Control track and group visibility more selectively below.
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| 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 |
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| V1 Aligned BAM |
| Cisplatin-treated cells BAM file |
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| Base Position |
| Chromosome position in bases. (Clicks here zoom in 3x) |
| p14
Fix Patches |
| Reference Assembly Fix Patch Sequence Alignments |
| p14
Alt Haplotypes |
| Reference Assembly Alternate Haplotype Sequence Alignments |
| Assembly |
| Assembly from Fragments |
| Assembly Tracks |
| Assembly identifiers, clones, and markers |
| STS Markers |
| STS Markers on Genetic (blue) and Radiation Hybrid (black) Maps |
| Scaffolds |
| GRCh38 Defined Scaffold Identifiers |
| GRC Contigs |
| Genome Reference Consortium Contigs |
FISH Clones |
| Clones Placed on Cytogenetic Map Using FISH |
| Centromeres |
| Centromere Locations |
| Chromosome Band |
| Chromosome Bands Localized by FISH Mapping Clones |
| Clone Ends |
| Mapping of clone libraries end placements |
| Exome Probesets |
| Exome Capture Probesets and Targeted Region |
| Gap |
| Gap Locations |
| GC Percent |
| GC Percent in 5-Base Windows |
| GRC Incident |
| GRC Incident Database |
| Hg19 Diff |
| Contigs New to GRCh38/(hg38), Not Carried Forward from GRCh37/(hg19) |
| INSDC |
| Accession at INSDC - International Nucleotide Sequence Database Collaboration |
| LiftOver & ReMap |
| UCSC LiftOver and NCBI ReMap: Genome alignments to convert annotations to hg19 |
| LRG Regions |
| Locus Reference Genomic (LRG) / RefSeqGene Sequences Mapped to Dec. 2013 (GRCh38/hg38) Assembly |
| Mappability |
| Hoffman Lab Umap and Bismap Mappability |
| Umap |
| Single-read and multi-read mappability by Umap |
| Bismap |
| Single-read and multi-read mappability after bisulfite conversion |
| updated
Problematic Regions |
| Problematic/special genomic regions for sequencing or very variable regions |
| new
GIAB Problematic Regions |
| Difficult regions from GIAB via NCBI |
| Highly Reproducible Regions |
| Highly Reproducible genomic regions for sequencing |
| Problematic Regions |
| Problematic/special genomic regions for sequencing or very variable regions |
| Recomb Rate |
| Recombination rate: Genetic maps from deCODE and 1000 Genomes |
| Recomb. 1k Genomes |
| Recombination rate: 1000 Genomes, lifted from hg19 (PR Loh) |
| Recomb. deCODE Dmn |
| Recombination rate: De-novo mutations found in deCODE samples |
| Recomb. deCODE Evts |
| Recombination events in deCODE Genetic Map (zoom to < 10kbp to see the events) |
| Recomb. deCODE Mat |
| Recombination rate: deCODE Genetics, maternal |
| Recomb. deCODE Pat |
| Recombination rate: deCODE Genetics, paternal |
| Recomb. deCODE Avg |
| Recombination rate: deCODE Genetics, average from paternal and maternal (mat for chrX) |
| RefSeq Acc |
| RefSeq Accession |
| Restr Enzymes |
| Restriction Enzymes from REBASE |
| Short Match |
| Perfect Matches to Short Sequence () |
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| 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 |
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| 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 |
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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 |
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| 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 |
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| 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 |
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| 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 |
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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 |
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| Blood (PBMC) Hao |
| Peripheral blood mononuclear cells (PBMC) from Hao et al 2020 |
| Blood PBMC Time |
| Blood PBMCs binned by time into experiment from Hao et al 2020 |
| Blood PBMC Phase |
| Blood PBMCs binned by phase of cell cycle from Hao et al 2020 |
| Blood PBMC Donor |
| Blood PBMCs binned by blood donor from Hao et al 2020 |
| Blood PBMC Cells 3 |
| Blood PBMCs binned by cell type (level 3) from Hao et al 2020 |
| Blood PBMC Cells 2 |
| Blood PBMCs binned by cell type (level 2) from Hao et al 2020 |
| Blood PBMC Cells |
| Blood (PBMCs) binned by cell type (level 1) from Hao et al 2020 |
| Colon Wang |
| Colon single cell sequencing from Wang et al 2020 |
| Colon Donor |
| Colon cells binned by organ donor from Wang et al 2020 |
| Colon Cells |
| Colon cells binned by cell type from Wang et al 2020 |
| Cortex Velmeshev |
| Cerebral cortex single cell data from Velmeshev et al 2019 |
| Cortex Sex |
| Cerebral cortex RNA binned by sex of donor from Velmeshev et al 2019 |
| Cortex Sample |
| Cerebral cortex RNA binned by biosample from Velmeshev et al 2019 |
| Cortex Donor |
| Cerebral cortex RNA binned by organ donor from Velmeshev et al 2019 |
| Cortex Diagnosis |
| Cerebral cortex RNA binned by ASD/control diagnosis from Velmeshev et al 2019 |
| Cortex Cells |
| Cerebral cortex RNA binned by cell type from Velmeshev et al 2019 |
| Cross Tissue Nuclei |
| Single Nuclei sequenced across many tissues |
| GTEx Immune Atlas |
| GTEx single nuclei immune expression |
| Cross Tissue Details |
| Cross tissue nuclei full details |
| Cross Tissue Nuclei |
| Cross tissue nuclei RNA by tissue and cell type |
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Fetal Gene Atlas |
| Fetal Gene Atlas from Cao et al 2020 |
| Fetal Sex |
| Fetal Gene Atlas binned by sex from Cao et al 2020 |
| Fetal RT Group |
| Fetal Gene Atlas binned by RT group from Cao et al 2020 |
| Fetal Organ |
| Fetal Gene Atlas binned by organ from Cao et al 2020 |
| Fetal Lineage |
| Fetal Gene Atlas binned by cell lineage and organ from Cao et al 2020 |
| Fetal Exp |
| Fetal Gene Atlas binned by experiment id from Cao et al 2020 |
| Fetal Donor ID |
| Fetal Gene Atlas binned by donor ID from Cao et al 2020 |
| Fetal Cells |
| Fetal Gene Atlas binned by cell type from Cao et al 2020 |
| Fetal Assay |
| Fetal Gene Atlas binned by assay (cell/nucleus) from Cao et al 2020 |
| Heart Cell Atlas |
| Heart single cell RNA data from https://heartcellatlas.com |
| Heart HCA Version |
| Heart cell RNA binned by 10x chemistry version from https://heartcellatlas.org |
| Heart HCA State |
| Heart cell RNA binned by cell state from https://heartcellatlas.org |
| Heart HCA Source |
| Heart cell RNA binned by source (nucleus vs whole cell) from https://heartcellatlas.org |
| Heart HCA Sex |
| Heart cell RNA binned by sex of donor from https://heartcellatlas.org |
| Heart HCA Sample |
| Heart cell RNA binned by biosample from https://heartcellatlas.org |
| Heart HCA Region |
| Heart cell RNA binned by region of collection from https://heartcellatlas.org |
| Heart HCA Donor |
| Heart cell RNA binned by organ donor from https://heartcellatlas.org |
| Heart HCA Cells |
| Heart cell RNA binned by cell type from https://heartcellatlas.org |
| Heart HCA Age |
| Heart cell RNA binned by age group of donor from https://heartcellatlas.org |
| Ileum Wang |
| Ileum single cell sequencing from Wang et al 2020 |
| Ileum Donor |
| Ileum cells binned by organ donor from Wang et al 2020 |
| Ileum Cells |
| Ileum cells binned by cell type from Wang et al 2020 |
| Kidney Stewart |
| Kidney single cell data from Stewart et al 2019 |
| Kidney Project |
| Kidney RNA binned by project from Stewart et al 2019 |
| Kidney Experiment |
| Kidney RNA binned by Experiment from Stewart et al 2019 |
| Kidney Details |
| Kidney RNA binned by detailed cell type from Stewart et al 2019 |
| Kidney Compartment |
| Kidney RNA binned by compartment from Stewart et al 2019 |
| Kidney Cells |
| Kidney RNA binned by merged cell type from Stewart et al 2019 |
| Kidney Broad CT |
| Kidney RNA binned by broad cell type from Stewart et al 2019 |
| Liver MacParland |
| Liver single cell sequencing from MacParland et al 2018 |
| Liver Donor |
| Liver cells binned by organ donor from MacParland et al 2018 |
| Liver Cells |
| Liver cells binned by cell type from MacParland et al 2018 |
| Liver Broad |
| Liver cells binned by broad cell type from MacParland et al 2018 |
| Lung Travaglini |
| Lung cells from from Travaglini et al 2020 |
| Lung Sample FACS |
| Lung cells FACS method binned by sample from Travaglini et al 2020 |
| Lung Sample |
| Lung cells 10x method binned by sample from Travaglini et al 2020 |
| Lung Organ FACS |
| Lung cells FACS method binned by organ from Travaglini et al 2020 |
| Lung Organ |
| Lung cells 10x method binned by organ from Travaglini et al 2020 |
| Lung Mag Sel |
| Lung cells 10x method binned by magnetic.selection from Travaglini et al 2020 |
| Lung Locat FACS |
| Lung cells FACS method binned by location from Travaglini et al 2020 |
| Lung Locat |
| Lung cells 10x method binned by location from Travaglini et al 2020 |
| Lung Label FACS |
| Lung cells FACS method binned by label from Travaglini et al 2020 |
| Lung Half Det FACS |
| Lung cells FACS method binned by merged cell type from Travaglini et al 2020 |
| Lung Half Det |
| Lung cells 10x method binned by halfway detailed cell type from Travaglini et al 2020 |
| Lung Gating FACS |
| Lung cells FACS method binned by gating from Travaglini et al 2020 |
| Lung Donor FACS |
| Lung cells FACS method binned by organ donor from Travaglini et al 2020 |
| Lung Donor |
| Lung cells 10x method binned by organ donor from Travaglini et al 2020 |
| Lung Detail FACS |
| Lung cells FACS method binned by detailed cell type from Travaglini et al 2020 |
| Lung Detail |
| Lung cells 10x method binned by detailed cell type from Travaglini et al 2020 |
| Lung Compart FACS |
| Lung cells FACS method binned by compartment from Travaglini et al 2020 |
| Lung Compart |
| Lung cells 10x method binned by compartment from Travaglini et al 2020 |
| Lung Cells FACS |
| Lung cells FACS method binned by merged cell type from Travaglini et al 2020 |
| Lung Cells |
| Lung cells 10x method binned by merged cell type from Travaglini et al 2020 |
| Muscle De Micheli |
| Muscle single cell data from De Micheli et al 2020 |
| Muscle Sample |
| Muscle RNA binned by biosample from De Micheli et al 2020 |
| Muscle Cells |
| Muscle RNA binned by cell type from De Micheli et al 2020 |
| Pancreas Baron |
| Pancreas single cell sequencing from Baron et al 2016 |
| Pancreas Donor |
| Pancreas cells binned by organ donor from Baron et al 2016 |
| Pancreas Details |
| Pancreas cells binned by detailed cell type from Baron et al 2016 |
| Pancreas Cells |
| Pancreas cells binned by cell type from Baron et al 2016 |
| Pancreas Batch |
| Pancreas cells binned by batch from Baron et al 2016 |
| Placenta Vento-Tormo |
| Placenta and decidua cells from from Vento-Tormo et al 2018 |
| Placenta Stage |
| Placenta and decidua cells binned by placental stage 10x from Vento-Tormo et al 2018 |
| Placenta Mat/Fet Ss2 |
| Placenta and decidua cells binned by maternal/fetal smart-seq2 from Vento-Tormo et al 2018 |
| Placenta Mat/Fet |
| Placenta and decidua cells binned by maternal/fetal 10x from Vento-Tormo et al 2018 |
| Placenta Loc Ss2 |
| Placenta and decidua cells binned by cell location smart-seq2 from Vento-Tormo et al 2018 |
| Placenta Loc |
| Placenta and decidua cells binned by cell location 10x from Vento-Tormo et al 2018 |
| Placenta Detail Ss2 |
| Placenta and decidua cells binned by detailed cell type smart-seq2 from Vento-Tormo et al 2018 |
| Placenta Detail |
| Placenta and decidua cells binned by detailed cell type 10x from Vento-Tormo et al 2018 |
| Placenta Cells Ss2 |
| Placenta and decidua cells binned by cell type smart-seq2 from Vento-Tormo et al 2018 |
| Placenta Cells |
| Placenta and decidua cells binned by cell type 10x from Vento-Tormo et al 2018 |
| Rectum Wang |
| Rectum single cell sequencing from Wang et al 2020 |
| Rectum Donor |
| Rectum cells binned by organ donor from Wang et al 2020 |
| Rectum Cells |
| Rectum cells binned by cell type from Wang et al 2020 |
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Skin Sole-Boldo |
| Skin single cell data from Sole-Boldo et al 2020 |
| Skin Donor |
| Skin single cell RNA binned by skin donor from Sole-Boldo et al 2020 |
| Skin Cell+Age |
| Skin single cell RNA binned by cell type and donor's age from Sole-Boldo et all 2020 |
| Skin Cell |
| Skin single cell RNA binned by cell type from Sole-Boldo et al 2020 |
| Skin Age |
| Skin single cell RNA binned by skin donor's age from Sole-Boldo et al 2020 |
| Tabula Sapiens |
| Tabula Sapiens single cell RNA data from many tissues |
| Tabula Tissue Cell |
| Tabula sapiens RNA by tissue and cell type |
| Tabula Details |
| Tabula sapiens full details view |
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| 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) |
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Layered H3K27Ac |
| H3K27Ac Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE |
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Layered H3K4Me3 |
| H3K4Me3 Mark (Often Found Near Promoters) on 7 cell lines from ENCODE |
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Layered H3K4Me1 |
| H3K4Me1 Mark (Often Found Near Regulatory Elements) on 7 cell lines from ENCODE |
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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 |
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| 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) |
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| 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 |
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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 |
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| 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 |
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