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• Genomic Sequencing of Triple Negative Breast Cancer - CUTseq data

  CUTseq data for study EGAS00001008261

  Dataset EGAD00001015684

• DAC - Comparison of sequencing assays for sensitive detection of circulating tumour DNA in stage IA-IV breast cancer

  Dac EGAC00001002549

• Data Access Committee for data from EGAS00001002864: Genome analysis of oesophageal cancer and Barretts oesophagus

  Dac EGAC00001000863

• Centre for Genomic Regulation - Beta Cell Genome Regulation Lab

  Dac EGAC00001000853

• DAC for Clonal somatic copy number altered driver events inform drug sensitivity in high-grade serous ovarian cancer

  Dac EGAC00001002644

• ITER-FIISC Data Access Committee (microbiome)

  DAC for Metagenomic characterization of tracheal aspirates from non-pulmonary sepsis patients

  Dac EGAC50000000230

• Uni_Wue_Chair of Microbiology

  Dual RNA seq datasets of M2 sequenced macrophages after chlamydia infection for 30 hours.

  Dac EGAC50000000577

• South African Blood Regulatory (SABR) Resource Committee

  Data access committee for the South African Blood Regulatory (SABR) Resource.

  Dac EGAC50000000501

• OICR-DAC, Ontario Institute for Cancer Research; Biliary Tract Cancer

  Next Gen Sequencing data from Biliary Tract Cancers

  Dac EGAC50000000528

• DAC for "Establishment and characterization of circulating tumor cells-derived organoids from metastatic breast cancer patients."

  Dac EGAC00001003514

• Breast Cancer Association Consortium Data Access Coordinating Committee

  Data access committee for the Breast Cancer Association Consortium (BCAC).

  Dac EGAC50000000824

• Evaluation of protocols for rRNA depletion-based RNA sequencing of nanogram inputs of mammalian total RNA

  Study EGAS00001003849

• Oncogenic and immunological targets for matched therapy of pediatric blood cancer patients: Dutch iTHER study experience

  Study EGAS00001008218

• Methylation data for Genomic landscapes of endometrioid and mucinous ovarian cancers and morphologically similar tumor types

  Study EGAS00001008175

• Molecular Classification of Lymph Node Metastases Subtypes Predict for Survival in Head and Neck Cancer

  Study EGAS00001003233

• The INFORM Precision Medicine Study for High-Risk Pediatric Malignancies

  Study EGAS00001005112

• DNA methylation and Panel sequencing for pancreatic neuroendocrine carcinomas (PanNECs) and pancreatic neuroendocrine tumors (PanNETs)

  Study EGAS00001005731

• Shallow nanopore RNA sequencing enables transcriptome profiling for precision cancer medicine (Hipo_021)

  Study EGAS00001006317

• The genomic diversity of Taiwanese Austronesian groups: implications for the ‘Into and Out of Taiwan’ models

  Study EGAS00001006911

• CLUC complete genomics dataset

  Complete genomics data for VCaP and PC346c.

  Dataset EGAD00001002069

• GFD viral enrichment sequencing

  sequencing of libraires enriched for viral particles

  Dataset EGAD00001007638

• DATA ACCESS AGREEMENT CGNT- GROUP COMMITTEE for project "Exome sequencing of 22 Pheochromocytoma/paraganglioma tumors" at Gothenburg University.

  Dac EGAC00001000411

• DAC for Greenland Studies of University of Copenhagen and University of Southern Denmark.

  Dac EGAC00001000736

• The data access committee for Evolution of neoantigen landscape during immune checkpoint blockade in non-small cell lung cancer.

  Dac EGAC00001000757

• Data Access Committee for the study "Somatic chronology of treatment-resistant prostate cancer via deep whole-genome ctDNA sequencing"

  Dac EGAC00001002479

• Access Committee for Separation, characterization, and identification of individuals from multi-person blood mixtures

  Dac EGAC00001002646

• DAC - organotypic co-cultures @IEO

  DAC for RNAseq data on patient-derived organotypic models (Battistini et al, CDDis 2024)

  Dac EGAC50000000238

• eQTL-CHiC DAC

  The Data Access Committee for eQTL-CHiC and related data from Ray-Jones et al., 2024.

  Dac EGAC50000000445

• DAC for Transcriptomic and genomic profiling of fragile X syndrome unmethylated full mutation carriers

  Dac EGAC50000000416

• DAC_Circadian_Neuroendocrinology

  DAC for projects of the group Circadian Neuroendocrinology at the Department of Endocrinology and Metabolism at Amsterdam UMC.

  Dac EGAC50000000692

• Distinct Phenotypes of Human Intrahepatic and Extrahepatic Bile duct Organoids and their Applications for Biliary Disease Modeling

  Study EGAS00001003792

• Cryopreservation of human cancers conserves tumour heterogeneity for single-cell multi-omics analysis

  Study EGAS00001005115

• Patient WGS for #198

  Whole genome sequencing of patient tumour and blood

  Dataset EGAD50000000217

• Genotypes_343_Japanese

  Genotype data for 343 Japanese subjects obtained with Infinium Asian Screening Array.

  Dataset EGAD00010002449

• TumorSNP

  SNP data for 473 tumor samples

  Dataset EGAD00010002038

• WGS dataset

  4 WGS bam files for 4 cases with fusion

  Dataset EGAD00001004359

• PDAC

  ctDNA and protein markers for earlier detection of pancreatic cancers

  Dataset EGAD00001004399

• Nimblegen SeqCap Custom Panel Sequencing

  Nimblegen SeqCap Custom Panel Sequencing for pNet

  Dataset EGAD00001005494

• Genomic Sequencing of Triple Negative Breast Cancer - Exome data

  Exome data for study EGAS00001008261

  Dataset EGAD00001015687

• Human Responses to Influenza Vaccination

  The data consist of the DNA sequences of antibody gene rearrangements from peripheral blood human B cells of subjects vaccinated with trivalent seasonal influenza or monovalent pandemic H1N1 vaccine. Multiple replicate libraries of immunoglobulin heavy chain gene rearrangements were prepared from each subject for each time point.

  Study phs000760

• RNAseq of Sjögren's Syndrome and Healthy Volunteers' Salivary Glands

  Mechanistic genetic and inflammatory endpoints were studied to gain insight into the molecular mechanisms of Sjögren's syndrome. Transcriptomic studies allowed the exploration of molecular alterations that might cause or influence the studied salivary gland pathology and potentially elucidate druggable pathways for intervention.

  Study phs001842

• Analysis of transcriptomic landscape of iPSC-derived neurons in Williams Syndrome

  To analyse the transcriptomic changes in iPSC-derived neuronal cells derived from individuals with Williams syndrome vs. controls at different stages of neuronal maturation. This was done to better understand how the deletion responsible for WS alters neuronal development thereby resulting in the characteristic WS phenotype

  Study EGAS50000001214

• Tetralogy of Fallot Exome Trios

  Exome sequencing of 30 parent-offspring trios to >50X mean depth, where the offspring has sporadic TOF, to identify potential causal de novo mutations. We will use the exome plus design for pulldown that incorporates ~6.8Mb of additional regulatory sequences in addition to the ~50Mb GENCODE exome.

  Study EGAS00001000071

• Keratinocyte_CRISPR_screens

  Immortalised HaCaT keratinocytes were transduced with Cas9 and the CRISPR-KO v1.1 genome-wide gRNA library. The gRNA library was prepared from genomic DNA isolated 14 days post library transduction. gRNA representation will be compared to the original CRISPR-KO v1.1 library to reveal genes essential for HaCaT survival and growth.

  Study EGAS00001002714

• The genomic landscape of lung adenocarcinoma in East Asians

  We performed exome sequencing of 210 and transcriptome sequencing of 181 LUADs of Chinese patients. For more details, please see publication "Genomic landscape of lung adenocarcinoma in East Asians" by Chen J. et. al. in Nature Genetics 2020. https://www.nature.com/articles/s41588-019-0569-6.

  Study EGAS00001002941

• MCO colorectal cancer genomics at UNSW

  This dataset contains DNA sequencing data from 95 colorectal cancer and matched-normal samples. The dataset contains targeted deep sequencing of selected regulatory elements in 95 cancer and matched-normal samples, and data for one sample that was additionally whole-genome sequenced (cancer and matched-normal).

  Study EGAS00001003450

• WES of tumor samples from patients with renal medullary carcinoma (RMC)

  The dataset, in .bam file format, consists of whole exome sequencing (WES) data of tumors from patients (n=24) with Renal Medullary Carcinoma (RMC), generated using Illumina NovaSeq 6000 sequencing technology. DNA was extracted from FFPE solid tumor samples using the AllPrep DNA FFPE Kit (Qiagen, CA). Libraries from FFPE tissue were prepared with the SureSelect XT HS2 DNA Kit (Agilent, CA) for exome capture. The All Exon V7 exome probe set (Agilent, CA) was used for hybridization and capture of DNA.

  Dataset EGAD50000001822

• RNA-seq data for proximal and distal human LHBT UZH (CH)

  This dataset contains bulk RNA-seq data from 15 patients who underwent rotator cuff repair surgery, yielding paired proximal and distal samples of the long head of the biceps tendon (30 samples total). The submission includes 90 files, consisting of R1 and R2 FASTQ files for each sample as well asprocessed .TXT files containing gene-level counts generated after genome alignment. Raw sequencing reads were generated on an Illumina platform, aligned to the human reference genome GRCh38.p13, and quantified at the gene level.

  Dataset EGAD50000002095

• Fragmentomics analyses of urinary cfDNA for urologic cancers

  This dataset contains sequencing data of human urinary cell-free DNA. Whole-genome sequencing (WGS) and whole-genome bisulfite sequencing (WGBS) was performed after DNA extraction from the urine samples. All samples were pair-end sequencing on Illumina system and were aligned to human genome GRCh37 (hg19). WGS and WGBS reads were aligned by SOAP2 and Methyl-Pipe, respectively. The dataset includes samples from healthy subjects, haematuria (non-cancer), and patients of bladder, kidney, or prostate cancer. Pair-end FASTQ files were provided for all the samples mentioned above.

  Dataset EGAD50000002068

• RNA-sequencing of 82 pleural mesothelioma samples

  The dataset contains RNA-sequencing data (bam files) for 82 pleural mesothelioma samples. All the samples were sequenced on an Illumina NovaSeq 600 sequencer in paired-end mode, generating 100 nt length reads, to obtain an average of 60 million clusters for RNA. Demultiplexing was performed using Illumina bcl2fastq2. Fastq quality was assessed using fastQC (v. 0.11.8) (https://www.bioinformatics.babraham.ac.uk/projects/fastqc/) and low-quality reads were discarded. Sequence reads were aligned to Human reference genome (UCSC genome assembly GRCh38/hg38) using STAR (v. 2.7.0b).

  Dataset EGAD50000002131