 <h3>GTEx Portal <span class="arrow">â</span></h3> 115 <p>Genotype-Tissue Expression project: bulk expression, eQTLs and sQTLs across human tissues, including kidney cortex.</p> 116 <div class="tags"><span class="tag">eQTL</span><span class="tag">Bulk RNA-seq</span></div> 117 <span class="host">
117gtexportal.org</span> 118</a><a class="ext-card" href="https://www.eqtlgen.org/" target="_blank" rel="noopener"> 119 <h3>eQTLGen <span class="arrow">â</span></h3> 120 <p>Blood cis- and trans-eQTLs from more than 30,000 individuals.</p> 121 <div class="tags"><span class="tag">eQTL</span><span class="tag">Blood</span></div> 122 <span class="host">eqtlgen.org</span> 123</a><a class="ext-card" href="https://nephqtl.org/" target="_blank" rel="noopener"> 124 <h3>NephQTL <span class="arrow">â</span></h3> 125 <p>Glomerular and tubulointerstitial eQTLs from NEPTUNE kidney biopsies.</p> 126 <div class="tags"><span class="tag">eQTL</span><span class="tag">Kidney biopsy</span></div> 127 <span class="host">nephqtl.org</span> 128</a><a class="ext-card" href="https://registry.opendata.aws/ukbppp/" target="_blank" rel="noopener"> 129 <h3>UK Biobank Pharma Proteomics Project (UKB-PPP) <span class="arrow">â</span></h3> 130 <p>Plasma proteomic pQTL summary statistics for about 3,000 proteins measured in more than 50,000 UK Biobank participants.</p> 131 <div class="tags"><span class="tag">pQTL</span><span class="tag">Plasma</span></div> 132 <span class="host">registry.opendata.aws</span> 133</a><a class="ext-card" href="https://www.decode.com/summarydata/" target="_blank" rel="noopener"> 134 <h3>deCODE plasma proteomics <span class="arrow">â</span></h3> 135 <p>Plasma pQTL summary data for 4,907 aptamers in 35,559 Icelanders.</p> 136 <div class="tags"><span class="tag">pQTL</span><span class="tag">Plasma</span></div> 137 <span class="host">decode.com</span> 138</a><a class="ext-card" href="https://www.nephroseq.org/" target="_blank" rel="noopener"> 139 <h3>Nephroseq <span class="arrow">â</span></h3> 140 <p>Curated kidney transcriptomic datasets with a query interface for gene expression across disease cohorts.</p> 141 <div class="tags"><span class="tag">Bulk RNA-seq</span><span class="tag">Disease cohorts</span></div> 142 <span class="host">nephroseq.org</span> 143</a></div></section><section class="group"><div class="group-head"><h2>Single-cell, spatial and epigenome atlases <span class="count">7</span></h2></div><div class="grid ext-grid"><a class="ext-card" href="https://atlas.kpmp.org/" target="_blank" rel="noopener"> 144 <h3>KPMP Kidney Tissue Atlas <span class="arrow">â</span></h3> 145 <p>Kidney Precision Medicine Project: single-cell, single-nucleus, spatial and imaging data from biopsies of healthy and diseased human kidneys.</p> 146 <div class="tags"><span class="tag">Single-cell</span><span class="tag">Spatial</span><span class="tag">Human</span></div> 147 <span class="host">atlas.kpmp.org</span> 148</a><a class="ext-card" href="https://portal.hubmapconsortium.org/" target="_blank" rel="noopener"> 149 <h3>HuBMAP Data Portal <span class="arrow">â</span></h3> 150 <p>Human BioMolecular Atlas Program: multi-modal single-cell and spatial data, including kidney, with a common coordinate framework.</p> 151 <div class="tags"><span class="tag">Single-cell</span><span class="tag">Spatial</span></div> 152 <span class="host">portal.hubmapconsortium.org</span> 153</a><a class="ext-card" href="https://cellxgene.cziscience.com/" target="_blank" rel="noopener"> 154 <h3>CZ CELLxGENE Discover <span class="arrow">â</span></h3> 155 <p>Standardized, browsable single-cell datasets, including many kidney studies, with gene expression and cell-type queries.</p> 156 <div class="tags"><span class="tag">Single-cell</span><span class="tag">Browser</span></div> 157 <span class="host">cellxgene.cziscience.com</span> 158</a><a class="ext-card" href="https://data.humancellatlas.org/" target="_blank" rel="noopener"> 159 <h3>Human Cell Atlas <span class="arrow">â</span></h3> 160 <p>Data portal of the Human Cell Atlas consortium.</p> 161 <div class="tags"><span class="tag">Single-cell</span></div> 162 <span class="host">data.humancellatlas.org</span> 163</a><a class="ext-card" href="https://humphreyslab.com/SingleCell/" target="_blank" rel="noopener"> 164 <h3>Kidney Interactive Transcriptomics (Humphreys lab) <span class="arrow">â</span></h3> 165 <p>Interactive single-cell and single-nucleus kidney datasets from mouse and human injury and disease models.</p> 166 <div class="tags"><span class="tag">Single-cell</span><span class="tag">Mouse</span><span class="tag">Human</span></div> 167 <span class="host">humphreyslab.com</span> 168</a><a class="ext-card" href="https://www.gudmap.org/" target="_blank" rel="noopener"> 169 <h3>GUDMAP <span class="arrow">â</span></h3> 170 <p>GenitoUrinary Development Molecular Anatomy Project: expression, imaging and single-cell data on kidney and urinary tract development.</p> 171 <div class="tags"><span class="tag">Development</span><span class="tag">Imaging</span></div> 172 <span class="host">gudmap.org</span> 173</a><a class="ext-card" href="https://www.encodeproject.org/" target="_blank" rel="noopener"> 174 <h3>ENCODE <span class="arrow">â</span></h3> 175 <p>Encyclopedia of DNA Elements: chromatin accessibility, histone marks and transcription factor binding across tissues and cell types, including kidney.</p> 176 <div class="tags"><span class="tag">Epigenome</span><span class="tag">Chromatin</span></div> 177 <span class="host">
177encodeproject.org</span> 178</a></div></section> 179<p class="pub-foot">Listing curated by the Susztak Laboratory; last reviewed September 2026.</p></div> 180 181</main> 182<footer class="footer"> 183 <div class="wrap footer-grid"> 184 <div> 185 <div class="footer-brand">SusztakLab Biobank</div> 186 <p>Susztak Laboratory · Renal, Electrolyte and Hypertension Division · Perelman School of Medicine, University of Pennsylvania · Penn/CHOP Kidney Innovation Center</p> 187 <p>Questions and suggestions: <a href="mailto:[email protected]">[email protected]</a></p> 188 </div> 189 <div> 190 <div class="footer-h">Browse</div> 191 <a href='/'>Resources</a><a href='/rawdata'>Raw data</a><a href='/external'>Kidney data map</a><a href='/pub'>Publications</a><a href='/news'>News</a><a href='/agree'>Data use agreement</a> 192 </div> 193 <div> 194 <div class="footer-h">Related</div> 195 <a href="https://www.med.upenn.edu/susztaklab/" target="_blank" rel="noopener">Susztak Laboratory</a><a href="https://www.med.upenn.edu/kic/" target="_blank" rel="noopener">Penn/CHOP Kidney Innovation Center</a><a href="https://www.med.upenn.edu/trident/" target="_blank" rel="noopener">TRIDENT</a><a href="https://pubmed.ncbi.nlm.nih.gov/?term=Katalin+Susztak&sort=date" target="_blank" rel="noopener">Publications on PubMed</a> 196 </div> 197 </div> 198 <div class="wrap footer-bottom">© University of Pennsylvania. Data are provided for non-commercial research under the <a href='/agree'>data use agreement</a>.</div> 199</footer>
200<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; cell-type-resolved open chromatin in IGV.", "url": "https://data.susztaklab.com/human_kidney/igv/", "papers": [{"label": "Sheng et al., Nature Genetics 2021", "url": "https://www.nature.com/articles/s41588-021-00909-9"}]}, {"title": "Human Kidney snATAC-seq (Version 2)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "snATAC-seq", "Browser"], "note": "57,229 nuclei; expanded open chromatin atlas of the adult human kidney.", "url": "https://data.susztaklab.com/Human_snATAC/index.php", "papers": [{"label": "Liu et al., Nature Genetics 2022", "url": "https://www.nature.com/articles/s41588-022-01097-w"}]}, {"title": "Human Kidney Disease snATAC-seq (IGV)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "snATAC-seq", "IGV"], "note": "Chromatin accessibility in healthy and chronically diseased human kidneys.", "url": "https://data.susztaklab.com/Human_CKD_snATAC/index.php", "papers": [{"label": "Abedini, Levinsohn et al., Nature Genetics 2024", "url": "https://doi.org/10.1038/s41588-024-01802-x"}, {"label": "Yan et al., Nature Communications 2023", "url": null}]}, {"title": "Human Kidney Single-Cell Transcriptome (Susztak)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "scRNA-seq", "Gene map"], "note": "Gene-level expression maps across kidney cell types.", "url": "https://data.susztaklab.com/hk_genemap/scRNA", "papers": [{"label": "Abedini, Levinsohn et al., Nature Genetics 2024", "url": "https://doi.org/10.1038/s41588-024-01802-x"}]}, {"title": "Human Kidney Single-Cell Transcriptome (Susztak and KPMP merged)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "scRNA-seq", "Gene map"], "note": "Integrated
200with the Kidney Precision Medicine Project reference.", "url": "https://data.susztaklab.com/hk_genemap_kpmp/scRNA", "papers": [{"label": "Abedini, Levinsohn et al., Nature Genetics 2024", "url": "https://doi.org/10.1038/s41588-024-01802-x"}]}, {"title": "Multispecies-Integrated Single-Cell Kidney Atlas (SISKA)", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "Mouse", "Rat", "scRNA-seq"], "note": "Human, mouse and rat kidney cells in one integrated reference.", "url": "https://data.susztaklab.com/SISKA/mouse", "papers": [{"label": "Klötzer et al., Nature Genetics 2025", "url": "https://www.nature.com/articles/s41588-025-02285-0"}]}, {"title": "RodentâHuman Gene Expression Coordination of Cellular Functions", "category": "Human single-cell and epigenome atlases", "tags": ["Human", "Mouse", "Rat", "Browser"], "note": "Conserved and divergent gene programs across species.", "url": "https://data.susztaklab.com/rhge", "papers": [{"label": "Klötzer et al., Nature Genetics 2025", "url": "https://www.nature.com/articles/s41588-025-02285-0"}]}, {"title": "Human Kidney Spatial Transcriptome", "category": "Spatial transcriptomics", "tags": ["Human", "Spatial", "Samui"], "note": "Seven adult human kidney sections with the fibrotic microenvironment.", "url": "https://data.susztaklab.com/samui/from.html?url=susztaklab.com/samui/files/&s=sample_HK2671&s=sample_HK2770&s=sample_HK2844&s=sample_HK2852&s=sample_HK2871&s=sample_HK2873&s=sample_HK3035", "papers": [{"label": "Abedini, Levinsohn et al., Nature Genetics 2024", "url": "https://doi.org/10.1038/s41588-024-01802-x"}]}, {"title": "Human Fetal Kidney Single-Cell Spatial Atlas", "category": "Spatial transcriptomics", "tags": ["Human", "Fetal", "Spatial", "Samui"], "note": "Single-cell spatial map of human kidney development.", "url": "https://data.susztaklab.com/samui2/from.html?url=susztaklab.com/samui/files/&s=FK1", "papers": [{"label": "Levinsohn, Grindel et al., Nature Genetics 2026", "url": "https://doi.org/10.1038/s41588-026-02665-0"}]}, {"title": "Human Single-Cell Spatial Atlas of Diabetic Kidney Disease", "category": "Spatial transcriptomics", "tags": ["Human", "Spatial", "Samui"], "note": "Fifteen sections; reveals a B cell-rich subgroup of diabetic kidney disease.", "url": "https://data.susztaklab.com/samui/from.html?url=susztaklab.com/samui/files/bernard/&s=output_1001&s=output_1003&s=output_1004&s=output_1005&s=output_1006&s=output_1007&s=output_1008&s=output_1009&s=output_1010&s=output_1011&s=output_1012&s=output_1013&s=output_HK2695&s=output_HK2753&s=output_HK3106", "papers": [{"label": "Dumoulin et al., Nature 2026", "url": "https://www.nature.com/articles/s41586-026-10363-4"}]}, {"title": "Mouse Kidney scRNA-seq Atlas (UMAP)", "category": "Mouse models", "tags": ["Mouse", "scRNA-seq", "UMAP"], "note": "The original single-cell atlas of the adult mouse kidney.", "url": "https://data.susztaklab.com/EH/park", "papers": [{"label": "Park et al., Science 2018", "url": "https://www.science.org/doi/10.1126/science.aar2131"}]}, {"title": "Mouse Kidney scRNA-seq Atlas (unified)", "category": "Mouse models", "tags": ["Mouse", "scRNA-seq", "Browser"], "note": "Unified mouse and human single-cell expression atlas across disease states.", "url": "https://data.susztaklab.com/Mouse_scRNA_Atlas/index.php", "papers": [{"label": "Zhou et al., J Am Soc Nephrol 2023", "url": "https://doi.org/10.1681/ASN.0000000000000217"}]}, {"title": "Developing Mouse Kidney scRNA-seq (UMAP)", "category": "Mouse models", "tags": ["Mouse", "Development", "scRNA-seq"], "note": "Single-cell transcriptomes across kidney development.", "url": "https://data.susztaklab.com/developing_adult_kidney/scRNA/", "papers": [{"label": "Miao, Balzer et al., Nature Communications 2021", "url": "https://www.nature.com/articles/s41467-021-22266-1"}]}, {"title": "Developing Mouse Kidney snATAC-seq (IGV)", "category": "Mouse models", "tags": ["Mouse", "Development", "snATAC-seq", "IGV"], "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": "https://www.nature.com/articles/s41590-022-01200-7"}]}, {"title": "scRNA-seq of Mouse Kidney Fibrosis (Folic Acid Nephropathy)", "category": "Mouse models", "tags": ["Mouse", "Fibrosis", "scRNA-seq"], "note": "ESRRA couples metabolism and differentiation in the tubule.", "url": "https://data.susztaklab.com/EH/dhillon/", "papers": [{"label": "Dhillon, Park et al., Cell Metabolism 2021", "url": "https://www.sciencedirect.com/science/article/pii/S1550413120306069"}]}, {"title": "Mouse Kidney Bulk Gene Expression and Disease Correlation", "category": "Mouse models", "tags": ["Mouse", "Bulk RNA-seq", "Browser"], "note": "Bulk expression across mouse kidney disease models.", "url": "https://data.susztaklab.com/Mouse_Model_Exp/index.php", "papers": [{"label": "Hu et al., manuscript in preparation", "url": null}]}, {"title": "snRNA-seq and snATAC-seq of Rat Hypertension and Fibrosis (DOCA)", "category": "Rat models", "tags": ["Rat", "snRNA-seq", "snATAC-seq", "Gene map"], "note": "Gene map of the DOCA rat model and mineralocorticoid receptor antagonist treatment.", "url": "https://data.susztaklab.com/genemap_rat", "papers": [{"label": "Abedini et al., J Clin Invest 2024", "url": "https://doi.org/10.1172/JCI157165"}]}, {"title": "snATAC-seq of Rat Hypertension and Fibrosis (DOCA, IGV)", "category": "Rat models", "tags": ["Rat", "snATAC-seq", "IGV"], "note": "Open chromatin tracks for the DOCA rat model.", "url": "https://data.susztaklab.com/DOCA_Rat_snATAC", "papers": [{"label": "Abedini et al., J Clin Invest 2024", "url": "https://doi.org/10.1172/JCI157165"}]}, {"title": "RAAS Inhibition in Diabetic Kidney Disease Atlas (ZSF1)", "category": "Rat models", "tags": ["Rat", "Diabetes", "Drug response", "snRNA-seq"], "note": "Single-cell resolution effects of renin-angiotensin-aldosterone blockade.", "url": "https://data.susztaklab.com/ZSF1_RAASi", "papers": [{"label": "Balzer et al., J Am Soc Nephrol 2026", "url": "https://doi.org/10.1681/ASN.0000000995"}]}, {"title": "Rat 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
200ollecting 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;
200 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/"}]}
200, {"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/"}
200]}, {"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
200705", "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 acidâinduced 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/"}
200]}, {"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
200amples", "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. Ancestry-specific analysis indicated an attenuation of newly identified signals on common variants in European ancestry populations and the ", "url": "https://figshare.com/articles/dataset/Kidney_Multiome-based_Genetic_Scorecard_Reveals_Convergent_Coding_and_Regulatory_Variants_Datasets_/26299093", "papers": []}, {"title": "Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease (Data Set)", "category": "Susztak lab deposit on figshare (summary statistics)", "tags": ["figshare", "Kidney.eQTM.S414.Significant.CpGlevel.FDR0.05.txt.gz", "Kidney_meQTL_S443_Significant.q0.01.txt.gz", "Kidney_eQTL_Meta_S686_Significant.q0.01.txt.gz", "eGFRcrea_GWAS_S1.5million_Significant_Variants.txt.gz", "eGFRcrea_GWAS_S1.5million_Summary_Statistics.txt.gz", "snATAC_Peaks_Each_CellType.tar.gz"], "note": " Summary statistic data of eGFRcrea GWAS, kidney eQTL and kidney mQTL data Kidney mQTL mapping was performed based on genotype and DNA methylation data of kidney samples from 443 trans-ancestry individuals (79% are of European ancestry). The significance of the top associated variants per CpG was estimated by adaptive permutation in FastQTL using the covariates above and the setting â--permute 100", "url": "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", "papers": []}, {"title": "Susztak Lab Datasets", "category": "Susztak lab deposit on figshare (summary statistics)", "tags": ["figshare", "Blood_meQTL.FinalA1cSum.txt.gz", "Blood_meQTL.FinalAlbuSum.txt.gz", "Blood_meQTL.FinaleGFRSum.txt.gz", "Blood_meQTL.FinalSlpSum.txt.gz", "Blood_meQTL.mqtlFinalSum.txt.gz", "Kidney_eQTL.CXGlomsigeQTLsFormated.txt.gz", "Kidney_eQTL.CXTubsigeQTLsFormated.txt.gz", "Kidney_eQTL.FormatedeQTLcis.txt.gz", "Kidney_eQTL.GlomsigeQTLsFormated.txt.gz", "Kidney_eQTL.TubsigeQTLsFormated.txt.gz"], "note": " Susztaklab Kidney Biobank hosts comprehensive kidney omics data to help understand kidney homeostasis and disease. Susztaklab Kidney Biobank: https://susztaklab.com/ Susztak Lab: https://www.med.upenn.edu/susztaklab/ ", "url": "https://figshare.com/articles/dataset/Susztak_Lab_Datasets/21604026", "papers": []}, {"title": "Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments", "category": "Susztak lab deposit on figshare (summary statistics)", "tags": ["figshare", "GlomsigeQTLsFormated.txt.gz", "TubsigeQTLsFormated.txt.gz"], "note": "Summary statistic data of kidney tubule and glomerular eQTL data", "url": "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", "papers": []}, {"title": "Data repository: Spatial atlas of diabetic kidney disease reveals a B cell-rich subgroup", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo", "Diagnosis.xlsx", "spatial_adata_xenium_cosmx_zenodo.h5ad"], "note": "DOI 10.5281/zenodo.19868428", "url": "https://zenodo.org/records/19868428", "papers": []}, {"title": "High-resolution H&E images from the HistoSweep study across multiple tissues and diseases", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo", "Artery_Atherosclerosis.zip", "Kidney_RCC.zip", "Kidney_MultiSample_T2D.zip", "LymphNode_Melanoma.zip", "Lung_AAH.zip", "Lung_AD.zip"], "note": "DOI 10.5281/zenodo.18165537", "url": "https://zenodo.org/records/18165537", "papers": []}, {"title": "Spatial Dataset", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo"], "note": "DOI 10.5281/zenodo.17965639", "url": "https://zenodo.org/records/17965639", "papers": []}, {"title": "Human Kidney T2D and Normal HE", "category": "Susztak lab record on Zenodo (Image)", "tags": ["Zenodo", "kidney_he.jpg"], "note": "DOI 10.5281/zenodo.17228449", "url": "https://zenodo.org/records/17228449", "papers": []}, {"title": "A cross-species single-cell kidney atlas: Data repository", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo", "Human_ext_metadata.csv", "KRAD31_raw_feature_bc_matrix.h5", "KRAD70_raw_feature_bc_matrix.h5", "Human_extended.h5ad", "Mouse.h5ad", "SISKA_metadata.csv", "KRAD34_raw_feature_bc_matrix.h5", "SISKA.h5ad", "Rat.h5ad", "KRAD60_raw_feature_bc_matrix.h5", "KRAD46_raw_feature_bc_matrix.h5", "Human.h5ad"], "note": "DOI 10.5281/zenodo.15007208", "url": "https://zenodo.org/records/15007208", "papers": []}, {"title": "Open4Gene: a hurdle model-based method for peak-to-gene linkage analysis", "category": "Susztak lab record on Zenodo (Software)", "tags": ["Zenodo", "hbliu/Open4Gene-v1.0.0.zip"], "note": "DOI 10.5281/zenodo.12768472", "url": "https://zenodo.org/records/12768472", "papers": []}, {"title": "Suppl. Data for ZSF1_RAASi", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo"], "note": "DOI 10.5281/zenodo.8189327", "url": "https://zenodo.org/records/8189327", "papers": []}, {"title": "Suppl. Data for ZSF1rat sGC", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo", "Suppl. Dataset 10__DEGs PT & Stroma Obese vs. Lean.xlsx", "Suppl. Dataset 09__DEGs PT & Stroma all cluster
200s.xlsx", "Suppl. Dataset 08__Tensor gene score associations.xlsx", "Suppl. Dataset 07__Tensor unfolded loadings.xlsx", "Suppl. Dataset 06__Tensor decomposition factor loadings.xlsx", "Suppl. Dataset 05__DEGs Obese+sGCstim vs. Obese.xlsx", "Suppl. Dataset 04__DEGs Obese+sGCact vs. Obese.xlsx", "Suppl. Dataset 03__DEGs Obese vs. Lean.xlsx", "Suppl. Dataset 20__KEGG pathways & GO terms in WGCNA modules.xlsx", "Suppl. Dataset 02__DEGs all clusters.xlsx", "Suppl. Dataset 18__Trajectory regulon targets info.xlsx", "Suppl. Dataset 17__GO PTinj_1 vs. PTinj_2 semantic space.xlsx", "Suppl. Dataset 16__DEGs PTinj_1 vs. PTinj_2.xlsx", "Suppl. Dataset 15__Trajectory pathway enrichment.xlsx", "Suppl. Dataset 14__Trajectory top DEGs.xlsx", "Suppl. Dataset 01__Olink plasma.xlsx", "Suppl. Dataset 13__DEGs Stroma subclusters.xlsx", "Suppl. Dataset 21__Human kidney biopsy metadata.xlsx", "Suppl. Dataset 12__DEGs PT & Stroma Obese+sGCstim vs. Obese.xlsx", "Suppl. Dataset 11__DEGs PT & Stroma Obese+sGCact vs. Obese.xlsx", "Suppl. Dataset 19__WGCNA modules.xlsx"], "note": "DOI 10.5281/zenodo.6950236", "url": "https://zenodo.org/records/6950236", "papers": []}, {"title": "Epigenomic and transcriptomic analyses define core cell types, genes and targetable mechanisms for kidney disease (Code)", "category": "Susztak lab record on Zenodo (Software)", "tags": ["Zenodo", "hbliu/Kidney_Epi_Pri-Kidney_Epi_Pri.zip"], "note": "DOI 10.5281/zenodo.6392494", "url": "https://zenodo.org/records/6392494", "papers": []}, {"title": "Paired human macrophage RNA sequencing data", "category": "Susztak lab record on Zenodo (Dataset)", "tags": ["Zenodo", "macrophage_allele_specific_expression.txt"], "note": "DOI 10.5061/dryad.866t1g1nb", "url": "https://zenodo.org/records/4980857", "papers": []}]}</script>
vendor: 1 bytes, line 200
200
201<script>window.BIOBANK_ASK_ENDPOINT = "/.netlify/functions/ask"; window.BIOBANK_DATA_BASE = "https://data.susztaklab.com"; window.BIOBANK_LOOKUP = {"gene": [["Kidney eQTL meta-analysis (N = 686)", "/Kidney_eQTL/eQTLmeta.php?cpg={g}&snp=", "direct"], ["Cell-fraction eQTL", "/Kidney_eQTL/eQTL.php?cpg={g}&snp=&tpart=all", "direct"], ["Cell-type interaction eQTL", "/Kidney_eQTL/cieQTL.php?cpg={g}&snp=&tpart=all", "direct"], ["Bulk tubule and glomerular eQTL", "/Kidney_eQTL/beQTL.php?cpg={g}&snp=&tpart=all", "direct"], ["Kidney meQTL (by gene)", "/Kidney_meQTL/meQTL.php?cpg=&snp=&gene={g}", "direct"], ["Kidney eQTM (CpG to gene)", "/Kidney_meQTL/eQTM.php?cpg=&gene={g}", "direct"], ["GWAS gene prioritization", "/GWAS/Prioritization.php?cpg={g}&snp=", "direct"], ["Bulk expression versus eGFR and fibrosis", "/Kidney_Fibrosis/Search.php?cpg={g}", "direct"], ["Human kidney snATAC-seq v2 (IGV at the gene)", "/Human_snATAC/index.php?locus={g}", "direct"], ["Human kidney disease snATAC-seq (IGV at the gene)", "/Human_CKD_snATAC/index.php?locus={g}", "direct"], ["Human kidney snATAC-seq v1 (IGV at the gene)", "/human_kidney/igv/?locus={g}", "direct"], ["Mouse kidney disease models, bulk expression", "/Mouse_Model_Exp/Search.php?cpg={m}", "direct"], ["Developing mouse kidney snATAC-seq (IGV at the gene)", "/developing_adult_kidney/igv/?locus={m}", "direct"], ["DOCA rat snATAC-seq (IGV at the gene)", "/DOCA_Rat_snATAC/?locus={m}", "direct"], ["Human single-cell gene map (type the gene)", "/hk_genemap/scRNA", "open"], ["Human and KPMP merged gene map (type the gene)", "/hk_genemap_kpmp/scRNA", "open"], ["SISKA multispecies atlas (type the gene)", "https://susztaklab.com/SISKA/human", "open"], ["Kidney protein QTL atlas (type the gene)", "/pl/pQTL", "open"], ["Mouse kidney scRNA-seq atlas (type the gene)", "https://susztaklab.com/EH/park", "open"], ["Rat DOCA gene map (type the gene)", "/genemap_rat", "open"]], "variant": [["eGFR GWAS, 2.2 million (variant lookup)", "/GWAS2M/GWAS.php?cpg=&snp={rs}", "direct"], ["eGFR GWAS, 1.5 million (variant lookup)", "/GWAS/GWAS.php?cpg=&snp={rs}", "direct"], ["GWAS gene prioritization (by variant)", "/GWAS/Prioritization.php?cpg=&snp={rs}", "direct"], ["Kidney eQTL meta-analysis (by variant)", "/Kidney_eQTL/eQTLmeta.php?cpg=&snp={rs}", "direct"], ["Kidney meQTL (by variant)", "/Kidney_meQTL/meQTL.php?cpg=&snp={rs}&gene=", "direct"], ["Blood mQTL (by variant)", "/mqtl/mQTL.php?cpg=&snp={rs}", "direct"]], "cpg": [["Kidney meQTL (by CpG)", "/Kidney_meQTL/meQTL.php?cpg={cg}&snp=&gene=", "direct"], ["Kidney eQTM (by CpG)", "/Kidney_meQTL/eQTM.php?cpg={cg}&gene=", "direct"], ["Blood mQTL (by CpG)", "/mqtl/mQTL.php?cpg={cg}&snp=", "direct"], ["Blood MWAS (by CpG)", "/mqtl/mwas.php?cpg={cg}", "direct"]]};</script>
vendor: 1 bytes, line 201
201
202<script src="js/biobank.js"></script>
vendor: 1 bytes, line 202
202
203<script src="js/ask.js"></script>
203 204</body> 205</html>
206<script async src="/.netlify/scripts/hud?variant=public" data-nf-variant="public" data-netlify-site-id="8fa7b2b4-d0fd-43be-98d1-e71021c18142" data-app-host="app.netlify.com"></script>
vendor: 1 bytes, line 206
206
Line numbers count LF bytes from the start of the resource, as the search results do. Vendor segments are library code the classifier recognised; they are stored but not indexed. Bytes are shown as Latin1 characters, one per byte.