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• Greek

  Greek Multiple Sclerosis cases and controls

  Dataset EGAD00010002115

• US

  US Multiple Sclerosis cases and controls

  Dataset EGAD00010002116

• Australia

  Australia Multiple Sclerosis cases and controls

  Dataset EGAD00010002117

• Expression profiles and genetic makeup of metastases of a cancer of unknown primary.

  Study EGAS00001004059

• Subgroup-specific gene expression profiles and mixed epistasis in chronic lymphocytic leukemia (HIPO, H005)

  Study EGAS00001006361

• Concurrent germline and somatic pathogenic BAP1 variants in a patient with metastatic bladder cancer

  Study EGAS00001004055

• HNF1A haploinsufficiency causes decreased insulin expression, dysregulation of pancreatic progenitor signature genes and affects chromatin accessibility

  Study EGAS00001006309

• Characterization of stromal tumor-infiltrating lymphocytes and genomic alterations in metastatic lobular breast cancer

  Study EGAS00001004641

• An Integrated Approach to Patient Stratification and Therapy Selection in Acute Myeloid Leukemia

  Study EGAS00001004655

• Immune infiltrate and tumor microenvironment transcriptional programs stratify pediatric osteosarcoma into prognostic groups at diagnosis

  Study EGAS00001005326

• Single Cell Transcriptomics of peripheral immune cells pre- and post-Immune Checkpoint Blockade

  Study EGAS00001005507

• Genomic profiling of metastatic basal cell carcinoma reveals candidate drivers of disease and therapeutic targets

  Study EGAS00001006148

• Neutrophil extracellular traps have auto-catabolic activity and produce mononucleosome-associated circulating DNA

  Study EGAS00001006759

• Mechanism of action and resistance to Trastuzumab Deruxtecan in patients with metastatic breast cancer

  Study EGAS00001007372

• RAGE engagement by SARS-CoV-2 enables monocyte infection and underlies COVID-19 severity

  Study EGAS00001007529

• Low-coverage whole-genome sequencing of cancer and healthy plasma circulating DNA

  Study EGAS00001007593

• DNA_methylation_pancreas

  DNA methylation of PDAC prescursors and normal pancreas cell population

  Dataset EGAD00010002386

• covarites

  covarites phenotypes, including gender (1=Female/0=Male), age and contraceptive

  Dataset EGAD00010002147

• Phenotypes_CaseFamilies

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

  Dataset EGAD00010002125

• REL-2017-07-2028

  HipSci - Bleeding and Platelet Disorders - Expression Array - July 2017

  Dataset EGAD00010001384

• Pacific_Islands

  Samples from eastern Polynesia, Taiwan, and Vanuatu

  Dataset EGAD00010001933

• Parallel sequencing of extrachromosomal circular DNAs and transcriptomes in single cancer cells

  Study EGAS00001007026

• Accessibility Over Transposable Elements Reveals Genetic Determinants of Stemness Properties in Normal and Leukemic Hematopoiesis

  Study EGAS00001007191

• Cell-free DNA sequencing data of healthy control, atrophic gastritis, and gastric cancer patients’ blood

  Study EGAS00001007308

• 20200819_EGA_Qld_Melanoma.biomarkers

  A study looking at Germline and Somatic biomarkers using WES data only

  Dataset EGAD00001006374

• DAC - Molecular patterns of response and treatment failure after frontline venetoclax combinations in older patients with AML

  Dac EGAC00001001461

• DAC: Whole-genome and transcriptome sequencing of primary cutaneous CD8+ aggressive epidermotropic cytotoxic T-cell lymphoma

  Dac EGAC00001001533

• Analysis of recent shared ancestry in a familial cohort identifies coding and noncoding autism spectrum disorder variants

  Dac EGAC00001002558

• INCLIVA-CC-panel DAC

  Colon cancer targeted sequencing study contaning WBCs, primary tumor tissue and plasma samples

  Dac EGAC50000000061

• DAC Department of Neurology, TUM University Hospital, Technical University of Munich, School of Medicine and Health

  Dac EGAC00001003508

• Homologous recombination DNA repair deficiency and activity of PARP inhibition in primary triple negative breast cancer

  Study EGAS00001004190

• Multi-modal analysis of pediatric pilocytic astrocytomas reveals tumor location-associated cellular and transcriptional heterogeneity

  Study EGAS00001008187

• Next Generation Sequencing Characterization of Hematopoietic Stem and Progenitors Cells in Human Systemic Lupus Eryhtematosus

  Study EGAS00001003679

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

  Study EGAS00001004502

• Single-cell genome-wide concurrent haplotyping and copy-number profiling through genotyping-by-sequencing

  Study EGAS00001005401

• hyper_hypo_methylation_proportion_Roadmap

  Proportion of hyper- and hypomethylated positions at Roadmap annotations. Data from 8 individuals.

  Dataset EGAD00010002416

• SNParray_BadBRCA

  Tumor and matched normal DNA profiling by SNP array

  Dataset EGAD00010002734

• microRNA

  Breast cancer tissue and controls

  Dataset EGAD00010001406

• oceoadapto_seanomad

  Genotyping data from Indonesian sea nomad and surrounding populations

  Dataset EGAD00010001200

• EGAD00010000130

  Cerebellar ataxia, mental retardation, and disequilibrium syndrome (CAMRQ) samples

  Dataset EGAD00010000130

• BCRC-ICGS (Bladder Cancer Research Centre, Institute of Cancer and Genomic Sciences, Univ. of Birmingham) Data Access Committee

  Dac EGAC00001001982

• Whole-exome sequencing of 47 microsatellites stable Early-onset sporadic rectal cancer (EOSRC) tumors and corresponding normal samples.

  Dac EGAC00001002502

• ecDNA amplification of MYC drives intratumor copy-number heterogeneity and adaptation to stress in PDAC

  Dac EGAC50000000070

• sncRNAseq human islets

  small non-coding RNA sequencing of 3 non diabetic donors and 3 donors with T2D.

  Dac EGAC50000000539

• Epigenome-wide methylation analysis of colorectal carcinoma, adenoma and normal tissue reveals novel biomarkers addressing unmet clinical needs

  Dac EGAC00001003510

• ILC RNAseq Curie Intitut Access Policy

  RNAseq data from ILC (n=168) and IC-NST/IDC (n=79)

  Dac EGAC50000000980

• Molecular profiling reclassifies adult astroblastoma into known and clinically distinct tumor entities with frequent MAPK pathway alterations

  Study EGAS00001003798

• Molecular analysis of CRC in patients with Primary Sclerosing Cholangitis (PSC) and Inflammatory Bowel Disease (IBD)

  Study EGAS00001004497

• Impaired Humoral and Cellular Immunity after SARS-CoV2 BNT162b2 (Tozinameran) Prime-Boost Vaccination in Kidney Transplant Recipients

  Study EGAS00001005280

• Mutational impact in liver stem cells under precancerous alcoholic liver, NASH and PSC disease conditions

  Study EGAS00001005384

• Single-cell RNA-seq data from 3 HGSOC patient-derived organoids and corresponding tumor or ascites

  Study EGAS00001006246

• Lower respiratory tract single cell and neutrophil extracellular trap profiling of COVID-19-associated pulmonary aspergillosis

  Study EGAS00001007556

• MCF10A 12h IL6 classical and trans-signaling

  Gene expression after cell culture, 12h IL6 stimulated

  Dataset EGAD00010001967

• MCF10A 24h IL6 classical and trans-signaling

  Gene expression after cell culture, 24h IL6 stimulated

  Dataset EGAD00010001965

• Strand-specific RNA Sequencing of paired initial and recurrent gliomas

  Dataset EGAD00001001613

• Lengthening and shortening of plasma DNA in hepatocellular carcinoma patients

  Dataset EGAD00001001275

• Altered neutrophil and granulopoiesis biology underlie a poor outcome sepsis endotype

  Study EGAS00001006283

• Epigenetic reprogramming shapes monocytes and heterologous T cell derived cytokine responses in BCG vaccination

  Study EGAS00001007498

• RNAseq dataset of ovarian cancer patients

  Dataset of transcriptomics data from a cohort of individuals diagnosed with ovarian cancer. This dataset includes RNAseq sequencing data from 68 individuals. A total of 109 tumor samples were sequenced. Samples were prepared with the Illumina TruSeq Stranded RNA library. Sequencing data are paired end.

  Dataset EGAD50000001556

• Hybrid Capture of PyBKV integration in Urothelial Carcinoma from Kidney Transplant

  Hybrid Capture of PyBKV integration in Urothelial Carcinoma from Kidney Transplant. The Panel was designed using Agilent SureDesign on SureSelect XTHS Hybrid Capture Panel. Sequencing was done on Illumina NovaSeq 6000

  Dataset EGAD50000001548

• High-grade serous ovarian carcinoma tumour whole genome sequencing variants

  Tumour somatic variants (in VCF format) called from paired tumour-germline whole genome sequencing (using IDT library preparation system followed by sequencing on Illumina NovaSeq platform) of three high-grade serous ovarian tumour samples. The dataset comprises three VCF variant files.

  Dataset EGAD50000001131

• Whole Exome Sequencing Data of 34 indolent primary renal B-Cell lymphoma cases

  Here, 34 iNHL samples were sequenced using whole exome sequencing to describe the mutational landscape of indolent primary renal B-Cell lymphomas. Mutational profiles were compared to other Marginal Zone Lymphomas.

  Dataset EGAD50000001136

• DELFI low-coverage WGS of plasma cfDNA

  The dataset "DELFI low-coverage WGS of plasma cfDNA" includes paired FASTQ files produced by WGS of 689 plasma cfDNA samples from 153 patients with colorectal cancer. WGS (100bp PE) was performed on a NovaSeq 6000 with a target depth of coverage of 8x.

  Dataset EGAD50000000630

• Variants Derived From Kids Heart BioBank TOF Probands (Australia)

  Short variants identified in 245 TOF probands enrolled through the Kids Heart BioBank (Australia).

  Dataset EGAD50000000839

• Variants Derived From CONCOR Biobank TOF Probands (Netherlands)

  Short variants identified in 125 TOF probands enrolled through the CONCOR Biobank (Netherlands).

  Dataset EGAD50000000837

• Longitudinal WES data from MEMORI trial

  70 bam files generated from deep whole exome sequencing from samples from oesophageal adenocarcinoma from 17 patients. 17 bam files generated from deep whole exome sequencing from matching blood (germline control) from patients with oesophageal adenocarcinoma. Samples were collected within the clinical MEMORI trial.

  Dataset EGAD50000000355

• EBNA2 ChIP-Re-ChIP in primary B-cells infected with EBV virus

  EBNA2 ChIP-Re-ChIP in primary bulk B cells 4 days post EBV-infection with B95-8. DNA binding elements of the viral master regulator EBNA2, EBNA2-CBF transcription factor complex or EBNA2-EBF1 transcription factor complex were analyzed to identify virally targeted genes.

  Dataset EGAD50000000301

• Genomic Landscape of Radiation Induced Meningiomas

  EGAS00001002317 - Whole exome sequencing of data of 18 RIMs with matched bloods. Median depth of 112x (range of 110-120). Performed on Illumina HiSeq Platform. EGAS00001002318 - RNA sequencing data of 18 RIMs on the Illumina HiSeq Platform.

  Dataset EGAD00001004358

• CONTAGIOUS trial - COVID-19 16S dataset

  16S amplicon data of nasopharyngeal swabs in a COVID-19 cohort recruited at UZ Leuven. The dataset contains a single experiment, comprising 150 runs corresponding to 125 unique samples. Runs comprise paired fastq files (2*250 bases) obtained from an Illumina MiSeq instrument.

  Dataset EGAD00001006864

• Whole-exome sequencing of IMFT tumor samples f

  Whole-exome sequencing of IMFT tumor samples from 24 participants in the clinical phase II trial EORTC 90101 “CREATE” (CREATE IMFT cohort)

  Dataset EGAD00001007803

• Transcriptomics sequencing 4 samples from the same KMT2A-rearranged Acute Lymphoblastic Leukemia patient

  Dataset contains four samples taken from a neonate with congenital KMT2A-rearranged Acute Lymphoblastic Leukemia patient (CHI-0391) with rare IKZF1 gene fusions. Sequencing was carried out using mRNA-seq sequencing on a Illumina NextSeq 500 machine

  Dataset EGAD00001009974

• Single-cell RNA sequencing data of human lymph node samples generated with BD Rhapsody

  The single cell data were generated based on four cartridges. The samples are multiplexed: 0. Sample Run Id Hash Gender Age 1. FL-6 Run1_C1 4 f 71 2. rLN-3 Run1_C1 6 f 72 3. DLBCL-4 Run1_C1 7 f 68 4. DLBCL-1 Run1_C1 8 m 66 5. FL-4 Run1_C1 9 m 41 6. DLBCL-3 Run1_C2 10 f 60 7. rLN-4 Run1_C2 11 f 58 8. rLN-5 Run1_C2 12 m 61 9. FL-1 Run2_C1 1 f 81 10. DLBCL-2 Run2_C1 2 m 80 11. rLN-2 Run2_C1 3 f 42 12. FL-5 Run2_C1 4 m 66 13. DLBCL-8 Run2_C1 5 m 64 14. DLBCL-6 Run2_C2 6 m 76 15. rLN-1 Run2_C2 7 m 39 16. FL-3 Run2_C2 8 f 76 17. DLBCL-5 Run2_C2 9 m 66 18. FL-2 Run2_C2 10 f 58 19. DLBCL-7 Run2_C2 11 f 71

  Dataset EGAD00001010044

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

  Dac EGAC00001000749

• Multi-focal genomic dissection of synchronous primary and metastatic tissue from de novo metastatic prostate cancer - Data Access Committee

  Dac EGAC00001002905

• INCLIVA-CC-WES DAC

  Localised colon cancer WES study contaning WBCs, tissue and plasma samples at different time points

  Dac EGAC50000000156

• Genetic drivers define transcriptomic characteristics and clonal hierarchy within intratumoral heterogeneity in adult T-cell leukemia-lymphoma

  Study JGAS000301

• Two monogenic disorders masquerading as one: Severe congenital neutropenia with monocytosis and non-syndromic sensorineural hearing loss

  Study EGAS00001004176

• Spatiotemporal single cell transcriptomic analysis of human gut macrophages reveals multiple functional and niche-specific subsets

  Study EGAS00001005377

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

  Study EGAS00001006459

• Pleural_mesothelioma

  EPIC methylation data of pleural mesothelioma samples and healthy pleura samples

  Dataset EGAD00010002657

• Healthy_pleura

  EPIC methylation data of pleural mesothelioma samples and healthy pleura samples

  Dataset EGAD00010002656

• USA-Immuno

  USA Multiple Sclerosis cases and controls

  Dataset EGAD00010002043

• yemcha-U-2

  Yemen and Chad Genotyping

  Dataset EGAD00010001867

• REL-2017-07-2013

  HipSci - Bleeding and Platelet Disorders - Genotyping Array - July 2017

  Dataset EGAD00010001360

• MacTel_cohort_Omni5_genotypes

  MacTel Projet consortium case and control genotypes from Ilumina Omni5 chip

  Dataset EGAD00010001204

• Clinical and genetic analysis of a rare syndrome associated with neoteny

  Dataset EGAD00001003593

• Whole-exome and low-coverage whole genome sequencing data

  Dataset EGAD00001001391

• Whole-Genome Bisulfite Sequencing of a paired initial and recurrent glioma

  Dataset EGAD00001001616

• DONSON exome data

  Exome data from patients and parents with DONSON mutations

  Dataset EGAD00001003160

• Unmatched WGS from bone marrow samples of 5 chr21 amplified blast phase myeloproliferative neoplasm patients

  We describe recurrent chromothripsis of chromosome 21 in a subset of patients in blast phase of a myeloproliferative neoplasm (BP-MPN), which alongside other structural variants leads to amplification of a region of chromosome 21 in ~25% of patients (‘chr21amp’). Chr21amp BP-MPN has a particularly aggressive and treatment-resistant phenotype. Here we provide high-depth whole genome sequencing (WGS) in five chr21amp BP-MPN cases, to a median coverage of 81x [range 77-86] and purity 79% [range 58-88%].

  Dataset EGAD00001011280

• Whole exome sequencing of patients with esophageal squamous cell carcinoma receiving chemoradiotherapy

  We performed multi-region whole exome sequencing (WES) of pre-treatment and recurrent esophageal cancer receiving chemoradiotherapy in order to characterize clonal evolution of treatment resistant clones. Furthermore, additional solitary pre-treatment tumor samples were subjected to WES to detect biomarkers predicting clinical outcome.

  Study JGAS000227

• NAR-GAB 2025 deposit data

  Paired-end whole-exome sequencing data derived from Illumina hybrid-capture experiments (Agilent SureSelect Human All Exon kits). Six human probands with rare diseases; one sample per subject. Sequencing reads from each individual were processed into analysis-ready gVCF files following standard best-practice pipelines, including alignment, duplicate marking, base quality calibration, and variant calling. All gVCF files are encrypted using Crypt4GH and are available under controlled access through our DAC in accordance with a strict DUO-based policy.

  Dataset EGAD50000002100

• Non-coding mutations drive persistence of a founder pre-leukemic clone which initiates late relapse in T-ALL

  T-ALL relapse usually occurs early but can occur much later, which has been suggested to represent a de novo leukemia. However, we conclusively demonstrate late relapse can evolve from a pre-leukemic subclone harbouring a non-coding mutation that evades initial chemotherapy. Data include 19 WGS samples: - 5 cases with presentation, relapse and remission (germline) samples - 2 cases with presentation and relapse samples, but not remission (germline)

  Dataset EGAD50000000174

• DKFZ-HIPO Project H021/NCT MASTER

  Clinical genome and transcriptome sequencing in younger adults with advanced-stage cancer across all histologies: DKFZ-HIPO Project H021 (http://www.hipo-heidelberg.org/hipo2/index.php/menu-item-2/32-021-prospective-genetic-characterization-of-tumors-from-individual-patients-of-special-interest) / NCT MASTER (http://www.nct-heidelberg.de/forschung/nct-master.html)

  Study EGAS00001000948

• release_2: ICGC PedBrain: whole exome sequencing and Target-Seq

  release_2: ICGC PedBrain: whole exome sequencing and Target-Seq

  Dataset EGAD00001001624

• Single-cell multi-omics of human clonal hematopoiesis reveals that DNMT3A R882 mutations perturb early progenitor states through selective hypomethylation.

  We profiled CD34+ enriched cells from GCSF mobilized bone marrow samples (n = 4) using single-cell RNA sequencing (10X) with targeted genotyping, and single-cell DNA methylation (RRBS) with single-cell RNA sequencing (Smart-Seq2) and targeted genotyping. A 5th CH bone marrow aspirate sample was obtained to validate observed results.

  Dataset EGAD00001008985

• Reference alignment files (BAM) and gene count files of 10 tumor samples from nanopore sequencing

  Reads were aligned to 1000 Genomes assembly reference (hs37d5) using minimap2 2.22. SAM-to-BAM conversion, BAM sorting and indexing were performed with SAMtools 1.13. Read summarization was performed with featureCounts (from Subread 2.0.3) over exon features based on GENCODE Version 19 gene models. Strand specific counting was used.

  Dataset EGAD00001009690

• RNA-seq of PDAC patient-derived xenograft tumors

  This dataset contains single cell RNA-seq data of stromal cells derived from two PDX models (N = 2 in total) and bulk RNA-seq data of two PDX models treated with gemcitabine and our novel antibody-drug conjugate, C6-EBET (N = 59 in total). Bulk RNA-seq experiments were performed with Agilent SureSelect Strand Specific RNA Library Prep Kit (Agilent). Single cell RNA-seq experiments were performed with Chromium Single Cell 3' Reagent Kits v2 Chemistry (10x Genomics).

  Dataset EGAD00001010130

• Mongolia and Western Dataset

  Total collection of Samples. Exome sequencing and RNAseq from Mongolia and Western HCC samples.

  Dataset EGAD00001007830

• Data Access Commitee - Monocyte and macrophage lipid accumulation results in downregulated type-I interferon responses - FH monocytes RNA sequencing data

  Dac EGAC00001002495