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• Genetic landscape of pediatric high hyperdiploid acute lymphoblastic leukemia

  Abstract in preparation

  Study EGAS00001001316

• Phenotypes_CaseFamilies

  Phenotypes from case families listed in medical records and used in analyses.

  Dataset EGAD00010002125

• CHILD Study Dataset

  This data set contains the CRAM files for the samples in the CHILD cohort, sequenced on the Illumina HiSeq X platform.

  Dataset EGAD00001009710

• IN UTERO ORIGIN OF MYELOFIBROSIS PRESENTING IN ADULT MONOZYGOTIC TWINS AFTER A PROLONGED DISEASE LATENCY

  Study EGAS00001005744

• Spatial transcriptome sequence data from cross section of cancer containing prostates

  Spatial transcriptome sequence data from two tumour containing prostates. Entire cross section of organ divided into cubes to fit spatial transcriptomics arrays. The dataset contains paired-end sequences from 21 sections of 1k array sections and 9 sections of 10x Visium sections for patient 1 as well as 28 sections of 10x Visium sections for patient 2.

  Dataset EGAD00001008644

• CIR-RIMLS committee on data access to Immunological mechanisms for celiac disease database

  Dac EGAC00001000557

• scRNA-seq analysis Identifies Hepatic IL-13-Producing ILC3-Like Cells Potentially Linked to Liver Fibrosis

  Study EGAS00001007207

• A renal cell carcinoma tumorgraft platform to advance precision medicine

  Study EGAS00001005516

• Neoantigens in bladder cancer

  Detection of spontaneous anti-neoepitope T-cell responses in non-metastatic bladder cancer patients

  Dac EGAC50000000740

• STARR-seq of ERa binding sites in MCF7 and Ishikawa cell lines

  A oligo-captured STARR-seq library was generated using as targets ERa binding regions indetified by ChIP-seq in Ishikawa (Endometrial cancer) and T47D (breast cancer) cell lines and, breast cancer primary tissues. STARR-seq assays have been performed in MCF-7 and Ishikawa cell lines. Cells have been cultured for 3 days in hormone deprivated (phenol-red free) media and stimulated for 6 hours by 10nM estradiol (E2) or DMSO (negative control).

  Dataset EGAD50000000015

• Unmapped sequencing reads of EGAD00001007002

  Bam files of unmapped sequencing reads of samples in EGAD00001007002. When utilized in combination with corresponding aligned bam files in dataset EGAD00001007002, they contain all sequencing reads of samples.

  Dataset EGAD00001007647

• Mutation analysis of 10 genes in plasma DNA of RCC patients

  Mutation analysis of 10 frequently mutated genes in renal cell carcinoma (BAP1, KDM5C, MET, MTOR, PBRM1, PIK3CA, PTEN, SETD2, TP53, VHL) in plasma DNA of RCC patients using a custom QIASeq panel (MonRec Cohort)

  Dataset EGAD00001005806

• Differential Presence of Exons in Cell-Free DNA Reveals Different Patterns in Colorectal Cancer Between Metastatic and Non-Metastatic Patients

  Dac EGAC00001000749

• Exome sequencing in patients with cardiac arrhythmias

  Exome sequencing in patients with cardiac arrhythmias

  Dataset EGAD00001000022

• Hearing loss in adults from South Carolina

  Hearing loss in adults from South Carolina

  Dataset EGAD00001000204

• Anti-Cancer Therapies Induce Mutations in Adult Stem Cells in a Tissue-Specific Manner

  Study EGAS00001006042

• BCL3-rearrangements in B-cell lymphoid neoplasms occur in two breakpoint clusters associated with different diseases

  Study EGAS00001007465

• Swarm Learning to identify COVID-19, tuberculosis and leukemia patients based on blood transcriptomes

  Study EGAS00001004502

• SMARCA4/2 loss inhibits chemotherapy-induced apoptosis by restricting IP3R3-mediated Ca2+ flux to mitochondria

  Study EGAS00001005448

• Methylation profiles in blood (controls)

  Raw methylation data from blood samples in controls.

  Dataset EGAD00010002471

• scRNA mCRC PDO

  scRNA of five mCRC organoids in basal conditions

  Study EGAS00001006214

• Neuroblastoma patient Total RNA Seq data

  Tumor Total RNA Seq data of primary neuroblastomas. This is an update of the „Berlin Neuroblastoma Dataset” (EGAS00001004022). This data was used for the analysis of circular RNA expression and regulation in neuroblastoma.

  Dataset EGAD00001008124

• Molecular EPISTOP: Comprehensive multi-omic analysis of blood from Tuberous Sclerosis Complex infants age birth to two years

  Study EGAS00001007264

• Highly sensitive liquid biopsy Duplex sequencing complements tissue biopsy to enhance detection of clinically relevant genetic variants

  Study EGAS00001006805

• 1506_Methylation_M.vd.Berge

  DNA methylation in bronchial biopsies of asthmatics, asthma in remission and healthy subjects

  Dataset EGAD00010001731

• Non-coding RNAs in breast cancer

  Using RNA CaptureSeq we annotated non-coding RNAs transcribed from genome intervals surrounding breast cancer risk signals in a range of mammary-derived tissue and cell lines.

  Study EGAS00001003353

• BLUEPRINT DNA methylation profiles of monocytes, T cells and B cells in type 1 diabetes-discordant monozygotic twins

  BLUEPRINT DNA methylation profiles of monocytes, T cells and B cells in type 1 diabetes-discordant monozygotic twins

  Study EGAS00001001598

• SNU_PROSPECTIVE

  This study includes 5 paired samples of Korean AML paitients. 5 AML tumor samples are paired with each normal(Saliva or BM derived) sequencing data.The results of this WES study were analyzed by Mutect and GATK for ranking germline variants and cancer variants to make mutational profile matrix.

  Study EGAS00001002154

• SNU_WGS_AML

  This study includes 10 paired samples of Korean AML paitients.10 AML tumor samples are paired with each normal(Saliva or BM derived) sequencing data.The results of this WGS study were analyzed by Mutect and GATK for ranking germline variants and cancer variants to make mutational profile matrix.

  Study EGAS00001001906

• WGS,RNA data of patients with multiple myeloma (MM) refractory to immunomodulatory agents (IMiDs) and proteasome inhibitors (PIs)

  Paired WGS and RNA-Seq data of patients with multiple myeloma (MM) refractory to immunomodulatory agents (IMiDs) and proteasome inhibitors (PIs). We performed whole genome and transcriptome sequencing of 39 heavily pretreated RRMM patients with at least double refractoriness revealing complex structural changes and a high mutational load.

  Dataset EGAD00001006189

• Reduced-representation bisulfite sequencing generated from 2 glioblastoma cell lines subjected to hypoxic and irradiation stress

  This dataset includes 60 BAM files from HF2354, HF3016 glioblastoma cell lines subjected to continuous stress (hypoxia, 3-day and 9-day), stress followed by recovery (irradiation, 4-day stress exposure and 5-day recovery), and no stress/normoxia controls and profiled using reduced-representation bisulfite sequencing.

  Dataset EGAD00001007770

• UCL COVID-19 Single-cell PBMC

  Single-cell multi-omic profiling of COVID19 patients recruited from University College London. Data represent RNA-seq, surface protein measurements (CITE-seq) of 192 antibody targets, along with VDJ-seq profiling of single T cell and B cell receptors. Samples are pooled, with 4 donors per pool. Germ-line genotypes derived from previous single-cell RNA-sequencing are provided (VCF) to aid demultiplexing of single-cell and assignment to specific patient donor samples.

  Dataset EGAD00001007865

• Exome sequencing in patients with Calcific Aortic Valve Stenosis

  Exome sequencing in patients with Calcific Aortic Valve Stenosis

  Dataset EGAD00001000053

• Multi-omics analysis of pre-invasive lung adenocarcinoma in never-smokers

  Multi-omics analysis of pre-invasive lung adenocarcinoma in never-smokers

  Dac EGAC50000000385

• Neurodegenerative_TGS

  An investigation of clonal haematopoiesis in patients with neurodegenerative disease.

  Study EGAS00001002431

• Plasma DNA profile in DNASE1L3 deficiency

  Plasma DNA profile in DNASE1L3 deficiency

  Dataset EGAD00001006216

• H3K4me3, IgG, and Input ChIP-seq in overexpression of pLV Control, CS-FL and CS-ΔEx4 in SW1116 cells.

  none

  Study EGAS00001008121

• Whole-genome and transcriptome sequencing of NUT midline carcinoma

  In this study, we sequenced three NUT midline carcinoma genomes and their transcriptomes (NMC1, NMC2 and Ty-82), and two paired normal blood samples (for NMC1 and NMC2). Whole-genome sequencing libraries were generated by PCR-free methods, and sequencing run was made in HiSeq X machines. Transcriptome (mRNA) sequencing was performed in HiSeq 2500 machines. PCR duplicates-marked, indel-realigned, and base-recalibrarted BAM files are provided in our dataset.

  Dataset EGAD00001003117

• The 5-hydroxymethylcytosine Landscape of Prostate Cancer

  This dataset consists of genome-wide 5hmC methylomes at various stages of prostate cancer, including not only 93 metastases from castration-resistant prostate cancer (mCRPC) patients, but also 5hmC patterns in cell-free DNA (cfDNA). There are 2000 runs in total as fastq files.

  Dataset EGAD00001008462

• Pediatric Sarcoma PDX whole exome sequencing dataset

  Data access policy to access Pediatric Sarcoma PDX whole exome sequencing dataset

  Dac EGAC50000000051

• Case Report: early contribution of germline and nevi genetic alterations to a rapidly-progressing Cutaneous Melanoma Patient

  Study EGAS00001006459

• WGSPD Project 3 - Genomic Strategies to Identify High-impact Psychiatric Risk Variants

  Study EGAS00001004838

• ChIP-seq data in MSC_Pat and EWIma1 (FLI1 & H3K27ac)

  Ewing sarcoma is characterized by pathognomonic translocations fusing most frequently EWSR1 with FLI1 (EF1). In addition, Ewing sarcoma can also display alterations in STAG2, TP53 and CDKN2A (SPC). Starting from Ewing sarcoma derived human mesenchymal stem cells (MSCpat), we recapitulated this translocation and SPC alterations using a CRISPR/cas9 approach and generated a bona fide Ewing sarcoma model (EWIma1) displaying transcriptomic and epigenetic hallmarks of EwS.

  Study EGAS50000001172

• RNA-seq data in hMPC, MSC_Pat and EWIma

  Ewing sarcoma is characterized by pathognomonic translocations fusing most frequently EWSR1 with FLI1 (EF1). In addition, Ewing sarcoma can also display alterations in STAG2, TP53 and CDKN2A (SPC). Starting from Ewing sarcoma derived human mesenchymal stem cells (MSCpat), we recapitulated this translocation and SPC alterations using a CRISPR/cas9 approach and generated a bona fide Ewing sarcoma model (EWIma1) displaying transcriptomic and epigenetic hallmarks of EwS.

  Study EGAS50000001173

• A single-cell transcriptional gradient in human cutaneous memory T cells restricts Th17/Tc17 identity

  We identified a gradated transcriptional program of coordinately regulated inflammation-suppressive genes in psoriatic resident memory T cells. This dataset includes bulk RNA-seq for CRISPR-based deactivation of two core components of this inflammation-suppressive program, ZFP36L2 and ZFP36, in human PBMCs. It also includes scRNA-seq of cutaneous immune cells from psoriasis patients before and during therapeutic IL-23 blockade.

  Study EGAS00001006716

• Burden of Disease in Sarcoma

  Burden of Disease in Sarcoma

  Dataset EGAD00001000127

• Whole Genome Methylation in CLL

  Whole Genome Methylation in CLL

  Dataset EGAD00001000177

• Gene Discovery in Age-Related Hearing Loss

  Gene Discovery in Age-Related Hearing Loss

  Dataset EGAD00001000198

• Screening for abnormal CGI methylation in primary colorectal tumours

  Screening for abnormal CGI methylation in primary colorectal tumours

  Dataset EGAD00001000213

• ASD_cases

  Diagnostic yield of affymetrix optima microarray in patients with non-syndromic autism spectrum disorders in India.

  Dataset EGAD00010002342