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• Proteogenomic Landscape of Curable Prostate Cancer

  Aligned RNA-seq sequences in this dataset are from the Proteogenomic Landscape of Curable Prostate Cancer study

  Dataset EGAD00001004875

• MGRB dataset. GATK joint called variants of 2570 phase 2 samples.

  This dataset comprises a 2572 sample joint called vcf from the Medical Genome Reference Bank.

  Dataset EGAD00001005228

• PCa mtDNA data

  50 paired benign/cancer samples from prostate tissue generated in 2 different runs - on 3 plates on the IonTorrent Proton. Total of 200 fastq.gz single end runs. Read length ~300 bp. %GC 44 Sequences per file approx 1 Mio.

  Dataset EGAD00001005945

• Epigenetic subtypes of neuroblastoma - ChIPseq

  In the absence of recurrent gene mutations, evidence accumulates that epigenetic deregulation plays a prominent role in neuroblastoma biology. Here we provide genome wide H3K27ac profiles in 60 primary neuroblastoma samples.

  Dataset EGAD00001006285

• Smart-seq2 raw reads of human kidney glomerular single cells

  Smart-seq2 single cell RNA sequencing reads from kidney glomerular single cells of healthy human individuals. The dataset contains single-end fastq files of 766 single cells.

  Dataset EGAD00001006861

• Rucaparib in patients presenting a metastatic breast cancer

  Whole genome sequencing was performed on 24 patients (tumor DNA paired to constitutional DNA). WGS libraries were subjected to paired-end (2 x 100 bp) sequencing on NovaSeq (Illumina). The 96 files are in FASTQ format.

  Dataset EGAD00001006458

• EPC (eccrine porocarcinoma) WES samples

  Whole-exome sequencing (WES) in a well-characterized sample of 14 matched EP tumour/healthy surrounding tissue samples. The sequencing was done with paired EXOME sequencing on Illumina HiSeq 4000 using Agilent SureSelect XT HS + Human All Exon V7.

  Dataset EGAD00001006395

• bulkRNA seq from fibroblasts stimmulated with bead or CD8 T cell supernatant

  CD8 T cells (5 Samples treated, 5 samples control) form the same donors (5 donors, paired design) was subject to RNA-seq (Illumina stranded mRNA) processing. Single end fastq-files are supplied.

  Dataset EGAD00001010004

• Human tumor single-cell mutiome

  We profiled 1 patient neuroblastoma-FOXR2 tumor sample by single-cell multiome RNA + ATAC. The raw fastqs are provided.

  Dataset EGAD00001010902

• Human tumor single-nuclei RNA-seq

  We profiled 4 patient neuroblastoma-FORX2 tumor samples by single-nuclei RNA-seq using 10X Chromium 3'. The raw fastqs are provided.

  Dataset EGAD00001010903

• Treated and control Patient Derived Xenografts of colorectal cancer (CRC) samples

  Dac EGAC00001003073

• Molecular and Population Genetics (MPG) research at ICR DAC agreement

  Dac EGAC00001000303

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001000327

• Clonal evolution study of Intrahepatic cholangiocarcinoma: 69 PDPCs and 6 tissues.

  Dac EGAC00001000718

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001140

• Data Access Committee of Institute of Molecular and Translational Medicine

  Dac EGAC00001001172

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001232

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001235

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001292

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001299

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001356

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001459

• Single Cell RNAseq of blood and tumor from renal cancer patients

  Dac EGAC00001001494

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001542

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001001716

• University of Helsinki Systems Biology and Turku University Hospital Data Access Committee

  Dac EGAC00001001937

• Department of Pathology and Tumor Biology, Kyoto University, Data Access Commitee

  Dac EGAC00001001992

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002014

• Characterizing microbiome-directed fibre snacks in gnotobiotic mice and humans

  Dac EGAC00001002104

• University College London, Department of Genetics and Genomic Medicine (UCL GGM)

  Dac EGAC00001002121

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002207

• Institute of Medical Genetics and Pathology, University Hospital Basel, Basel, Switzerland

  Dac EGAC00001002346

• Human and rat skeletal muscle multiomic profiling data access committee

  Dac EGAC00001002380

• ​Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002417

• University College London, Department of Genetics and Genomic Medicine (UCL GGM)

  Dac EGAC00001002813

• DAC - Liquid biopsy: Reference materials and patient with overgrowth syndrome

  Dac EGAC00001002998

• Longitudinal dynamics in relapsed and refractory Hodgkin lymphoma Data Commitee

  Dac EGAC50000000108

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002159

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002781

• Single cell data Multiple Sclerosis and other neurological diseases

  Dac EGAC50000000083

• Total proteome and phosphoproteome profiling of Diffuse Midline Glioma

  Study EGAS00001007341

• Transcriptome and epigenome characterization of BMP signaling effects on H3.3K27M DIPG

  Study EGAS00001005374

• Low-C on Human CB-derived LT-HSC and ST-HSC

  Study EGAS00001004744

• Gene expression in CSF and blood of patients with pneumococcal meningitis

  Study EGAS00001003355

• GBM stem cell lines and PRMT5 inhibitor

  Study EGAS00001004397

• Cell of Origin and Early Evolution of Leukemia in Down Syndrome

  Study EGAS00001004780

• Molecular analysis of inflammatory myofibroblastic tumor (WGS and WES)

  Study EGAS00001005081

• Microbiota, Appetite, and Malnutrition in Dutch Community-dwelling older adults

  Study EGAS00001005319

• Human subsistence and signatures of selection on chemosensory genes

  Study EGAS00001007307

• EGAD00010000468

  Uveal melanoma matched Tumour and blood samples

  Dataset EGAD00010000468

• Evolutionary Genome Analysis of Transformation into Small Cell Carcinomas from Lung Adenocarcinomas

  Anecdotal case have been reported lung adenocarcinoma could occasionally transform into small cell carcinoma. Most of the reported cases were EGFR-mutant lung adenocarcinomas that transform into small cell carcinoma during EGFR tyrosine kinase inhibitor treatment. However, some cases also indicate lung adenocarcinomas without EGFR mutation could also transform into small cell carcinomas. Here we investigate this transformation process by whole genome sequencing of transformed small cell carcinomas as well as serially acquired samples of lung adenocarcinoma into small cell carcinomas.

  Study EGAS00001001757

• Genome sequence data from a metastatic squamous cell carcinoma of the oropharynx patient

  Genome sequence data from a metastatic squamous cell carcinoma of the oropharynx patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

  Dataset EGAD00001003691

• Advanced Genomic Techniques in Sequencing of Colorectal Cancer

  We developed a method that uses allelic imbalance information in combination with phased genomic sequencing to generate mega-haplotypes that can encompass entire chromosome arms. We applied this technique to characterize aneuploidy and chromosomal alterations in colorectal cancers.

  Study phs001400

• A study on personalized medicine in genitourinary cancers using genetic biomarkers

  We present a patient with MSI-high castration-resistant PC who showed a remarkable and durable response to pembrolizumab. Whole exome sequencing revealed approximate tumor mutation burden of 61 mutations/Mb as well as biallelic loss of MSH2.

  Study JGAS000510

• Transcriptome analysis of Familial dysautonomia patient cells treated with splice-regulating compounds

  In order to investigate familial dysautonomia patient fibroblasts in response to splice-regulating compounds, cells were treated with RECTAS or TG003 and transcriptome study was conducted by RNA-seq. Splicing profiles of cells in each condition were then analyzed.

  Study JGAS000170

• Transcriptome analysis of Fabry disease iPSC-derived cardiomyocytes treated with splice-regulating compound; RECTAS

  In order to investigate transcriptome profiles in response to splice-regulating compounds, iPSC-derived cardyomyocytes were treated with RECTAS and transcriptome study was conducted by RNA-seq. Splicing profiles of cells in each condition were then analyzed.

  Study JGAS000225

• Alternative splicing in Shh-MB

  We analyzed alternative splicing with Shh medulloblastoma. This dataset contains bam files of whole genome sequencing from 4 cases. Genomic DNA was isolated from both tumor and matched control specimens. We performed whole genome sequence on Illumina Hiseq.

  Study EGAS00001003220

• Analysis of T cells in follicular lymphoma

  This study aimed to identify new heterogeneities in human T cells of follicular lymphoma. To do so, we performed scRNA-seq of human lymph node and follicular lymphoma samples. We identified minor T cell subsets expanding in follicular lymphoma.

  Study EGAS50000000778

• Methylation profiles in patients with blastic plasmacytoid dendritic cell neoplasm

  We added 7 additional samples to our previous cohort (EGAS00001006166). Each samples comprises RNA-seq and whole exome sequencing data. Methylation EPIC Array data have been deposited in Gene Expression Omnibus (GEO) under accession number GSE230487.

  Study EGAS00001007201

• Single-cell multiome ATAC and gene expression profiling of hepatoblastoma tumor organoids

  10X Genomics single-cell multiome profiling of hepatoblastoma tumor organoids using Chromium Next GEM Single-Cell Multiome ATAC + Gene Expression Kit. Single-cell transcriptomics data (bam file) of multiplexed sample of hepatoblastoma tumor organoids: 3E, 8F1, 10F2, 13F2, 13E, 17E and 96F1. Single-cell solutions were obtained from fresh organoid samples using enzymatic digestion.

  Dataset EGAD50000000795

• Genomics of enteropathy-associated T cell lymphoma (EATL)

  Whole exome sequencing of enteropathy-associated T cell lymphoma (EATL) tumors and paired normals, as well as RNA-sequencing of EATL tumors: including (1) 69 exome capture, paired-end Illumina Hiseq sequencing, BAM files from EATL tumor samples, (2) 36 exome capture, paired-end Illumina Hiseq sequencing, BAM files from EATL paired normal samples, and (3) 32 RNAseq, paired-end Illumina Hiseq sequencing, BAM files from EATL tumor samples.

  Dataset EGAD00001003284

• Exome sequencing data of 15 French Caucasian and 10 African-Caribbean men with prostate Cancer.

  Exome sequencing data of 15 French Caucasian and 10 African-Caribbean men with prostate Cancer.

  Dataset EGAD00001003306

• DDD DATAFREEZE 2017-12-15: 13,462 trios and probands only - exome sequence VCF files

  DDD DATAFREEZE 2017-12-15: 13,462 trios and probands only - exome sequence VCF files

  Dataset EGAD00001004389

• DDD DATAFREEZE 2017-12-15: 13,462 trios and probands only - exome sequence CRAM files

  DDD DATAFREEZE 2017-12-15: 13,462 trios and probands only - exome sequence CRAM files

  Dataset EGAD00001004390

• Human Biofluid RNA Atlas

  This dataset contains small RNA sequencing data and mRNA capture sequencing data from 20 different human biofluids (amniotic fluid, aqueous humor, ascites, bile, bronchial lavage fluid, breast milk, cerebrospinal fluid, colostrum, gastric fluid, pancreatic cyst fluid, plasma, saliva, seminal fluid, serum, sputum, stool, synovial fluid, sweat, tear fluid and urine). In total, 180 samples were sequenced. Files are provided in fastQ format. Samples were sequenced on a NextSeq 500.

  Dataset EGAD00001005439

• MDS primary and xenografted samples treated with LOXL inhibitor

  This dataset contains bam files mapped to hg19 (exome and panel) or hg38 (RNA) that either were primary bone marrow cells or sorted human cells after long term engraftment in NSG mice treated with LOXL inhibitor

  Dataset EGAD00001008695

• Single-cell multi-omics data of human gliomas

  We profiled CD45- enriched, viable cells from GBM (n = 7) and IDH-MUT (n = 7) primary samples with multi-modality single-cell sequencing of scDNAme (by reduced representation bisulfite sequencing [RRBS]) and scRNAseq (Smart-seq2).

  Dataset EGAD00001009694

• Transcriptomic Profile of Colorectal Cancer Samples

  Samples encompass primary colorectal tumors or metastasis of 75 patients, collected by Medical Pathologists from surgically removed specimens. Tissues were embedded in optimal cutting temperature (OCT) medium, snapshot frozen in liquid nitrogen within 40 minutes of collection and preserved at -80ºC. Samples were collected between June 2010 and October 2017 as part of a prospective biobanking project.

  Dataset EGAD00001009506

• Walter and Eliza Hall Institute Research Data Access Committee

  Dac EGAC00001002877

• Carcinosarcoma Cohort from NHS Greater Glasgow, Clyde Biorepository, and Imperial College London

  Dac EGAC00001003299

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001003220

• Associations between APOE and cognitive ability in Generation Scotland.

  Dac EGAC00001000332

• Peter Mac Translational Breast Cancer Genomics and Therapeutics Lab Data Access Committee

  Dac EGAC00001000837

• DAC: Whole-genome and transcriptome sequencing of tumor-stage mycosis fungoides

  Dac EGAC00001000847

• Performance assessment of total RNA sequencing of human biofluids and extracellular vesicles

  Dac EGAC00001001591

• Human MPN RNA-seq and DNA methylation data requests committee

  Dac EGAC00001001688

• University of Helsinki Systems Biology and Turku University Hospital Data Access Committee

  Dac EGAC00001001978

• Department of Pathology and Tumor Biology, Kyoto University Data Access Committee

  Dac EGAC00001002205

• DAC - Liquid biopsy with matched tumor tissue and saliva: CRC + controls

  Dac EGAC00001002835

• Single-cell sequencing of adipose-derived mesenchymal stromal cells and dermal fibroblasts.

  Dac EGAC00001003062

• Mitochondrial DNA (mtDNA) analyses in patients with schizophrenia and healthy control individuals

  Study EGAS00001003269

• Single-cell multi-omics and mtDNA genotyping of human peripheral blood cells

  Dac EGAC50000000583

• Quantitative Exploratory Proteomics Analysis of Glioblastoma in Initial and Recurrent Tumors

  Study EGAS00001006395

• Activating AKT1 and PIK3CA mutations in metastatic castration-resistant prostate cancer

  Study EGAS00001004328

• Array-based methylation analysis of SDHB-deficient pheochromocytoma and paraganglioma

  Study EGAS00001007844

• Population Genomics of Native Americans from Andes and Amazon

  Study EGAS00001004639

• Atrial appendage miRNA-seq in non-, paroxysmal and persistent atrial fibrillation

  Study EGAS00001005296

• Human gut microbiome in babies with biliary atresia and normal controls

  Study EGAS00001005350

• RNAseq from regions of insitu and invasive human mammary ductal disease

  Study EGAS00001005370

• Optimisation of CITE-seq on liquid and solid tissues

  Study EGAS00001005849

• Oesophageal adenocarcinoma whole exome and RNA-seq raw sequencing data

  Study EGAS00001005957

• Treated and control Patient Derived Xenografts of colorectal cancer (CRC) samples

  Study EGAS00001006973

• Advanced iPSC-CMs maturation by integrating maturation medium, nanopatterning, and electrical stimulation

  Study EGAS00001007491

• EGAD00010000704

  610k genotyping imputed on Hapmap 3 and 1000G Phase 1 CEU

  Dataset EGAD00010000704

• saudi_qc_data

  Genotyped case and control sampes using HumanExome Beadchip

  Dataset EGAD00010000872

• VIB Department of Molecular Genetics DAC AMG and NG

  Dac EGAC00001000395

• DAC Genomic and transcriptomic profiling of signalling networks in follicular lymphoma

  Dac EGAC00001000577

• snRNA-seq in white matter post-mortem tissue from MS and controls - DAC

  Dac EGAC00001001105

• Germline TET2 and DNMT3A committee

  Dac EGAC00001001130

• Department of Hematology and Oncology, Nagoya City University Graduate School of Medical Sciences

  Dac EGAC00001001166