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Configure Tracks on UCSC Genome Browser: Human Dec. 2013 (GRCh38/hg38)
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-   Hub: MethBase2    
Human methylome studies Human methylome studies
     SRP543819     Seminal Plasma cell-free DNA [Seminal Plasma]
     SRP533334     Methylation patterns of the nasal epigenome of hospitalized SARS-CoV-2 positive patients reveal insights into molecular mechanisms of COVID-19 [Nasopharyngeal Swab]
     SRP526064     Valine-restricted diet regulates DNA methylation [Bisulfite-Seq] [HCT116]
     SRP523710     Rapid Human Oogonia-like Cell Specification via Combinatorial Transcription Factor-Directed Differentiation [BiSulfite-seq] [DDX4+ Induced Oogonia-Like Cells, DDX4+ Induced Oogonia-Like Cells (No DNMT1i), DDX4+ Induced Oogonia-Like Cells, Naive Reset, hPGCLC, hiPSC_naivereset, hiPSC_primed]
     SRP521389     Bisulfite-Free Whole-Genome Mapping of 5-Methylcytosine at Single-Base Resolution by TAD-seq [Embryonic Kidney]
     SRP519334     sciMETv3 Single-cell DNA Methylation Raw Sequence Reads [BA46]
     SRP515825     Mitochondria-localized MBD2c facilitates mtDNA transcription and drug resistance [Bisulfite-Seq] [MDA-MB-468]
     SRP515320     Epigenetic dysregulation of transposable elements in cognitive impairment and Alzheimer's disease [Isolated WBC]
     SRP514328     DNA 5-methylcytosine regulates genome-wide formation of G-quadruplex structures [WGBS] [Embryonic Kidney]
     SRP511776     Patient TSC2 Mutant Cells Exhibit Aberrations in Early Neurodevelopment Accompanied by Changes in the DNA Methylome (Bisulfite-Seq) [Induced Pluripotent Stem Cells (iPSC), iPSC-derived Neural Progenitor Cells]
     SRP510797     Homo sapiens Raw sequence reads [Clear Renal Carcinoma Cells Caki1, Kaiso-deficient Caki1]
     SRP504106     Mutant IDH1 inhibition induces reverse transcriptase and dsDNA sensing to activate tumor immunity [human WGBS] [Tumor Cells]
     SRP503688     Genome-wide DNA methylation seq data and RNA seq data in three paired HCC and normal tissue samples [HCC Tissue, Paracancerous Tissue]
     SRP499337     Repetitive element transcript accumulation is related to inflammaging in humans [PBMC]
     SRP496763     Charting the regulatory landscape of TP53 on transposable elements in cancer [WGBS] [SRS20802026, SRS20802027, SRS20802028, SRS20802029, SRS20802030, SRS20802031, SRS20802032, SRS20802033, SRS20802034, SRS20802035, SRS20802036, SRS20802037, SRS20802038, SRS20802039, SRS20802040, SRS20802041, SRS20802042, SRS20802043, SRS20802044, SRS20802045, SRS20802046, SRS20802047, SRS20802048, SRS20802049]
     SRP494242     Methylation changes induced by alpha-hemolysin from Staphylococcus aureus in human primary Th17 lymphocytes. [Lymphocyte]
     SRP491820     Cell-free DNA Methylation Patterns in Aging and Their Association with Inflamm-aging [Plasma]
     SRP490212     UHRF1 ubiquitin ligase activity supports the maintenance of low-density CpG methylation [BiSulfite-seq] [Colorectal Carcinoma Epithelial Cells]
     SRP490076     Persistent epigenome anomalies in induced pluripotent stem cells from late-onset sporadic Alzheimer's disease cases [BiSulfite-seq] [iPSC]
     SRP485412     PRC2-AgeIndex: a universal biomarker of aging and rejuvenation [WGBS] [Dermal Fibroblasts, Foreskin Fibroblasts]
     SRP478956     Divergent originations of parental DNA hydroxymethylation in human preimplantation embryos [Embryonic Stem Cells]
     SRP474233     Identification of differentially expressed tumour-related genes regulated by UHRF1 regulated DNA methylation [WGBS] [Breast Cancer Cell]
     SRP473783     scNanoSeq-CUT&Tag: a long-read single-cell CUT&Tag sequencing method for efficient chromatin modification profiling within individual cells [Lymphoblast]
     SRP470181     Hypermethylation of DNA impairs megakaryogenesis in delayed platelet recovery after allogeneic hematopoietic stem cell transplantation [Hematopoietic Stem Cells, Megakaryocyte Progenitor Cells]
     SRP467414     DNA methylation profiling identifies TBKBP1 as potent amplifier of cytotoxic activity in CMV-specific human CD8+ T cells [CD8 T Cell]
     SRP464289     DNMT3B PWWP mutations cause hypermethylation of heterochromatin (WGBS) [Colorectal Cancer Cell Line]
     SRP462543     iPSC-based modeling of preeclampsia identifies defects in extravillous trophoblast differentiation [EVT, MSC, hTSC, iPSC]
     SRP461724     Endogenous retrovirus LTR12C hold potential locus-dependent activities as promoter and/or enhancer [BiSulfite-seq] [Embryonic Kidney]
     SRP461642     Whole genome bisulfite sequencing identifies stage- and subtype-specific DNA methylation signatures in pancreatic cancer [Normal Pancreatic Ductal Organoid, PanIN Organoid, Pancreatic Ductal Adenocarcinoma Organoid]
     SRP456514     A modular dCas9-based recruitment platform for combinatorial epigenome editing [Embyonic Kidney]
     SRP454277     Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip for DNA methylation profiling [WGBS] [Prostate Tumour]
     SRP452335     Epigenetic sequencing of allogeneic HSC-derived CAR-engineered NKT cells [BCAR-T, BCAR-iNKT, BCAR-iNKT-IL15]
     SRP451599     The effect of Histone H3.3 knockdown on DNA methylation in HepG2 cells [Hepatoma Cell]
     SRP450683     Epigenomic landscape of colorectal adenoma and cancer [Colorectal]
     SRP450395     Epigenetic therapy targets the 3D epigenome in endocrine-resistant breast cancer [WGBS] [Breast Cancer PDX Model Gar15-13, Breast Cancer PDX Model HCI005]
     SRP446321     Non-canonical functions of UHRF1 maintain DNA methylation homeostasis in cancer cells [Colorectal Cancer Cell]
     SRP441209     Omics analyses of stromal cells from ACM patients reveal alterations in chromatin organization and mitochondrial homeostasis [Bisulfite-Seq] [Cardiac Mesenchymal Stromal Cells]
     SRP441171     Single-stranded Premethylated 5mC Adapters Uncovers the Methylation Profile of Plasma Ultrashort Single-Stranded Cell-Free DNA [Plasma]
     SRP440514     TNRC18 recognizes H3K9me3 to mediate transposable elements silencing at ERV regions [WGBS] [Embryonic Kidney]
     SRP439675     NPC268 whole-genome bisulfite sequencing (WGBS) [Nasopharyngeal Carcinoma]
     SRP436137     Malignant Transformation Drives DNA Methylation Loss and Transcriptional Activation of Transposable Element Loci [WGBS] [Fibroblast]
     SRP434804     MECP2 directly interacts with RNA polymerase II to modulate transcription in human neurons [WGBS] [Neuron]
     SRP432935     Epigenetic modification sequencing data of human U2OS cells [Epithelial Cell]
     SRP430982     Whole genome bisulfite sequencing data of blood cfDNA form 29 CRC and 9 Non-CRC patients. [Blood]
     SRP426633     DNA methylation alterations in prostate cancer patient derived xenograft models revealed by whole genome bisulfite sequencing [Patient Derived Xenograft]
     SRP426514     Epigenetic therapy activates TE-chimeric transcripts to provide additional source of antigens in glioblastoma stem cells [Astrocytes, Glioblastoma Stem Cell, Primary Dermal Fibroblast]
     SRP424257     Direct enzymatic sequencing of 5-methylcytosine at single-base resolution [1] [Glioblastoma Tumor]
     SRP423445     Ultrafast Bisulfite Sequencing for Efficient and Accurate 5-Methylcytosine Detection in DNA and RNA [Plasma, Stem Cell, mESC]
     SRP420728     5-hydroxymethylcytosines regulate gene expression as a passive DNA demethylation resisting epigenetic mark in proliferative somatic cells [methylation] [HEK293T]
     SRP415835     Comprehensive sequence-based DNA methylation analysis suggests that PanIN lesions are acinar-derived and epigenetically primed for carcinogenesis [Acini, Ducts, PDAC Lesion, PanIN Lesion]
     SRP409096     Epigenetic dynamics during capacitation of naïve human pluripotent stem cells [PBAT] [Chemically Reset hPSC, Conventional hPSC, Embryo-Derived Naive hPSC]
     SRP408041     The catalytic activity of TET1 is required for human germ cell fate choice [Bisulfite-Seq] [hESC, hPGCLC]
     SRP405928     Optimized bisulfite sequencing reveals the lack of 5-methylcytosine in mammalian mitochondrial DNA [WGBS] [Brain, Breast Cancer Cell, Embryonic Kidney Cell, Embryonic Stem Cell, Hepatocarcinoma Cell, Lung Adenocarcinoma Cell, Melanoma Cell, Neuroblastoma Cell, Platelet]
     SRP405874     Rebalancing TGFß1/BMP Signals Preserves Effector and Memory Programs in Terminally Dysfunctional CD8+ T Cells [Bisulfite-Seq] [CD8+]
     SRP404930     LN-stem, tumor stem, tumor terminally differentiated CD8 T cells from human kidney cancer [CD8 T Cell, Endo CD8 T Cell, P14 CD8 T Cell]
     SRP400466     Multiplex Epigenome Editing of MECP2 to Rescue Rett Syndrome Neurons (WGBS) [Embryonic Stem Cells]
     SRP398111     to be updated [Blood]
     SRP397737     Global hypermethylation of intestinal epithelial cells is a hallmark feature of neonatal surgical necrotizing enterocolitis [lcm_colon_ileum] [Epithelial]
     SRP397676     Loss of tight junctions disrupts gastrulation patterning and increases differentiation towards the germ cell lineage in human pluripotent stem cells [hiPSC]
     SRP396738     Highly efficient and rapid generation of human pluripotent stem cells by chemical reprogramming (WGBS) [Adult Adipose Derived Mesenchymal Stromal Cells, Chemically Induced Pluripotent Stem Cells]
     SRP396513     Rockfish: Detection of 5mC DNA Modifications Using Raw Nanopore Signal [Embryonic Stem Cell, Purified Cardiomyocyte]
     SRP396408     Neonatal necrotizing enterocolitis-associated DNA methylation signatures in the colon are evident in stool samples of affected individuals [Colon Tissue, Stool]
     SRP396192     DNA Methylation Profile of Lip Tissue from Congenital Non-syndromic Cleft Lip and Palate Patients by Whole Genome Bisulfite Sequencing [Lip Tissue]
     SRP395427     WGBS-seq and oxWGBS-seq Atlas for Oral Squamous Cell Carcinoma [Normal Adjacent Tissue, OSCC Tissue]
     SRP394454     Methylation profile of latent metastatic (Lat-M) cells from clear cell renal cell carcinoma (ccRCC) [Kidney Cancer Cells]
     SRP392105     Placental ischemia disrupts DNA methylation patterns of distal regulatory regions in rat [Placenta, Planceta]
     SRP389118     Comprehensive analyses of partially methylated domains and differentially methylated regions in esophageal cancer reveal both cell-type- and cancer-specific epigenetic regulation [WGBS] [Esophageal Adenocarcinoma, Esophageal Squamous Cell Carcinoma]
     SRP387971     Tonic-signaling chimeric antigen receptors drive human regulatory T cell exhaustion [CD4+ TCONV Cells, CD4+ TREG Cells]
     SRP387319     Dysfunction of 5-methylcytosine oxidases and the Polycomb protein RYBP leads to widespread DNA hypermethylation and cell transformation [WGBS] [Bronchial Cells]
     SRP387154     Accurate simultaneous sequencing of genetic and epigenetic bases in DNA [B-Lymphocyte]
     SRP386415     SELF-PATTERNING OF HUMAN STEM CELLS INTO POST-IMPLANTATION LINEAGES [Embryonic Stem Cell Line]
     SRP384348     Evidence that direct inhibition of transcription factor binding is the prevailing mode of gene and repeat repression by DNA methylation [WGBS-Seq] [Ebryonic Stem Cells, Embryonic Kidney Cells, Ngn2_neurons]
     SRP377560     Reversible epigenetic alterations mediate PSMA expression heterogeneity in advanced metastatic prostate cancer. [LuCaP 77, LuCaP 78, LuCaP 93]
     SRP376918     Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes [B-Lymphocyte/ Embryonic Kidney/ Breast Cancer, Breast Cancer, Embryonic Kidney]
     SRP375137     DNMT3A-mediated DNA demethylation is required for hypoxia induced EMT of human cancer cells
     SRP373924     NOMe-Seq analysis of IMR-90 cell line II [IMR-90]
     SRP373708     WGBS of primary and recurrent ovarian cancer tumors with and without BRCA1/2 mutations [Ovarian Cancer Tumors]
     SRP373598     GM12878 MultiOmics [B-Lymphocyte]
     SRP368308     Lack of major genome-wide DNA methylation changes in succinate-treated human epithelial cells [Bronchial Cells]
     SRP367891     DNA methylation analysis of malignant and normal uveal melanocytes reveals novel molecular features of uveal melanoma [Primary Culture, UM Sorted Cells]
     SRP364929     human rDNA obesity [Blood]
     SRP362494     The aberrant epigenome of DNMT3B-mutated ICF1 patient iPSCs is amenable to correction, with the exception of a subset of regions with H3K4me3- and/or CTCF-based epigenetic memory (WGBS) [iPSCs]
     SRP358957     WGBS of OLD and YOUNG primary Fibroblasts [Fibroblast]
     SRP357372     WGBS and RNA-seq of HUVECs transfected with siNC or siTET2 [Umbilical Vein Endothelial Cells]
     SRP357363     Whole-genome bisulfite sequencing anaysis of PSCs [Feeder-free PSC]
     SRP357194     HPV integration generates cellular super enhancer and functions as ecDNA to regulate genome-wide transcription [C33A, CaSki, HeLa, S12, SiHa]
     SRP356708     Young vs Old Fibroblast WGBS [Skin]
     SRP353982     methyl-Seq of Pediatric ARDS Nasal and Bronchial Brushings [Bronchial, Nasal]
     SRP353670     DNA Methylation Potential Energy Landscape Analysis of MLL-rearranged Acute Myeloid Leukemia (AML) and Normal hematopoietic precursors [WGBS] [Acute Myeloid Leukemia, GMP, HSC, L-MPP]
     SRP353536     Transcriptome and Bisulfite sequencing of drug treated breast cancer cell lines [Mammary Gland]
     SRP353340     NOMe-Seq analysis of IMR-90 cell line [IMR-90]
     SRP353040     WGBS of control and DAC-treated tumor tissue from PDX model [Colorectal Cancer]
     SRP352189     CRISPR-based targeted haplotype-resolved assembly of a megabase region [WGBS] [B Cell]
     SRP348645     Transcriptomic and Epigenomic Profiles of CIC-knockout and IDH1 mutant cells [WGBS] [Immortalized Astrocyte Cells]
     SRP346999     Whole genome bilsufite sequencing of sgTET2 HepG2 [Missing]
     SRP346828     NOMe-HiC: joint profiling of genetic variants, DNA methylation, chromatin accessibility, and 3D genome in the same DNA molecule [Lung Fibroblast Cell Line]
     SRP345048     Antigen cross-presentation in young tumor-bearing hosts promotes CD8 T cell terminal differentiation [WGBS] [Germ Cell Tumor]
     SRP342964     scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation [Lymphoblast Cell Line]
     SRP341621     LABS: linear amplification-based bisulfite sequencing for ultrasensitive cancer detection from cell-free DNA [Plasma Separated]
     SRP339574     Methylation Mediated Silencing of Protein Kinase C Zeta Induces Apoptosis Avoidance through ATM/Chk-2 Inactivation in Dedifferentiated Chondrosarcoma [Chondrosarcoma Cell Line]
     SRP338853     DNA methylation of MOLM-13 cells [AML, Cell Line]
     SRP338680     Molecular profile of HepG2 cell line (IBMC) [Liver]
     SRP338189     Deleting DNMT3A in CAR T cells prevents exhaustion and 1 enhances antitumor activity [T Cells]
     SRP337501     DNA methylation landscape and signature of CD4+ lymphocytes of lamina propria in Crohn's patients by reduced representation and bisulfite sequencing [BiSulfite-seq] [Isolated CD4+ Cells]
     SRP337159     Homo sapiens Epigenomics [Sperm]
     SRP337018     whole-genome wide DNA methylation aberration in HCC [Liver]
     SRP336573     Perturbation of TET2 condensation induces genome-wide promiscuous DNA hypomethylation and curtails leukemia cell growth [Embryonic Stem Cells (mESCs), Leukemia Cell Line]
     SRP334550     Proinflammatory cytokines promote TET2-mediated DNA demethylation during CD8 T cell effector differentiation [CD8+ T Cells]
     SRP332448     H3K9 dimethylation safeguards cancer cells against activation of the Interferon pathway [WGBS] [U937]
     SRP332277     Methyl-seq Human [Sperm]
     SRP332046     The WGBS and ATAC-seq from human serum and amniotic cell [Blood]
     SRP330251     Vitamin B12 regulates the transcriptomes of human ileal epithelial cells (iECs) [Ileum]
     SRP329794     Anchor-Based Bisulfite Sequencing determines genome-wide DNA methylation [Erythroleukemic Cell Line]
     SRP328700     Whole genome methylation profiliing between the IMU and KRT subtypes of HPV-associated head and neck cell carcinoma (HNSCC) [Head And Neck Cell Carcinoma]
     SRP325924     Distinct DNA methylation landscape between pediatric brain and adult brain [Cerebellum, Cerebrum]
     SRP325722     Chemical-based external stimulation reprograms human somatic cells into pluripotency (WGBS) [Adult Adipose Derived Mesenchymal Stromal Cells, Chemically Induced Pluripotent Stem Cells, Embryonic Fibroblasts, hES Cells H1, hES Cells H9]
     SRP325428     Systematic profiling of DNMT3A variants reveals protein instability mediated by the DCAF8 E3 ubiquitin ligase adaptor [Embryonic Stem Cells, Lymphoblastoid Cell Line]
     SRP325062     Cerebrospinal fluid cell-free DNA methylomes recapture pediatric medulloblastoma tissue's tumor feature [CSF, Tumor_tissue]
     SRP324100     Placental methylome reveals a 22q13.33 brain regulatory gene locus associated with autism [WGBS] [Placenta]
     SRP324016     Cerebrospinal fluid cell-free DNA methylomes subtyping pediatric medulloblastoma [Cerebrospnial Fluid]
     SRP323990     Identification of DNA Methylation Predicts Onset of PTSD and Depression Following Trauma [Peripheral Blood Mononuclear Cells]
     SRP323101     RRBS-based quantitative methylation analysis define 100% methylation fidelity CpG sites [Epithelial Cells, Lymphocyte Cells]
     SRP323032     Mapping the glucocorticoid gene regulatory network and alterations that contribute to steroid resistance in childhood acute lymphoblastic leukemia [WGBS] [ALL]
     SRP321876     Genetic variation at mouse and human ribosomal DNA influences associated epigenetic states [Blood, Kidney]
     SRP321573     Conservation and divergence of DNA methylation patterns and functions in vertebrates [Primary Dermal Fibroblasts, Psoas Muscle]
     SRP320538     Dynamic patterns of DNA methylation in the normal prostate epithelial differentiation program are targets of aberrant methylation in prostate cancer [BiSulfite-seq] [HPr1-AR]
     SRP319892     Expanding highly homogenous population of human primordial germ cell like cells in long-term and feeder-free culture condition [WGBS] [EGC, Freshly Isolated PGCLC, Long-Term Culture PGCLC C56, Long-Term Culture PGCLC C63, Long-Term Culture PGCLC C71, Long-Term Culture PGCLC C84, iPSC]
     SRP318399     DNA methylation profiles of four immune cell types from MS patients and healthy controls [CD14+ Monocytes, CD19+ B Cells, CD4+ T Cells, CD8+ T Cells]
     SRP316873     Whole-Genome Bisulfite Sequencing of Nasopharyngeal Carcinoma and Nasopharyngeal Epithelial Tissues [SeqCapEpi] [C17, C666, Methylation Control, NP361, NP361EBV, NP550EBV, NPC43]
     SRP316059     NSCLP-Twins [Saliva DNA]
     SRP315878     Homo sapiens Epigenomics [Bone Marrow, Peripheral Blood]
     SRP315039     DNA methylome and genome sequencing of human ovarian epithelial cell line [Ovarian Epithelial Cell Line]
     SRP314963     The proline and serine rich protein PROSER1 mediates O-GlcNAcylation of TET2 to regulate DNA demethylation on UTX-dependent enhancers and CpG islands [WGBS] [Embryonic Kidney Cells]
     SRP310254     DNMT3A haploinsufficiency causes dichotomous DNA methylation defects at enhancers in mature human immune cells [BiSulfite-seq] [hESC-derived Macrophages]
     SRP309472     Epigenetic crosstalk [KYSE-30]
     SRP309354     Stable DNMT3L Overexpression in SH-SY5Y Neurons Recreates a Facet of the Genome-Wide Down Syndrome DNA Methylation Signature [SH-SY5Y]
     SRP309314     Epigenomics of nasal mucosa in children with acute respiratory illness [Nasal Mucosa]
     SRP308854     Age-associated cryptic transcription in mammalian stem cells is linked to permissive chromatin at cryptic promoters [WGBS]
     SRP308810     Genome-wide Programmable Transcriptional Memory by CRISPR-based Epigenome Editing [HEK293T]
     SRP308490     Pan-cancer predictions of transcription factors mediating aberrant DNA methylation [HCC1954 Cells, hTERT-HME1 Cells]
     SRP304712     Epigenome profiling in gastric carcinogenesis by whole genome bisulfite sequencing [Stomach]
     SRP304684     Inherent genomic properties underlie the epigenomic heterogeneity of human induced pluripotent stem cells [WGBS]
     SRP304130     Impact of exposures to persistent endocrine disrupting compounds on the sperm methylome in regions associated with neurodevelopmental disorders [Sperm]
     SRP304105     Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability [MCF-7]
     SRP299802     Acute lymphoblastic leukemia displays a distinct highly methylated genome [ALL-SIL, DND41, Jurkat, LOUCY, MHH-CALL-2, MHH-CALL-4, MOLT-16, MUTZ5, NALM-16, NALM-6, PEER, PER-117, RPMI-8402, TALL-1]
     SRP299418     cell-free DNA sequencing of plasma [Plasma]
     SRP298508     Alternative splicing and the epigenome in CML remission [WGBS] [PBMCs]
     SRP298022     DNA hydroxymethylation analysis for target regions in human smooth muscle cells. [Cultured Smooth Muscle Cells]
     SRP298020     DNA methylation analysis for target regions in human smooth muscle cells. [Cultured Smooth Muscle Cells]
     SRP293255     DNA Methylation Potential Energy Landscape Analysis of Pediatric Pre-B cell Acute Lymphoblastic Leukemia (ALL) and Normal B cells and precursors [Cell Line, Primary]
     SRP291325     Transient naive reprogramming corrects hiPS cells functionally and epigenetically [WGBS 2] [Cultured Fibroblasts, Embryonic Stem Cells, Pluripotent Stem Cells, Reprogramming Intermediate Cells]
     SRP286872     Transient naive reprogramming corrects hiPS cells functionally and epigenetically [WGBS] [Embryonic Stem Cells, Keratinocytes, Mesenchymal Stem Cells, Pluripotent Stem Cells, Secondary Fibroblasts]
     SRP286409     H3K27me3 shapes DNA methylome by inhibiting UHRF1-mediated H3 ubiquitination [Bisulfite-seq] [E14, HeLa]
     SRP286271     Homo sapiens Raw sequence reads [Cervical Cancer Adjacent Tissue, Cervical Cancer Tissue, Cervical Cells]
     SRP286180     Comprehensive methylome sequencing reveals prognostic epigenetic biomarkers for prostate cancer mortality [Adjacent Normal, Tumour]
     SRP282493     DNA methylation maintains integrity of higher order genome architecture (WGBS) [HCT116]
     SRP278588     DNA methyation of intragenic CpG islands are required for differentiation from iPSC to NPC [Induced Pluripotent Stem Cell, Induced Pluripotent Stem Cell Derived]
     SRP278376     Epigenetic Landscape of Pediatric Ependymoma Recurrence [Brain]
     SRP273813     Whole genome methylation sequencing of circulating tumor cells (CTCs) in Lung cancer. [Adjacent Normal Tissue, Blood, Lung]
     SRP272595     WGBS analysis of various colon cancer cell lines [Colorectal Adenocarcinoma]
     SRP272481     GATA transcription factors, SOX17 and TFAP2C, drive the human germ-cell specification program [Bisulfite-Seq] [585B1 hiPSCs]
     SRP271639     Cell-free DNA Methylation and Transcriptomic Signature Prediction of Pregnancies with Adverse Outcomes [WGBS] [Plasma]
     SRP268979     Loss of epigenetic suppression of retrotransposons with oncogenic potential in aging mammary luminal epithelial cells [Mammary Luminal Epithelial Cells]
     SRP268783     Acute depletion of CTCF rewires genome-wide chromatin accessibility
     SRP268755     Probing the signaling requirements for naïve human pluripotency by high-throughput chemical screening [WGBS] [Naive hESC, Naïve hESC, Primed hESC]
     SRP267967     Characterization of universal features of partially methylated domains across tissues and species [Breast Tumor, Lung]
     SRP267867     Human ribosomal DNA (rDNA) epigenetic clock [Whole Blood]
     SRP266759     DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumour immunotolerance [BS] [MCF7, SK-MEL-28]
     SRP266653     TNF induced inflammatory transcription dynamics and epigenetic changes [HEK 293 Transfected With Reporter Construct]
     SRP266187     Non-CG methylation and multiple epigenetic layers associate child abuse with immune and small GTPase dysregulation [Lateral Amygdala (Brain Tissue)]
     SRP265926     2-hydroxyglutarate drives whole-genome hypermethylation in kidney cancer cells with inactivated VHL [Caki1 Cell Line, Wildtype VHL, Clone12, Exogenous Wildtype VHL Reintroduced, Clone30, Exogenous Wildtype VHL Reintroduced, Clone44, Exogenous Wildtype VHL Reintroduced, VHL Inactivated, Clone12, VHL Inactivated, Clone30, VHL Inactivated, Clone44]
     SRP261643     Comprehensive epigenomic profiling of human alveolar epithelial differentiation identifies key epigenetic states and transcription factor co-regulatory networks for maintenance of distal lung identity [In Vitro Differentiated AT1-like Cells, Purified Primary AT2 Cells]
     SRP261501     Tissue-Biased Expansion of DNMT3A-Mutant Clones Associated with Conserved Epigenetic Alterations [CD34+ HSPCs]
     SRP260840     Naïve human embryonic stem cells can give rise to cells with trophoblast-like transcriptome and methylome [Bisulfite-Seq] [Embryonic Stem Cells, Transdifferentiated Trophoblast Stem Cells, Trophoblast Stem Cells]
     SRP259369     Epigenome Dysregulation Resulting from NSD1 mutation in Head and Neck Squamous Cell Carcinoma
     SRP259185     Multi-omics analysis reveals divergent epigenetic regulation of gene expression and drivers of esophageal squamous cell carcinoma (WGBS) [Adjacent Normal Esophageal Tissue, Esophageal Squa Carcinoma]
     SRP254660     H3K27M in Gliomas Causes a One-step Decrease in H3K27 Methylation and Reduced Spreading Within the Constraints of H3K36 Methylation [WGBS] [BT245, G477, HSJ-019, SU-DIPGXIII]
     SRP253922     Long-term expansion with germline potential of human primordial germ cell-like cells in vitro [Bisulfite-seq] [585B1-BTAG]
     SRP253848     LiBis: An ultrasensitive alignment method for low-input bisulfite sequencing [Blood, Tumor]
     SRP251688     Signalling networks constructed by integrative analysis of multi-omics in peripheral blood mononuclear cells in systemic lupus erythematous patients [PBMCs]
     SRP250803     Genome-wide R-loop landscapes during epigenetic programming and reprogramming [Embryonic Stem Cells, Induced Pluripotent Stem Cells, Mesenchymal Stem Cell, Neural Stem Cells, Vascular Endothelial Cells, Vascular Smooth Muscle Cells]
     SRP246939     Beta cell-specific CD8+ T cells maintain stem-cell memory-associated epigenetic programs during type 1 diabetes (WGBS) [HAART HIV TN CD8 T Cells, Polyclonal Naive CD8 T Cell HD, Polyclonal T1D Naive CD8 T Cells, Polyclonal TCM CD8 T Cells, Polyclonal TEM CD8 T Cells, Polyclonal TSCM CD8 T Cells, Tetramer+ CD8 T Cells, Tetramer+ HAART CD8 T Cells, Tetramer+ T1D CD8 T Cells]
     SRP241842     REH MultiOmics [B Cell Precursor Leukemia]
     SRP239226     Principles of Signalling Pathway Modulation for Enhancing Human Naïve Pluripotency Induction [WGBS] [Embryonic Stem Cells]
     SRP238023     Reliable tumor detection using cerebrospinal fluid cell-free DNA methylomes in pediatric medulloblastoma [Cerebrospnial Fluid, Normal Cerebellum Tissue, Pediatric Medulloblastoma Tumr Tissue]
     SRP237955     Molecular atlas of fetal and adult human liver sinusoidal endothelial cells: a F8 secreting cell [methylation III] [Hepatic Sinusoidal Endothelial Cells]
     SRP233253     Comparison of EM-seq and WGBS results [B-Lymphocyte, Lung, Plasma]
     SRP230793     Cord blood DNA methylome in newborns later diagnosed with autism spectrum disorder reflects early dysregulation of neurodevelopmental and X-linked genes [Umbilical Cord Blood]
     SRP230618     Differential DNA methylation profiles of HS ILAE type 1 in human temporal lobe epilepsy [Brain; Hippocampus]
     SRP230221     Chromatin dynamics reveal circadian control of human in vitro islet maturation [WGBS] [Primary Adult Alpha Cell, Primary Adult Beta Cell, hPSC-derived Beta Cell, hPSC-derived Definitive Endoderm, hPSC-derived Endocrine Progenitor, hPSC-derived Pancreatic Progenitor 1, hPSC-derived Pancreatic Progenitor 2, hPSC-derived Poly-Hormonal Cell]
     SRP229996     Stem and effector CD8 T-cells from human cancers [CD8 T-cell]
     SRP226234     An ExtendedCulture System that Supports Human Primordial Germ Cell-Like Cells Survival and Initiation of DNA Methylation Erasure [hESCs]
     SRP224808     Whole genome bisulfite sequencing of human spermatozoa reveals differentially methylated patterns from type 2 diabetic patients [Semen]
     SRP223612     Whole Genome Bisulfite sequencing: Allele-specific DNA methylation is increased in cancers and its dense mapping in normal plus neoplastic cells increases the yield of disease-associated regulatory SNPs [Bladder Cell Line, Blood, Bone Marrow, Brain, Breast (Primary Tissue), Breast Cell Line, Cell Line, Liver, Lymph Node, Placenta, Placenta, Maternal]
     SRP223055     Tibetan humans Raw sequence reads [Blood]
     SRP221227     Persistent epigenetic memory impedes rescue of the telomeric phenotype in human ICF iPSCs following DNMT3B correction [iPSCs]
     SRP220467     Human embryonic stem cell-derived organoidal retinoblastoma reveals cancerous origin and therapeutic target [Rb Organoids, Retinal Organoids]
     SRP220230     Human, Chimpanzee, Gorilla, Orangutan, Macaque Epigenomics [LCL]
     SRP219798     Regulation of DNA Methylation at Enhancers by TET2 Finetunes Gene Transcription in ERa-Positive Breast Cancer Cells [MCF7 Cells]
     SRP217139     Lactate mediated epigenetic reprogramming during cancer associated fibroblast formation [CAF, MSC]
     SRP217135     Systematic evaluation of library preparation methods and sequencing platforms for high-throughput whole genome bisulfite sequencing [WGBS] [CD4, Neutrophils, Whole Blood]
     SRP215940     The DNA methylomes of hyper-IgM syndrome type 2 B cells provide insights into the roles of activation-induced deaminase prior to the germinal center reaction [Naive B Cell, Non-Class-Switched Memory B Cells]
     SRP213665     The strand-biased mitochondrial DNA methylome and its regulation by DNMT3A [HEK293T_WGBS] [HEK293T]
     SRP213117     Single-cell transcriptome analysis of uniparental embryos reveals parent-of-origin effects on human preimplantation development [methylation] [AG Embryo_8-Cell, BI Embryo_8-Cell, PG Embryo_4-Cell, PG Embryo_8-Cell]
     SRP199200     CATACOMB: an endogenous inducible gene that antagonizes H3K27 methylation activity of Polycomb Repressive complex 2 via a H3K27M-like mechanism [HEK-293T]
     SRP199025     Molecular mechanism of KCNJ5 gene hotspot mutation in adrenal aldosteronoma [Adrenal Gland]
     SRP198624     Whole genome bisulfite sequencing of esophagus squamous cell carcinoma [Esophagus]
     SRP198282     Hammer-seq to measure kinetics of DNA methylation maintenance in HeLa cells [Embryonic Stem Cell, Epithelial Adenocarcinoma]
     SRP194341     Whole-exome, transcriptome and epigenome data for homo sapiens from normal to dysplasia to colorectal cancer [Colon]
     SRP193843     DNMT1 drives 4D genome rewiring during oncogene induced senescence [WI-38hTERT/GFP-RAF1-ER]
     SRP193431     Early detection of lung cancer by deep methylation sequencing of circulating tumor DNA [Plasma]
     SRP193115     ATAC-Me captures spatiotemporal dynamics of DNA methylation across the chromatin accessible genome [THP-1 Monocyte]
     SRP192966     Gene expression, methylome and splicing of THP-1 monocytic cells and THP-1-derived macrophage [Monocytic Cell Line]
     SRP187153     Comparison of methylome data generated with HiSeq X Ten and NovaSeq [IMR-90]
     SRP186642     Genome-wide methyl-cytosine competition by DNMT and TET [ESCs, Embryonic Stem Cell, EpiSCs, HUES64, HUES8, HUES8 Embryonic Stem Cells, In Vitro Derived Motor Neurons]
     SRP186275     Bisulfite-seq profiling of the human neutrophil genome during PMA- and E. coli encounter-induced activation [Peripheral Blood Neutrophils]
     SRP186015     Study of DNA methylation pattern in single basepair resolution in the human dopaminergic neurons [LUHMES Cell Line]
     SRP185639     DNMT3B has oncogenic activity but evidence suggests that it does not promote CIMP nor cooperate with activated BRAFV600E in human intestinal cancer. (WGBS) [Fetal Lung Fibroblasts]
     SRP175163     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 [786-O]
     SRP174219     Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer [Bisulfite-Seq] [Breast]
     SRP170543     Impaired DNA methylation in oocytes with a mutation in KHDC3L causing recurrent hydatidiform mole [Embryo Day 6]
     SRP168427     Tet inactivation disrupts YY1 binding and long-range chromatin interactions to cause developmental defects in embryonic heart [Embryonic Heart]
     SRP167041     Homo sapiens Epigenomics [Breast, Plasma]
     SRP163251     Rates of acquisition of de novo mutations in human pluripotent stem cells under different culture conditions [PSC]
     SRP162996     Very long intergenic non-coding RNA transcripts and expression profiles are associated to specific childhood acute lymphoblastic leukemia subtypes [CD10+ CD19+ Cord Blood]
     SRP161783     Whole Genome Bisulfite Sequencing of Rett Syndrome and Control Human BA9 Cortex [Post-Mortem Brain]
     SRP161745     Human retinal pigment epithelium [Cultured Retinal Pigment Epithelum, Eye Tissue]
     SRP158940     N6-methyladenine DNA Modification in Glioblastoma [ChIP-seq, BiSulfite-seq, DIP-seq] [Patient Derived Glioblastoma Stem Cell]
     SRP158895     Comparison of methylome data obtained with rPBAT and tPBAT. [Fibroblast-Like Cell]
     SRP158894     Optimization of the input amount of library for whole-genome bisulfite sequencing on HiSeq X Ten [Fibroblast-Like Cell]
     SRP158409     H3K36me2 recruits DNMT3A and shapes intergenic DNA methylation landscapes [C3H Embryo-Derived Mesenchymal Progenitor Cells]
     SRP158279     Epigenetic reprogramming at estrogen-receptor binding sites alters the 3D chromatin landscape in endocrine resistant breast cancer [WGBS] [Breast Cancer Cells]
     SRP156136     MethMotif: An integrative cell specific database of transcription factor binding motifs coupled with DNA methylation profiles [Colon, Spleen]
     SRP155006     Epigenomic signatures in liver and blood of Wilson disease patients include hypermethylation of liver-specific enhancers [Liver, Whole Blood]
     SRP151496     Generation of FOXO3 engineered human stem cells with enhanced efficacy and safety [ECs, MSCs, TransMSCs, VSMCs]
     SRP148683     Comparison of transcriptome profiles of human embryo cultured in either closed or standard incubator [Preimplantation Embryo]
     SRP144312     Widespread transposable element-driven oncogene expression in cancers [Lung Cancer Cell Line]
     SRP144098     DNMT3B maintains mCA landscape and regulates mCG status of bivalent promoters in human embryonic stem cells [Embryonic Stem Cell]
     SRP136499     A genomic study of the contribution of DNA methylation to regulatory evolution in primates [Heart, Heart (Later Reclassified As Liver), Kidney, Liver, Lung]
     SRP133999     Developmental origins define epigenomic differences between subcutaneous and visceral adipocytes [Bisulfite-Seq] [Blood, Subcutaneous Adipose, Visceral Adipose]
     SRP133941     Longitudinal Personal DNA Methylome Dynamics in a Human with a Chronic Condition [Peripheral Blood Mononuclear Cells]
     SRP133910     Homo sapiens Raw sequence reads [Blood, Lymphoblastoid Cell Line, Peripheral Blood]
     SRP132785     Active BRAF-V600E is the key player in generation of a sessile serrated polyp-specific DNA methylation profile (WGBS data set) [Blood, Colon]
     SRP132292     Genetic determinants and epigenetic effects of pioneer factor binding [WGBS] [Immortalized BJ Foreskin Fibroblast Cell Line]
     SRP131900     Lymphocyte-specific chromatin accessibility pre-determines glucocorticoid resistance in acute lymphoblastic leukemia [WGBS] [ALL Xenograft Cells]
     SRP131790     Whole Genome Bisulfite Sequencing of Autism and Control Human BA9 Cortex [Dorsal Lateral Prefrontal Cortex]
     SRP131112     Endurance training remodels sperm-borne small RNA expression and methylation at neurological gene hotspots [RRBS] [Motile Semen]
     SRP131087     An epigenomic approach to identifying differential overlapping and cis-acting lncRNAs in cisplatin-resistant cancer cells [BiSulfite-seq] [Lung, Ovarian]
     SRP130992     Genome-wide Methylation in Cordblood CD4+ Cells from Newborns Exposed vs. Unexposed to Maternal Tobacco Smoke During Pregnancy [Cord Blood CD4+ Cells]
     SRP130768     Homo sapiens bisulfite and mRNA sequencing of blood T cells and LCM collected lung cells [Alveolar, Bronchial, T]
     SRP128919     DNA methylation in hESC derived brain organoids and iPSC derived neurons, astrocytes and neural progenitors [Whole Organoid]
     SRP127667     Epigenetic marks and nuclear transcriptomes of cardiac myocytes [Cardiac Myocyte Nuclei, SIRPA+ Cardiac Myocytes]
     SRP127273     Scalable and efficient single-cell DNA methylation sequencing by combinatorial indexing. [Epithelial; B-Lymphocyte;Fibroblast]
     SRP126972     Distinct Epigenetic Subtypes Are Linked to Disease Progression in Low-Risk MDS [Peripheral Blood (PB) Cells]
     SRP126677     Genome-wide profiling at single-nucleotide resolution of brain cell types in schizophrenia [WGBS] [NeuN, Olig2]
     SRP126139     G-quadruplex structures moulds the DNA methylome [HaCaT]
     SRP125992     Activation of neuronal genes via LINE-1 elements upon global DNA demethylation in human neural progenitors [Fetal-Derived Neural Progenitor Cells (Sai)]
     SRP125973     A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs [Cervical Cancer Cell Line]
     SRP125826     Intervals of unmethylated DNA spatially co-segregate in cis and in trans [WGBS] [Erythroid Progenitor Cells]
     SRP124518     UBE3A-mediated regulation of imprinted genes and epigenome-wide marks in human neurons [Chromosome Duplication Model Of Dup15q Syndrome, Neuronal Cell Line]
     SRP119706     DNA hypermethylation encroachment at CpG island borders in cancer is predisposed by H3K4 monomethylation [WGBS_Hs] [Adjacent Benign Normal Prostate, Prostate Tumor]
     SRP117159     Homo sapiens cultivar:PLC/PRF/5 Raw sequence reads [Liver]
     SRP117084     Transcription elongation regulates genome 3D structure [Monocyte Derived Macrophages (MDM)]
     SRP116948     Whole genome bisulphite sequencing using the Illumina X system [Bisulfite-Seq] [EBV-transformed Lymphoblastoid Cell Line, Fetal Lung Fibroblast]
     SRP115074     Lack of Repressive Capacity of Human Promoter DNA Methylation identified through Genome-Wide Epigenomic Manipulation [Brest Cancer Cell Line]
     SRP113417     Chromatin and Transcriptional Dynamics in Adult Germline Stem Cells and Mammalian Spermatogenesis [Mature Sperm, Sperm, Spermatids, Spermatocytes, Spermatogonia, Spermatogonia (Thy1+)]
     SRP107883     Archaic and modern bone DNA methylation maps from the Neanderthal, Denisovan, modern human and chimpanzee [Bone]
     SRP107857     TRIM28-Regulated Transposon Repression Is Required for Human Germline Competency and Not Primed or Naive Human Pluripotency [Naive Embryonic Stem Cell, Primed Embryonic Stem Cell]
     SRP106910     Human memory CD8 T-cell effector-potential is epigenetically preserved during in vivo homeostasis [HuTCM, HuTEM, HuTN, HuTSCM, TCMD204, TEMD203, TND201, TSD202]
     SRP104789     Culture of Human embryonic stem cells in different media [Embryonic Stem Cells]
     SRP104305     5hmC dynamically correlated with enhancer''s activities during hES-to-Pancreatic endoderm cell differentiation (Bisulfite-Seq) [ES Cells]
     SRP104141     NicE-seq: high resolution open chromatin profiling [HCT116]
     SRP103943     DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A [WGBS] [Epithelial HEK 293T Cells]
     SRP103839     Single-cell Multi-omics Sequencing and Analyses of Human Colorectal Cancer [CRC, HeLa Contaminant]
     SRP103794     Methylation DNA mediated KLF4 binding activity in glioblastoma cells [Glioblastoma Cells]
     SRP103077     Mapping DNA methylation and CTCF/cohesin occupancy on nascent chromatin and DNMT-targeted nascent chromatin [Embryonic Stem Cells]
     SRP102997     Genome-wide nucleosome occupancy and DNA methylation profiling in endometriosis cells [hTERT Immortalized Endometriosis Cells]
     SRP101887     Neuronal brain region-specific DNA methylation and chromatin accessibility are associated with neuropsychiatric trait heritability [Bisulfite-Seq] [Bulk Tissue, NeuN Neg, NeuN Pos]
     SRP100067     Epigenome-wide analysis of DNA methylation in lung tissue shows concordance with blood studies and identifies tobacco smoke-inducible enhancers
     SRP099603     Enrichment methods provide a feasible approach to comprehensive and adequately powered investigations of the methylome [Postmortem Brain Tissue]
     SRP098648     Comprehensive evaluation of genome-wide 5-hydroxymethylcytosine profiling approaches in human DNA [BiSulfite-seq] [Adult Brain Frontal Lobe, LNCaP Clone]
     SRP097759     S-adenosylhomocysteine hydrolase participates in DNA methylation inheritance [HEK293]
     SRP096028     Dental Pulp Stem Cells Model Early Life and Imprinted DNA Methylation Patterns. [Dental Pulp Stem Cells, LUHMES]
     SRP095006     Genome-wide determination of on-target and off-target characteristics for RNA-guided DNA Methylation by dCas9 methyltransferases (CRISPRme) [WGBS] [Embryonic Kidney Cell Line]
     SRP094960     Genomic profiling of human spermatogonial stem cells [WGBS] [Spermatogonial Stem Cells]
     SRP094721     Epigenomic landscapes of hESC-derived neural rosettes [Neural Stem Cells]
     SRP094554     A Molecular signature for Delayed Graft Function [BS-Seq] [Kidney]
     SRP093764     Epigenetic resetting of human pluripotency [ESC]
     SRP093254     Whole Genome Bisulfite Sequencing of HUES8 WT and HUES8 TET1/2/3 TKO hESCs [HUES8 hESCs]
     SRP092462     HUES8 TET1/2/3 TKO hESCs [Embryonic Stem Cells]
     SRP092113     Splinted Ligation Adapter Tagging, a novel library preparation for whole genome bisulphite sequencing [ALL Cell Line, Lymphoblastoid Cell Line]
     SRP090105     The Dynamic Epigenetic Landscape of the Retina During Development, Reprogramming, and Tumorigenesis [WGBS_Hs] [Retina]
     SRP089722     Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling [WGBS] [Primary Prostate Epithelial Cells (PrEC), Prostate Cancer Cell Line (LNCaP)]
     SRP085035     Molecular Criteria for Defining the Naive Human Pluripotent State [methylation profiling] [Naive Embryonic Stem Cells, Primed Embryonic Stem Cells]
     SRP082156     Cancer Associated Fibroblasts are defined by a core set of epigenome changes that contribute to the tumor phenotype [WGBS] [Cancer Associated Fibroblast, Normal Prostate Fibroblast]
     SRP080893     Active and senescent human hematopoietic stem and progenitor cell whole genome bisulfite sequencing [DNA]
     SRP080340     Evidence That Three Classes of Methylomes Specific for Stem, Somatic and Transformed Cells Are Set by Three Independent Mechanisms (Methyl-Seq) [Basophilic Erythroblasts]
     SRP076893     “Same Difference”: Comprehensive evaluation of four DNA methylation measurement platforms [Lung Fibroblast]
     SRP075910     Global delay in nascent strand DNA methylation [HCT116, HUES64 WT]
     SRP075876     Cerebral Organoids Recapitulate Epigenomic Signatures of the Human Fetal Brain [Embryonic Stem Cell Line, Middle Frontal Gyrus]
     SRP075562     ZBTB33 (Kaiso) Differentially Regulates Cell Cycle Through cyclin D1 and cyclin E1 in a Cell Specific Manner [BiSulfite-seq] [HeLa]
     SRP075292     Cumulative Impact of Polychlorinated Biphenyl and Large Chromosomal Duplications on DNA Methylation, Chromatin, and Expression of Autism Candidate Genes. [Brain, Neuroblastoma Cell Line]
     SRP074852     DNMT and HDAC inhibitors globally induce cryptic TSSs encoded in long terminal repeats [NCI-H1299-EGFP/NEO]
     SRP074598     Single Cell DNA Methylome Sequencing of Human Preimplantation Embryos [Heart, ICM, Sperm, TE, Villus]
     SRP074177     Nucleation of DNA Repair Factors by FOXA1 Links DNA Demethylation to Transcriptional Pioneering [MCF-7 Cells (siFOXA1- Transfected), MCF-7 Cells (siNS- Transfected)]
     SRP072141     stem cell epigenomics [H1 Stem Cells]
     SRP072078     epigenomic analysis of lung and liver [Liver, Lung]
     SRP072075     Epigenomic analysis of lymphocytes and fibroblasts [Foreskin Fibroblasts, Sorted CD4+ T Cells]
     SRP072071     study of brain methylation [Brain, Pre-Frontal Cortex]
     SRP071891     Functional Haploid Human Oocytes Generated from Polar Body Genomes (Bisulfite-Seq) [IVF Derived Embryonic Stem Cell, Polar Body Nuclear Transfer]
     SRP071771     Identification of methylation haplotype blocks aids in deconvolution of heterogeneous tissue samples and tissue-of-origin mapping from plasma DNA [WGBS] [Liver, Skeletal Muscle]
     SRP068579     Reversion to naïve human pluripotency creates a new methylation landscape devoid of blastocyst or germline memory [5iLAF SSEA4 Negative UCLA1 EpiLC Day 0, 5iLAF SSEA4 Negative UCLA1 EpiLC Day 16, 5iLAF SSEA4+ Subpopulation UCLA1 hESCs, 5iLAF SSEA4- Subpopulation UCLA1 hESCs, 5iLAF SSEA4- Subpopulation UCLA20n hESCs, Primed SSEA4+ UCLA1 hESCs, Primed UCLA1 EpiLC Day 0, Primed UCLA1 EpiLC Day 16]
     SRP067779     Novel contribution of acetylated histone variant H2A.Z in activation of neo-enhancers in prostate cancer [NOMe-seq]
     SRP065930     HX1 [Blood]
     SRP059772     Whole genome analysis of the methylome and hydroxymethylome in normal and malignant lung and liver [oxBS-Seq and BS-Seq] [Liver, Lung]
     SRP059433     Gender Differences in Global but not Targeted Demethylation in iPSC Reprogramming [BS Seq AIDKO MEF1, BS Seq D21 iPSC Clone3, BS Seq D29 AIDKO iPSC Clone1, BS Seq D29 AIDKO iPSC Clone2, BS Seq D29 MALE iPSC Clone1, BS Seq D29 MALE iPSC Clone2, BS Seq D29 MALE iPSC Clone3, BS Seq D29 iPSC Clone3, BS Seq D6 SSEA1 Positive 1, BS Seq D6 SSEA1 Positive 2, BS Seq D6 SSEA1 Positive 3, BS Seq D6 Thy1 Positive 1, BS Seq D6 Thy1 Positive 2, BS Seq D6 Thy1 Positive 3, BS Seq D60 AIDKO iPSC Clone1, BS Seq D60 MALE iPSC Clone1, BS Seq D60 MALE iPSC Clone2, BS Seq D60 MALE iPSC Clone3, BS Seq D60 iPSC Clone2, BS Seq D60 iPSC Clone3, BS Seq ESC 1, BS Seq ESC 2, BS Seq ESC 3, BS Seq MALE MEF 1, BS Seq MALE MEF 2, BS Seq MALE MEF 3, BS Seq MEF 1, BS Seq MEF 2, BS Seq MEF 3, BS Seq P29 iPSC Clone1, Fibroblast, Reprogramming Fibroblast]
     SRP059313     UPF : Methylation_primates [Blood]
     SRP059289     Conversion of Human Gastric Epithelial Cells to Multipotent Endodermal Progenitors using Defined Small Molecules [DNA methylation] [Gastric Epthelial Cells Isolated, Hepatoctes Induced By Differentiation Of hiMEPs, hiMEPs Derived]
     SRP058102     Analysis of DNA Methylation in replication and cell cycle arrest. [Primary Dermal Fibroblasts]
     SRP057450     A novel bivalent chromatin state exists at enhancers [HCT116]
     SRP057098     A Unique Gene Regulatory Network Resets the Human Germline Epigenome for Development [Gonad]
     SRP056911     DNA methylation in the placentas of typically developing and autistic children [Placenta]
     SRP055494     BLUEPRINT methylome of the HapMap cell line GM18507 (Coriell cell line NA18507) [Modified B Cell (Lymphoblastoid)]
     SRP052842     Pleiotropic Analysis of Lung Cancer and Blood Triglycerides [Purified AT2 Cells]
     SRP051367     Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells (TAB-Seq) [Monocyte-derived Dendritic Cells]
     SRP051366     Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells (Bisulfite-Seq) [Monocyte-derived Dendritic Cells]
     SRP050499     The Transcriptome and DNA Methylome Landscapes of Human Primordial Germ Cells [Brain, Gonadal Somatic Cells, Heart, Primordial Germ Cells]
     SRP049985     Whole Genome Bisulfite Sequencing (WGBS) of cKIT+ sorted cells from 57-137 day old fetal testes and ovaries. [cKIT+ FACS Sort]
     SRP049936     DNA methylation in mammalian placentas [Cerebrum, Cordblood, Extraembryonic Membrane, Placenta, Trophoblasts]
     SRP049782     Targeted disruption of DNMT1, 3A and 3B in human embryonic stem cells [WGBS] [ES]
     SRP049710     Loss of 5-hydroxymethylcytosine is linked to gene body hypermethylation in kidney cancer [Matched Normal, Tumor]
     SRP049651     Large-scale epigenetic reprogramming is punctuated late during the evolution of pancreatic cancer progression [BS-Seq] [Liver Metastasis, Lung Metastasis, Normal Pancreas, Patient A38, Peritoneal Metastasis, Primary Tumor]
     SRP048896     Genome-wide profiling of the DNA methylation landscape at base-pair resolution in human acute myeloid leukemia cell lines. [AML]
     SRP048844     Genome-wide profiling of DNA methylation at single-base resolution based on MeDIP-bisulfite high-throughput sequencing and ridge regression (MethyC + MeDIP) [Ovarian Epithelial]
     SRP048761     Dissecting neural differentiation regulatory networks through epigenetic footprinting [ES-derived Neural Progenitor Cells]
     SRP047086     A public-private-academic consortium, Genome-in-a-Bottle (GIAB), hosted by NIST to develop reference materials and standards for clinical sequencing [B-Lymphocyte]
     SRP045902     Resetting Transcription Factor Control Circuitry Towards Ground State Pluripotency In Human [H9]
     SRP045269     Global loss of DNA methylation uncovers intronic enhancers in genes [Colorectal Cancer Cell Line]
     SRP043461     The effects of the global loss of DNA methylation on the functional cancer epigenome (Bisulfite-seq) [DKO1, HCT116]
     SRP041984     Epigenetic and transcriptional aberrations in human pluripotent stem cells reflect differences in reprogramming mechanisms [Fibroblast, Pluripotent]
     SRP041828     Comparison of nucleosome occupancy and chromatin states between normal and cancer cell lines [HMEC, MCF7, PC3, PrEC]
     SRP041822     Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels [Bisulfite-Seq] [Lymphoblastoid Cell Line]
     SRP041720     Genome-wide profiling of the DNA methylation landscape at base-pair resolution in human neurological disorders (Bisulfite-Seq) [Brain Grey Matter]
     SRP041718     Genome-wide DNA hypomethylation and RNA:DNA hybrid accumulation in Aicardi-Goutières syndrome [Primary Fibroblast]
     SRP041025     WGBS data of pediatric B-cell acute leukemias [Bone Marrow / Peripheral Blood]
     SRP038103     Genome-wide methylation maps for untreated and Aza treated AML3 cells [AML3]
     SRP037971     Genome wide profiling of MBD2 binding [MCF-7 WT]
     SRP035642     The relationship between DNA methylation, genetic and expression inter-individual variation in untransformed human fibroblasts [Whole genome bisulfite sequencing] [GM02316, GM02317, GM02456, GM02555]
     SRP033504     Epigenome analysis of human epidermal samples with aging and sun exposure [Dermis]
     SRP033491     China_type_2_diebetes_family [Sample From]
     SRP033283     The RON receptor tyrosine kinase promotes metastasis by triggering epigenetic reprogramming through the thymine glycosylase MBD4 (Bisulfite-Seq) [Breast Cancer Cell Line]
     SRP033252     Genome-wide profiling of the functional DNA methylation landscape at base-pair resolution in human cancer types [BS-seq] [Blood (B-cells), Brain, Brain (Grey Matter), Brain (White Matter), Breast, Colon, Liver, Lung, Placenta, Prostate]
     SRP033201     Homo sapiens Genome sequencing [Generic Sample From]
     SRP032354     whole-genome bisulfite sequencing (BS-seq) of HEK293 cells (HEK293-CT) and HEK293 cells stably over-expressing the BAHD1 gene (HEK-BAHD1) [Embryonic Semi-Differentiated Kidley Cells, Modified HEK293 Cell Overexpressing BAHD1]
     SRP029519     Induction of sarcomas by mutant IDH2 [10T Isogenic Cell Line With IDH2 Mutation]
     SRP028804     The DNA methylation landscape of human early embryos [Liver]
     SRP028600     Charting a dynamic DNA methylation landscape of the human genome [Colon Primary Tumor, Frontal Cortex Alzheimer, Frontal Cortex Normal, HepG2 Cell Line, IMR90 Immortalized Fibroblast Cell Line]
     SRP028577     Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization [Bisulfite-seq] [Activated B-cells, Activated B-cells_day 16, Activated B-cells_week 3, EBV Transformed B-cells, EBV Transformed B-cells_16 Days Post Infection, EBV Transformed B-cells_3 Weeks Post Infection, Resting B-cells]
     SRP026604     Genome-wide methylation maps for Proliferating and Senescent cells [IMR-90]
     SRP026048     Global epigenomic reconfiguration during mammalian brain development [Brain (Cerebral Cortex), Brain (Dorsal Prefrontal Cortex), Brain (Frontal Cortex), Brain (Middle Frontal Gyrus), Embryonic Stem Cells]
     SRP022182     Homo sapiens Epigenomics [Generic Sample From]
     SRP022160     Whole-genome analysis of 5-hydroxymethylcytosines and 5-methylcytosines at base resolution in human brain [Brain Prefrontal Cortex]
     SRP022149     Genome-wide parent-of-origin DNA methylation analysis [Methyl-seq] [Normal Brain Tissue, Normal Liver Tissue, Normal Placenta Tissue]
     SRP022041     Buccals are likely to be a more informative surrogate tissue than blood for epigenome-wide association studies [Bisulfite-Seq] [Normal Buccal Cells]
     SRP021846     Age-related methylation changes are associated with altered transcriptional circuitry [Methyl-seq] [Skin (Epidermal Suction Blister Samples)]
     SRP021479     Genome-wide DNA methylation aberrations in human atherosclerosis (sequencing) [Carotid Tissue]
     SRP021039     Selective demethylation and altered gene expression are associated with ICF Syndrome in human induced pluripotent stem cells and mesenchymal stem cells [Induced Pluripotent Stem Cell]
     SRP019232     Whole genome bisulfite-seq of two healthy males. [Hair Follicle, Peripheral Blood Lymphocyte]
     SRP015742     GSE40832: Whole Genome Bisulfite Sequencing by ENCODE/HAIB [Inner Cell Mass, Mesoderm]
     SRP015704     Genome-wide mapping of nucleosome positioning and DNA methylation within Individual DNA molecules [Glioblastoma, Lung Fiboblast Cells]
     SRP014898     Human Sperm Epigenomes and Transcriptomes Reveal Novel Features of Enhancers, Sex Chromosomes, piRNAs, Gametogenesis, and Inherited Small RNAs (Bisulfite-Seq) [Sperm]
     SRP014634     Examination of four human tissue samples by MethylC-seq [Placenta]
     SRP013816     SINE transcription by RNA polymerase III is suppressed by histone methylation but not DNA methylation [HeLa Cervical Carcinoma Cells]
     SRP012560     GSE34399: Replication Timing by Repli-seq from ENCODE/University of Washington [H1-hESC, Skeletal Muscle Myoblast]
     SRP012499     Epigenetic alterations of a DNMT3B-mutant ICF patient at base-pair resolution [EBV Immortalized B Cells]
     SRP012412     GSE59395: Genome-wide map of regulatory interactions in the human genome [A549, Adrenal Gland, Body Of Pancreas, Esophagus Muscularis Mucosa, Esophagus Squamous Epithelium, Fibroblast Of Arm, GM12878, Gastroesophageal Sphincter, HeLa-S3, Heart Left Ventricle, HepG2, Hepatocyte, K562, Lower Leg Skin, Mammary Epithelial Cell, Motor Neuron, OCI-LY7, Ovary, Prostate Gland, Right Lobe Of Liver, SK-N-SH, Smooth Muscle Cell, Spleen, Stomach, Suprapubic Skin, Testis, Thyroid Gland, Tibial Nerve, Transverse Colon, Upper Lobe Of Left Lung]
     SRP012161     Evolutionary Significance of DNA Methylation in Human and Chimpanzee Brains [Prefrontal Cortex]
     SRP011945     Base Resolution Analysis of 5-Hydroxymethylcytosine in the Mammalian Genome [E14Tg2A, H1]
     SRP011746     Ultra-low-input, tagmentation-based whole genome bisulfite sequencing [GM20847: Gujarati Indian]
     SRP008337     Role of DNMT3B in the regulation of early neural and neural crest specifiers [H9 Cells]
     SRP008144     Directional DNA methylation changes and complex intermediate states accompany lineage specificity in the adult hematopoietic compartment [B Cell, CD133HSC, HSPC, Neutrohphil]
     SRP007820     The DNA methylomes of a newborn and a centenarian [CD4+T Cells, Mononuclear Cells]
     SRP007400     Sperm methylation profiles reveal features of epigenetic inheritance and evolution in primates [Sperm]
     SRP006774     Increased methylation variation in epigenetic domains across cancer types [Adenoma Sample 2, Cancer Sample 1, Cancer Sample 2, Cancer Sample 3, Normal Sample 1, Normal Sample 2, Normal Sample 3]
     SRP006728     Genome-wide DNA methylation mapping in breast cancer cells (HCC1954) and normal breast cells (HMEC) [Breast Cancer Cells]
     SRP003529     Hotspots of aberrant epigenomic reprogramming in human induced pluripotent stem cells
     SRP001720     Dynamic Changes in the Human Methylome During Differentiation [Embryonic Stem Cells, Fibroblasts Derived, Newborn Foreskin Fibroblasts]
     SRP001371     University of Washington Human Reference Epigenome Mapping Project [Fetal Intestine, Large, Fetal Intestine, Small]
     SRP000996     BI Human Reference Epigenome Mapping Project [Adult CD14, Adult CD3, Adult CD56, CD184+ Endoderm Cultured Cells, CD19, CD34 Primary Cells, Fetal Adrenal, Fetal Heart, Fetal Muscle, Leg, Fetal Muscle, Trunk, Fetal Placenta, Fetal Spinal Cord, Fetal Stomach, Fetal Thymus, Generic Sample From, IMR90 Cells]
     SRP000941     UCSD Human Reference Epigenome Mapping Project [Adipose, Adipose Tissue, Adrenal Gland, Aorta, Bladder, Esophagus, Gastric, Generic Sample From, IMR90 Cells, Left Ventricle, Liver, Lung, Ovary, Pancreas, Psoas Muscle, Right Atrium, Right Ventricle, Sigmoid Colon, Small Intestine, Spleen, Thymus]
     ERP144942     Validation of differentially methylated DNA regions in colorectal precancerous lesions. [Colon]
     ERP139499     Whole genome bisulfite sequencing of liver samples of five mammals (human, rhesus macaque, mouse, rat and dog) [Liver]
     ERP135121     Whole Genome Bisulfite Sequencing (WGBS) of the SH-SY5Y human neuroblastoma cell line [Bone Marrow]
     ERP130693     Performance comparison and in-silico harmonisation of commercial platforms for DNA methylome analysis by targeted bisulfite sequencing [Hela-1, RT112-CP, Ref-gDNA-1000-2]
     ERP129475     DNA Methylation signature in mononuclear cells and proinflammatory cytokines in Meniere Disease [Mononuclear]
     ERP123063     Whole genome DNA methylation analysis of human embryonic stem cells [P4_H1_ESC_tWGBS_1, P4_H9_ESC_tWGBS_1]
     ERP122802     Whole genome DNA methylation analysis of human testicular germ cells [P4_CTR1_TGC_tWGBS_1, P4_CTR2_TGC_tWGBS_1, P4_CTR3_TGC_tWGBS_1, P4_CTR4_TGC_tWGBS_1, P4_CZ1_TGC_tWGBS_1, P4_CZ2_TGC_tWGBS_1, P4_CZ3_TGC_tWGBS_1, P4_CZ4_TGC_tWGBS_1]
     ERP122363     No evidence for intervention-associated DNA methylation changes in monocytes of patients with posttraumatic stress disorder or anorexia nervosa [AS-222872-LR-34031, AS-222873-LR-34032, AS-222875-LR-34033, AS-222876-LR-34034, AS-222877-LR-34035, AS-241990-LR-35191, K002000217_85588, K002000217_85589, K002000217_85590, K002000217_85591]
     ERP117337     Whole genome DNA methylation analysis of sperm DNA from normozoospermic and oligoasthenoteratozoospermic men [P4_NC002_SP_tWGBS_1, P4_NC004_SP_tWGBS_1, P4_NC005_SP_tWGBS_1, P4_NC007_SP_tWGBS_1, P4_NC008_SP_tWGBS_1, P4_OAT001_SP_tWGBS_1, P4_OAT002_SP_tWGBS_1, P4_OAT003_SP_tWGBS_1, P4_OAT005_SP_tWGBS_1, P4_OAT007_SP_tWGBS_1, P4_OAT015_SP_tWGBS_1, P4_OAT017_SP_tWGBS_1, P4_OAT018_SP_tWGBS_1, P4_OAT019_SP_tWGBS_1, P4_OAT020_SP_tWGBS_1, P4_OAT021_SP_tWGBS_1]
     ERP114912     Genome-wide Analysis of the Nucleosome Landscape in Individuals with Coffin-Siris Syndrome [C001, C002, C003, C004, K001, K004, K012, K017]
     ERP110315     Single molecule sequencing and assembly of flow sorted Y chromosome from HG02982 [Lymphoblastoid Cell Line]
     ERP110208     Whole genome methylation analysis of sperm and blood from young and old men. [Blood_Old, Blood_Young, Sperm_Old, Sperm_Young]
     ERP109780     Whole-genome fingerprint of the DNA methylome during chemically induced differentiation of the AML cell line HL-60/S4 [HL60/S4]
     ERP109664     Bisulphite-seq to investigate the proto CpG island methylator phenotype of sessile serrated adenoma/polyps, dataset 2 [Colon]
     ERP109610     Bisulphite-seq to investigate the proto CpG island methylator phenotype of sessile serrated adenoma/polyps [Colon]
     ERP107813     Bisulfite-seq of synovial biopsies from rheumatoid arthritis patients [Synovial Membrane]
     ERP106410     An integrated genomic analysis of L1 retrotransposon mosaicism in the brain [Hippocampus.NeuN+.WGBS.CTRL-36]
     ERP018009     Base resolution maps of mutations, 5-methylcytosine and 5-hydroxymethylcytosine, and transcriptome of blood, tumour and margin samples from a glioblastoma multiforme patient [Brain]
     ERP014223     DNA methylation profiling of human naive embryonic stem cells [Embryonic Stem Cell, Pluripotent Stem Cell]
     ERP011276     5Aza and TSA treatment of MCF7 cells (BS-seq) [MCF-7]
     ERP010942     We present the first genome-scale analysis of the effect of CpG methylation on DNA-binding of TFs. [Embryonic Cell, Embryonic Cell Deficient In Tet1, Tet2 And Tet3, GP5D Cell, LHSAR Cell, LHSAR Cell With HOXB13 Transduced, LoVo Cell, VCap Cell]
     ERP009555     Effects of HIST1H2ac knockdown on the DNA methylation landscape of breast cancer cell line MCF-7 [MCF-7]
     ERP008742     Germ_cell_methylation_dynamics [056202C0-C771-11E6-Bf9C-68B59976A384, 056B78A0-C771-11E6-Bf9C-68B59976A384, 05727D80-C771-11E6-Bf9C-68B59976A384, 0Ec6Eaf0-5Fb7-11E6-B4F3-68B59976A384, 0Ee5Bd90-5Fb7-11E6-B4F3-68B59976A384, 11____EB2_B_-sc-2176524, 12____EB2_BS_-sc-2176525, 25Ab5C60-5Fb7-11E6-9477-68B599768938, 2Fe8D220-5Fb7-11E6-B4F6-68B59976A384, 2Ff491F0-5Fb7-11E6-B4F7-68B59976A384, 2Ffde0C0-5Fb7-11E6-B4F7-68B59976A384, 3F12Cf30-5Fb7-11E6-9477-68B599768938, 3F2015A0-5Fb7-11E6-9477-68B599768938, 47Ad1C40-5Fb7-11E6-B4F7-68B59976A384, 6Fc872F0-1B75-11E6-B065-68B59976A384, 6Ffc7B40-1B75-11E6-B065-68B59976A384, 83494700-1B75-11E6-B769-68B599768938, 835Db960-1B75-11E6-B769-68B599768938, 9____EB1_BS_-sc-2176522, A3_mPGCLC1-sc-2383193, C3_mPGCLC2-sc-2383195, D2_mPGCLC1-sc-2383188, D3_mPGCLC2-sc-2383196, Df89Bf70-C770-11E6-Bf9C-68B59976A384, Dfc31Ef0-C770-11E6-Bf9C-68B59976A384, Dfca9900-C770-11E6-Bf9C-68B59976A384, E3_mPGCLC2-sc-2383197, F1_hPGCLC1-sc-2383182, F28250B0-C770-11E6-83A1-68B599768938, F2895590-C770-11E6-83A1-68B599768938, F2978660-C770-11E6-83A1-68B599768938, F2_mPGCLC1-sc-2383190, F3_mPGCLC2-sc-2383198, G2_mPGCLC1-sc-2383191, G3_mPGCLC2-sc-2383199, H3_mPGCLC2-sc-2383200, PBAT20150318_S1-sc-2268397, PBAT20150318_S2-sc-2268398, PBAT20150318_S22-sc-2268418, PBAT20150318_S5-sc-2268401, PBAT20150318_S6-sc-2268402, hES1-sc-2351342, hES2-sc-2351343, hES3-sc-2351344, hKSR2-sc-2351346, hKSR3-sc-2351347]
     ERP005229     Whole-genome Bisulfite Sequencing for Methylation Analysis of human monocytes [M55900]
     ERP004221     Genome-wide methylome profiling of normal breast and breast tumors [Breast Cancer, E-MTAB-2014:BT089, E-MTAB-2014:BT126, E-MTAB-2014:BT198, E-MTAB-2014:normal Breast]
     DRP012061     Epigenetic regulation by nitrosative stress as a potential mechanism of long COVID [Small Airway Epithelial Cell]
     DRP008243     Transcriptome and methylome analyses of trophoblast stem-like cells derived from primed human embryonic stem cells [TSLprimed]
     DRP007963     Whole genome bisulfite sequencing of colorectal cancer [Metastatic Cancerous Tissue Obtained, Primary Cancerous Tissue]
     DRP007001     Development of long-read whole genome methylation sequencing method using the enzymatic base conversion and the nanopore sequencing [BT-474, MDA-MB-231]
     DRP006124     DNA methylome analyses and expression analysis for malignant glioma harbouring H3F3A gene mutation [Glioma]
     DRP004736     Generation of human oogonia from induced pluripotent stem cells in vitro [Aggregate Cultured PGCLC, PGCLC, iMeLC, iPSC]
     DRP003407     Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing [EpiLC, IMR-90, Spermatogonia]
     DRP001914     Omics catalogue of lung adenocarcinoma cell lines [H1299 Lung Adenocarcinoma Cell Lines; BSseq;, H1437 Lung Adenocarcinoma Cell Lines; BSseq;, H1703 Lung Adenocarcinoma Cell Lines; BSseq;, H2126 Lung Adenocarcinoma Cell Lines; BSseq;, H2228 Lung Adenocarcinoma Cell Lines; BSseq;, H2347 Lung Adenocarcinoma Cell Lines; BSseq;]
     Common     Common methbase tracks for the hg38 assembly
+   Mapping and Sequencing    
-   Genes and Gene Predictions    
updated GENCODE V47 GENCODE V47
NCBI RefSeq RefSeq genes from NCBI
CCDS Consensus CDS
CRISPR Targets CRISPR/Cas9 -NGG Targets, whole genome
GENCODE Archive GENCODE Archive
     GENCODE V36     GENCODE V36
     GENCODE V38     GENCODE V38
     GENCODE V39     GENCODE V39
     GENCODE V43     GENCODE V43
     GENCODE V44     GENCODE V44
     GENCODE V45     GENCODE V45
     GENCODE V46     GENCODE V46
updated GENCODE Versions Container of all new and previous GENCODE releases
     GENCODE V20 (Ensembl 76)     Gene Annotations from GENCODE Version 20 (Ensembl 76)
     All GENCODE V22     All GENCODE transcripts including comprehensive set V22
     All GENCODE V23     All GENCODE transcripts including comprehensive set V23
     All GENCODE V24     All GENCODE transcripts including comprehensive set V24
     All GENCODE V25     All GENCODE transcripts including comprehensive set V25
     All GENCODE V26     All GENCODE annotations from V26 (Ensembl 88)
     All GENCODE V27     All GENCODE annotations from V27 (Ensembl 90)
     All GENCODE V28     All GENCODE annotations from V28 (Ensembl 92)
     All GENCODE V29     All GENCODE annotations from V29 (Ensembl 94)
     All GENCODE V30     All GENCODE annotations from V30 (Ensembl 96)
     All GENCODE V31     All GENCODE annotations from V31 (Ensembl 97)
     All GENCODE V32     All GENCODE annotations from V32 (Ensembl 98)
     All GENCODE V33     All GENCODE annotations from V33 (Ensembl 99)
     All GENCODE V34     All GENCODE annotations from V34 (Ensembl 100)
     All GENCODE V35     All GENCODE annotations from V35 (Ensembl 101)
     All GENCODE V36     All GENCODE annotations from V36 (Ensembl 102)
     All GENCODE V37     All GENCODE annotations from V37 (Ensembl 103)
     All GENCODE V38     All GENCODE annotations from V38 (Ensembl 104)
     All GENCODE V39     All GENCODE annotations from V39 (Ensembl 105)
     All GENCODE V40     All GENCODE annotations from V40 (Ensembl 106)
     All GENCODE V41     All GENCODE annotations from V41 (Ensembl 107)
     All GENCODE V42     All GENCODE annotations from V42 (Ensembl 108)
     All GENCODE V43     All GENCODE annotations from V43 (Ensembl 109)
     All GENCODE V44     All GENCODE annotations from V44 (Ensembl 110)
     All GENCODE V45     All GENCODE annotations from V45 (Ensembl 111)
     All GENCODE V46     All GENCODE annotations from V46 (Ensembl 112)
    new All GENCODE V47     All GENCODE annotations from V47 (Ensembl 113)
HGNC HUGO Gene Nomenclature
IKMC Genes Mapped International Knockout Mouse Consortium Genes Mapped to Human Genome
LRG Transcripts Locus Reference Genomic (LRG) / RefSeqGene Fixed Transcript Annotations
MANE MANE Select Plus Clinical: Representative transcript from RefSeq & GENCODE
MGC/ORFeome Genes MGC/ORFeome Full ORF mRNA Clones
     ORFeome Clones     ORFeome Collaboration Gene Clones
     MGC Genes     Mammalian Gene Collection Full ORF mRNAs
Non-coding RNA RNA sequences that do not code for a protein
     tRNA Genes     Transfer RNA Genes Identified with tRNAscan-SE
     sno/miRNA     C/D and H/ACA Box snoRNAs, scaRNAs, and microRNAs from snoRNABase and miRBase
     lincRNA TUCP     lincRNA and TUCP transcripts
     lincRNA RNA-Seq     lincRNA RNA-Seq reads expression abundances
Old UCSC Genes Previous Version of UCSC Genes
Other RefSeq Non-Human RefSeq Genes
Pfam in GENCODE Pfam Domains in GENCODE Genes
Prediction Archive Gene Prediction Archive
     SIB Genes     Swiss Institute of Bioinformatics Gene Predictions from mRNA and ESTs
     SGP Genes     SGP Gene Predictions Using Mouse/Human Homology
     Genscan Genes     Genscan Gene Predictions
     Geneid Genes     Geneid Gene Predictions
     AUGUSTUS     AUGUSTUS ab initio gene predictions v3.1
RetroGenes V9 Retroposed Genes V9, Including Pseudogenes
TransMap V5 TransMap Alignments Version 5
     TransMap ESTs     TransMap EST Mappings Version 5
     TransMap RNA     TransMap GenBank RNA Mappings Version 5
     TransMap RefGene     TransMap RefSeq Gene Mappings Version 5
     TransMap Ensembl     TransMap Ensembl and GENCODE Mappings Version 5
UCSC Alt Events Alternative Splicing, Alternative Promoter and Similar Events in UCSC Genes
UniProt UniProt SwissProt/TrEMBL Protein Annotations
-   Phenotype and Literature    
OMIM Online Mendelian Inheritance in Man
     OMIM Cyto Loci     OMIM Cytogenetic Loci Phenotypes - Gene Unknown
     OMIM Genes     OMIM Gene Phenotypes - Dark Green Can Be Disease-causing
     OMIM Alleles     OMIM Allelic Variant Phenotypes
AbSplice Scores Aberrant Splicing Prediction Scores
CADD 1.6 CADD 1.6 Score for all single-basepair mutations and selected insertions/deletions
     CADD 1.6 Ins     CADD 1.6 Score: Insertions - label is length of insertion
     CADD 1.6 Del     CADD 1.6 Score: Deletions - label is length of deletion
     CADD 1.6     CADD 1.6 Score for all possible single-basepair mutations (zoom in for scores)
new CADD 1.7 CADD 1.7 Score for all single-basepair mutations and selected insertions/deletions
    new CADD 1.7 Ins     CADD 1.7 Score: Insertions - label is length of insertion
    new CADD 1.7 Del     CADD 1.7 Score: Deletions - label is length of deletion
    new CADD 1.7     CADD 1.7 Score for all possible single-basepair mutations (zoom in for scores)
Cancer Gene Expr Gene Expression in 33 TCGA Cancer Tissues (GENCODE v23)
     Cancer Transc Expr     Transcript-level Expression in 33 TCGA Cancer Tissues (GENCODE v23)
     Cancer Gene Expr     Gene Expression in 33 TCGA Cancer Tissues (GENCODE v23)
new ClinGen ClinGen curation activities (Dosage Sensitivity and Gene-Disease Validity)
ClinGen CNVs Clinical Genome Resource (ClinGen) CNVs
ClinVar Variants ClinVar Variants
Constraint scores Human constraint scores
     UKB Depl. Rank Score     UK Biobank / deCODE Genetics Depletion Rank Score
     HMC     HMC - Homologous Missense Constraint Score on PFAM domains
     JARVIS     JARVIS: score to prioritize non-coding regions for disease relevance
Coriell CNVs Coriell Cell Line Copy Number Variants
COSMIC Catalogue of Somatic Mutations in Cancer V98
COSMIC Regions Catalogue of Somatic Mutations in Cancer V82
COVID Data Container of SARS-CoV-2 data
     COVID Rare Harmful Var     Rare variants underlying COVID-19 severity and susceptibility from the COVID Human Genetics Effort
     COVID GWAS v3     GWAS meta-analyses from the COVID-19 Host Genetics Initiative
     COVID GWAS v4     COVID risk variants from GWAS meta-analyses by the COVID-19 Host Genetics Initiative (Rel 4, Oct 2020)
DECIPHER CNVs DECIPHER CNVs
DECIPHER SNVs DECIPHER: Chromosomal Imbalance and Phenotype in Humans (SNVs)
Development Delay Copy Number Variation Morbidity Map of Developmental Delay
Dosage Sensitivity pHaplo and pTriplo dosage sensitivity map from Collins et al 2022
GenCC GenCC: The Gene Curation Coalition Annotations
Gene Interactions Protein Interactions from Curated Databases and Text-Mining
GeneReviews GeneReviews
GWAS Catalog NHGRI-EBI Catalog of Published Genome-Wide Association Studies
HGMD public Human Gene Mutation Database - Public Version Dec 2023
LOVD Variants LOVD: Leiden Open Variation Database Public Variants
Orphanet Orphadata: Aggregated Data From Orphanet
PanelApp Genomics England PanelApp Diagnostics
REVEL Scores REVEL Pathogenicity Score for single-base coding mutations (zoom for exact score)
SNPedia SNPedia
new SpliceAI SpliceAI: Splice Variant Prediction Score
     SpliceAI indels (masked)     SpliceAI Indels (masked)
     SpliceAI SNVs (masked)     SpliceAI SNVs (masked)
     SpliceAI indels     SpliceAI Indels (unmasked)
     SpliceAI SNVs     SpliceAI SNVs (unmasked)
TCGA Pan-Cancer TCGA Pan-Cancer mutations: 33 TCGA Cancer Projects Summary (Pan-Can 33)
UniProt Variants UniProt/SwissProt Amino Acid Substitutions
Variants in Papers Genetic Variants mentioned in scientific publications
     Mastermind Variants     Genomenon Mastermind Variants extracted from full text publications
     Avada Variants     Avada Variants extracted from full text publications
-   Human Pangenome - HPRC    
Multiple Alignment Multiple Alignment on 90 human genome assemblies
Pairwise Alignments Human Genomes, Chain/Net pairwise alignments, as mapped by the HPRC project
Rearrangements Rearrangements including indels, inversions, and duplications
Short Variants Short Variants
     HPRC Variants > 3bp     HPRC VCF variants filtered for items size > 3bp
     HPRC Variants <= 3bp     HPRC VCF variants filtered for items size <= 3bp
     HPRC All Variants     HPRC variants decomposed from hprc-v1.0-mc.grch38.vcfbub.a100k.wave.vcf.gz (Liao et al 2023), no size filtering
-   mRNA and EST    
Human ESTs Human ESTs Including Unspliced
Human mRNAs Human mRNAs from GenBank
Other ESTs Non-Human ESTs from GenBank
Other mRNAs Non-Human mRNAs from GenBank
SIB Alt-Splicing Alternative Splicing Graph from Swiss Institute of Bioinformatics
Spliced ESTs Human ESTs That Have Been Spliced
-   Expression    
GTEx Gene V8 Gene Expression in 54 tissues from GTEx RNA-seq of 17382 samples, 948 donors (V8, Aug 2019)
GTEx RNA-Seq Coverage GTEx V8 RNA-Seq Read Coverage by Tissue
Affy Archive Affymetrix Archive
     Affy U95     Alignments of Affymetrix Consensus/Exemplars from HG-U95
     Affy U133     Alignments of Affymetrix Consensus/Exemplars from HG-U133
     Affy GNF1H     Alignments of Affymetrix Consensus/Exemplars from GNF1H
EPDnew Promoters Promoters from EPDnew
GNF Atlas 2 GNF Expression Atlas 2
GTEx Gene Gene Expression in 53 tissues from GTEx RNA-seq of 8555 samples (570 donors)
GTEx Transcript Transcript Expression in 53 tissues from GTEx RNA-seq of 8555 samples/570 donors
GWIPS-viz Riboseq Ribosome Profiling from GWIPS-viz
miRNA Tissue Atlas Tissue-Specific microRNA Expression from Two Individuals
Single Cell Expression Single cell RNA expression levels cell types from many organs
+   Single Cell RNA-seq    
-   Regulation    
ENCODE cCREs ENCODE Candidate Cis-Regulatory Elements (cCREs) combined from all cell types
ENCODE Regulation Integrated Regulation from ENCODE
     TF ChIP     Transcription Factor ChIP-seq Peaks (340 factors in 129 cell types) from ENCODE 3
     TF Clusters     Transcription Factor ChIP-seq Clusters (340 factors, 129 cell types) from ENCODE 3
     DNase HS     DNase I Hypersensitivity in 95 cell types from ENCODE
     DNase Signal     DNase I Hypersensitivity Signal Colored by Similarity from ENCODE
     DNase Clusters     DNase I Hypersensitivity Peak Clusters from ENCODE (95 cell types)
     Layered H3K27Ac     H3K27Ac Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE
     Layered H3K4Me3     H3K4Me3 Mark (Often Found Near Promoters) on 7 cell lines from ENCODE
     Layered H3K4Me1     H3K4Me1 Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE
     Transcription     Transcription Levels Assayed by RNA-seq on 9 Cell Lines from ENCODE
CpG Islands CpG Islands (Islands < 300 Bases are Light Green)
     Unmasked CpG     CpG Islands on All Sequence (Islands < 300 Bases are Light Green)
     CpG Islands     CpG Islands (Islands < 300 Bases are Light Green)
FANTOM5 FANTOM5: Mapped transcription start sites (TSS) and their usage
     TSS activity (TPM)     FANTOM5: TSS activity per sample (TPM)
     TSS activity - read counts     FANTOM5: TSS activity per sample read counts
     Max counts of CAGE reads     FANTOM5: Max counts of CAGE reads
     Total counts of CAGE reads     FANTOM5: Total counts of CAGE reads
     TSS peaks     FANTOM5: DPI peak, robust set
GeneHancer GeneHancer Regulatory Elements and Gene Interactions
GTEx cis-eQTLs GTEx fine-mapped cis-eQTLs
Hi-C and Micro-C Comparison of Micro-C and In situ Hi-C protocols in H1-hESC and HFFc6
JASPAR Transcription Factors JASPAR Transcription Factor Binding Site Database
ORegAnno Regulatory elements from ORegAnno
RefSeq Func Elems NCBI RefSeq Functional Elements
ReMap ChIP-seq ReMap Atlas of Regulatory Regions
VISTA Enhancers VISTA Enhancers
-   Comparative Genomics    
Conservation Vertebrate Multiz Alignment & Conservation (100 Species)
Cactus 241-way Cactus Alignment & Conservation of Zoonomia Placental Mammals (241 Species)
Cons 30 Primates Mammals Multiz Alignment & Conservation (27 primates)
Primate Chain/Net Primate Genomes, Chain and Net Alignments
Placental Chain/Net Non-primate Placental Mammal Genomes, Chain and Net Alignments
Vertebrate Chain/Net Non-placental Vertebrate Genomes, Chain and Net Alignments
Cactus 447-way Cactus Alignment & Conservation on 447 mammal species, including Zoonomia genomes
CHM13 alignments CHM13 (GCA_009914755.4) v1_nfLO liftOver alignments
Multiz 470-way Multiz Alignment & Conservation (470 mammals)
-   Variation    
dbSNP 155 Short Genetic Variants from dbSNP release 155
1000 Genomes 1000 Genomes Phase 3
     1000G Ph3 Vars     1000 Genomes Phase 3 Integrated Variant Calls from IGSR: SNVs and Indels
     1000 Genomes Trios     Thousand Genomes Project Family VCF Trios
Array Probesets Microarray Probesets
dbSNP Archive dbSNP Track Archive
     All SNPs(141)     Simple Nucleotide Polymorphisms (dbSNP 141)
     Common SNPs(141)     Simple Nucleotide Polymorphisms (dbSNP 141) Found in >= 1% of Samples
     Flagged SNPs(141)     Simple Nucleotide Polymorphisms (dbSNP 141) Flagged by dbSNP as Clinically Assoc
     Mult. SNPs(141)     Simple Nucleotide Polymorphisms (dbSNP 141) That Map to Multiple Genomic Loci
     All SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142)
     Common SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142) Found in >= 1% of Samples
     Flagged SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142) Flagged by dbSNP as Clinically Assoc
     Mult. SNPs(142)     Simple Nucleotide Polymorphisms (dbSNP 142) That Map to Multiple Genomic Loci
     All SNPs(144)     Simple Nucleotide Polymorphisms (dbSNP 144)
     Common SNPs(144)     Simple Nucleotide Polymorphisms (dbSNP 144) Found in >= 1% of Samples
     Flagged SNPs(144)     Simple Nucleotide Polymorphisms (dbSNP 144) Flagged by dbSNP as Clinically Assoc
     Mult. SNPs(144)     Simple Nucleotide Polymorphisms (dbSNP 144) That Map to Multiple Genomic Loci
     All SNPs(146)     Simple Nucleotide Polymorphisms (dbSNP 146)
     Common SNPs(146)     Simple Nucleotide Polymorphisms (dbSNP 146) Found in >= 1% of Samples
     Flagged SNPs(146)     Simple Nucleotide Polymorphisms (dbSNP 146) Flagged by dbSNP as Clinically Assoc
     Mult. SNPs(146)     Simple Nucleotide Polymorphisms (dbSNP 146) That Map to Multiple Genomic Loci
     All SNPs(147)     Simple Nucleotide Polymorphisms (dbSNP 147)
     Common SNPs(147)     Simple Nucleotide Polymorphisms (dbSNP 147) Found in >= 1% of Samples
     Flagged SNPs(147)     Simple Nucleotide Polymorphisms (dbSNP 147) Flagged by dbSNP as Clinically Assoc
     Mult. SNPs(147)     Simple Nucleotide Polymorphisms (dbSNP 147) That Map to Multiple Genomic Loci
     Flagged SNPs(150)     Simple Nucleotide Polymorphisms (dbSNP 150) Flagged by dbSNP as Clinically Assoc
     Common SNPs(150)     Simple Nucleotide Polymorphisms (dbSNP 150) Found in >= 1% of Samples
     All SNPs(150)     Simple Nucleotide Polymorphisms (dbSNP 150)
     Mult. SNPs(150)     Simple Nucleotide Polymorphisms (dbSNP 150) That Map to Multiple Genomic Loci
     Mult. SNPs(151)     Simple Nucleotide Polymorphisms (dbSNP 151) That Map to Multiple Genomic Loci
     Flagged SNPs(151)     Simple Nucleotide Polymorphisms (dbSNP 151) Flagged by dbSNP as Clinically Assoc
     All SNPs(151)     Simple Nucleotide Polymorphisms (dbSNP 151)
     Common SNPs(151)     Simple Nucleotide Polymorphisms (dbSNP 151) Found in >= 1% of Samples
     dbSNP 153     Short Genetic Variants from dbSNP release 153
dbVar Common Struct Var NCBI Curated Common Structural Variants from dbVar
     dbVar Conflict SV     NCBI dbVar Curated Conflict Variants
     dbVar Common SV     NCBI dbVar Curated Common Structural Variants
DGV Struct Var Database of Genomic Variants: Structural Variation (CNV, Inversion, In/del)
Genome In a Bottle Genome In a Bottle Structural Variants and Trios
new gnomAD Variants Genome Aggregation Database (gnomAD) Genome and Exome Variants
    new gnomAD Structural Variants     Genome Aggregation Database (gnomAD) - Structural Variants v4.1
    new gnomAD Rare CNV Variants     Genome Aggregation Database (gnomAD) - Rare CNV variants (<1% overall site frequency) v4.1
    new gnomAD Constraint Metrics     Genome Aggregation Database (gnomAD) Predicted Constraint Metrics (LOEUF, pLI, and Z-scores)
     gnomAD Mut Constraint     Gnocchi: Genome Aggregation Database (gnomAD) non-coding constraint of haploinsufficient variation, includes chrX
     gnomAD v2     Genome Aggregation Database (gnomAD) Genome and Exome Variants v2.1
     gnomAD v3     Genome Aggregation Database (gnomAD) Genome Variants v3
     gnomAD v3.1     Genome Aggregation Database (gnomAD) Genome Variants v3.1
     gnomAD v3.1.1     Genome Aggregation Database (gnomAD) Genome Variants v3.1.1
    new gnomAD v4.1     Genome Aggregation Database (gnomAD) Genome and Exome Variants v4.1
Platinum Genomes Platinum genome variants
-   Repeats    
RepeatMasker Repeating Elements by RepeatMasker
Interrupted Rpts Fragments of Interrupted Repeats Joined by RepeatMasker ID
Microsatellite Microsatellites - Di-nucleotide and Tri-nucleotide Repeats
NuMTs Sequence Nuclear mitochondrial DNA segments
RepeatMasker Viz. Detailed Visualization of RepeatMasker Annotations
Segmental Dups Duplications of >1000 Bases of Non-RepeatMasked Sequence
Self Alignment Human Chained Self Alignments
Simple Repeats Simple Tandem Repeats by TRF
WM + SDust Genomic Intervals Masked by WindowMasker + SDust