Search Results - EGA European Genome-Phenome Archive

Genome and transcriptome sequence data from an adenocarcinoma of primary unknown cancer patient

Genome and transcriptome sequence data from an adenocarcinoma of primary unknown cancer patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001002577

Whole genome sequencing data of lung adenocarcinomas

This dataset includes the whole-genome sequencing data from a study entitled "Tracing Oncogene Rearrangements in the Mutational History of Lung Adenocarcinoma". Whole-genome sequencing libraries were generated by PCR-free methods, and sequencing run was made in HiSeq X Ten machines. PCR duplicates-marked, indel-realigned, and base-recalibrarted BAM files are provided in our dataset.

Dataset EGAD00001004793

Whole Genome Sequencing of INTERVAL (2019-06-12)

15x Whole Genome Sequencing of 15,000 individuals from the INTERVAL study cohort, phase III. This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/ . This dataset contains all the data available for this study on 2019-06-12.

Dataset EGAD00001005086

Genome and transcriptome sequence data from a GI primary (prev breast cancer) patient

Genome and transcriptome sequence data from a GI primary (prev breast cancer) patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001002979

BLUEPRINT WP10 Quantitative Trait Loci (QTLs) Phase 2 Summary Statistics of Most Significant Associations

BLUEPRINT WP10 Quantitative Trait Loci (QTLs) Phase 2 summary statistics of most significant association data include five molecular traits (eQTL, hQTL(H3K27ac), hQTL(H3K4me1), mQTL, and psiQTL) for three primary blood cells (Monocytes, Neutrophils, and T-cells). Each summary statistics file contains the most significant association for each phenotype ID.

Dataset EGAD00001005200

Genome and transcriptome sequence data from a sex-cord stromal tumor patient

Genome and transcriptome sequence data from a sex-cord stromal tumor patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005857

BLUEPRINT release January 2015, Bisulfite-Seq for mature neutrophil

Bisulfite-Seq data for 6 mature neutrophil sample(s). 79 run(s), 6 experiment(s), 6 alignment(s). Part of BLUEPRINT release January 2015. Analysis documentation available at http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/20140811/homo_sapiens/README_bisulphite_analysis_CNAG_20140811

Dataset EGAD00001001201

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

Genome and transcriptome sequence data from a metastatic fibrolamellar hepatocelluar carcinoma patient

Genome and transcriptome sequence data from a metastatic fibrolamellar hepatocelluar carcinoma patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001002980

Genome and transcriptome sequence data from an ovarian cystadenocarcinoma low grade patient

Genome and transcriptome sequence data from an ovarian cystadenocarcinoma low grade patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005879

Genome and transcriptome sequence data from a malignant peripheral nerve sheath tumor patient

Genome and transcriptome sequence data from a malignant peripheral nerve sheath tumor patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005898

Genome and transcriptome sequence data from a metastatic breast cancer patient

Genome and transcriptome sequence data from a metastatic breast cancer patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001004923

Genome and transcriptome sequence data from a metastatic mmmt of the endometrium patient

Genome and transcriptome sequence data from a metastatic mmmt of the endometrium patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001004618

Genome and transcriptome sequence data from a metastatic pancreatic neuroendocrine tumor patient

Genome and transcriptome sequence data from a metastatic pancreatic neuroendocrine tumor patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001003048

Genome and transcriptome sequence data from a thyroid hurthle cell carcinoma patient

Genome and transcriptome sequence data from a thyroid hurthle cell carcinoma patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005891

Genome and transcriptome sequence data from a malignant epithelial mesothelioma (THR) patient

Genome and transcriptome sequence data from a malignant epithelial mesothelioma (THR) patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005877

WGS Fastq files from the CPC-Gene project in support of PRAD-CA, DCC Release 26

This dataset contains fastq files with Whole genome sequencing data for the CPC-Gene Project. Data from each sample was generated using multiple whole genome libraries and sequenced across multiple runs

Dataset EGAD00001003761

Genome and transcriptome sequence data from a large intestine-colon cancer patient

Genome and transcriptome sequence data from a large intestine-colon cancer patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005885

Genome and transcriptome sequence data from a parotid gland adenoid cystic carcinoma patient

Genome and transcriptome sequence data from a parotid gland adenoid cystic carcinoma patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001005887

Mate Pair Sequencing data for Molecular Characterization of ETMRs

This dataset contains Mate Pair Sequencing data from 15 samples from 13 patients. Mate pair DNA library preparation was carried out using the Illumina MP v.2 reagents and protocol. In brief, fragmentation of genomic DNA was performed using a Hydroshear device to an insert size of 4.5 kb followed by sequencing with Illumina HiSeq 2000 instruments resulting in 30 Fastq files (paired end).

Dataset EGAD00001006207

Sequence Data for Paper: Epigenetic reprogramming during differentiation of human CD4+ T lymphocytes into memory stages

Sequence Data of total RNA, miRNA, WGB, mRNA, NOMe, Chip (H3K27ac,H3K27me, H3K36me3, H3K4me1, H3K4me3, H3K9me3, Input) Short Desrciption: Epigenetic profiling of human CD4+ memory T cells reveals their proliferative history and argues in favor of a progressive differentiation model driven by epigenetically controlled master regulators.

Dataset EGAD00001001865

Reference single cell SNP array dataset from Coriell for training and validation of method for accurate single cell genotyping

This dataset contains DNA from B-lymphocytes from 2 Coriell families and 4 individuals hybridized to HumanKaryomap BeadChip Array. Single cells from subjects GM12878 and GM7228 were amplified using multiple displacement amplification (SureMDA) according to Infium Karyomapping Assay Guide. Bulk DNA was processed and hybridized to an array for subject GM12878, GM07224 and GM07225.

Dataset EGAD00001006376

BLUEPRINT release August 2014, Bisulfite-Seq for mature neutrophil

Bisulfite-Seq data for 6 mature neutrophil sample(s). 79 run(s), 6 experiment(s), 6 alignment(s). Part of BLUEPRINT release August 2014. Analysis documentation available at http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/20140811/homo_sapiens/README_bisulphite_analysis_CNAG_20140811

Dataset EGAD00001000935

BLUEPRINT release January 2015, Bisulfite-Seq for germinal center B cell

Bisulfite-Seq data for 1 germinal center B cell sample(s). 8 run(s), 1 experiment(s), 1 alignment(s). Part of BLUEPRINT release January 2015. Analysis documentation available at http://ftp.ebi.ac.uk/pub/databases/blueprint/releases/20140811/homo_sapiens/README_bisulphite_analysis_CNAG_20140811

Dataset EGAD00001001203

Whole genome sequencing of HSPCs and pAML

Whole genome sequencing data (Illumina HiSeq and NovaSeq) of clonal cultures derived from pediatric human bone marrow-derived hematopoietic stem and multipotent progenitor cells (in total 44 samples from 10 donors) and bulk pediatric acute myeloid leukemia blasts (in total 6 samples from 6 patients) to study the mutation accumulation.

Dataset EGAD00001006338

Single-cell transcriptome sequencing

Raw reads from single-cell RNA-sequencing of peripheral blood of five TET2 mutation carriers as well as three non-carrier family members. Single-cells were captured into 10x barcoded gel beads and RNA-sequencing library preparation was done using Chromium Single Cell 3' v2 chemistry (10x Genomics, Pleasanton, CA, USA). Sequencing was performed as recommended with 98bp length of read 2 using HiSeq4000 sequencer.

Dataset EGAD00001004778

Genome and transcriptome sequence data from a non-small cell lung cancer patient

Genome and transcriptome sequence data from a non-small cell lung cancer patient, generated as part of the BC Cancer Agency's Personalized OncoGenomics (POG) study

Dataset EGAD00001001969

Skeletal muscle transcriptomic comparison between long-term trained and untrained men and women

We generated global skeletal muscle transcriptomic data from long-term endurance (9 men, 9 women) and strength (7 men) trained individuals. These data were compared with healthy age-matched untrained controls (7 men, 8 women). All 40 samples were then multiplexed in 1 lane and sequenced (2x50bp paired end) on the Illumina NovaSeq 6000.

Dataset EGAD00001006067

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