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• ICGC PACA-CA Release21

  ICGC Release 21 for PACA-CA from OICR

  Dataset EGAD00001001956

• RNAseq BAM files

  RNAseq BAM files for Coding and non-coding mantle cell lymphoma driver mutations

  Dataset EGAD00001006268

• pilot

  Pilot study for genome-wide sequencing of cell-free DNA from nipple aspirate fluid and plasma of breast cancer patient

  Dataset EGAD00001010836

• Genome-wide data from Agta hunter-gatherers in Philippines

  To investigate the relationship between host genetics and the oral microbiome composition of Agta hunter-gatherers from the Philippines, we genotyped the Agta population (hunter-gatherers from Philippines) together with BaYaka (hunter-gatherers from Congo) and Palanan farmers (neighbouring population of the Agta).

  Study EGAS00001005315

• MDD2000AFFY

  Sub-study QI: 941 cases of Major Depressive Disorder (MDD) from the Queensland Institute of Medical Research (QIMR), Australia Sub-study VU: 127 MDD cases from The Netherlands Study of Anxiety and Depression (NESDA) (http://www.nesda.nl) and The Netherlands Twin Registry (NTR) (http://www.tweelingenregister.org) based at the VU Amsterdam, The Netherlands. Sub-study ED: 373 MDD cases from the University of Edinburgh, UK.

  Study phs000658

• Archive growth Statistics

  EGA Statistics Bibliography Growth Community Archive Distribution Catalogue In this section, we expose the overall volume of data available to download and the different archived file types. EGA Archive growth in size and number of files The below figure represents the EGA archive growth in size (TB) and number of files. EGA Archive Growth per year lineChart('ega-archive-growth', 'https://stats.ega-archive.org/growth/archive', ['Volume (TB)'], ['T']) Archive files The below figure represents on a initial level, the percentage of archived files by data technology. The second level, acessible by clicking in the required extension, displays the number of files by extension archived in the ega archive. Please click over the extension to learn more about the files. EGA Archived Files barChart('ega-archived-files', 'https://stats.ega-archive.org/extensions', false ,'', true)

  Documentation about/statistics/archive

• Single cell RNA seq of the developing human embryo brain

  The study aims at identifying the cell types and lineages of the developing human brain.

  Study EGAS00001004107

• Reference_DNA_standards_for_GCLP_pipeline

  The use of reference DNA standards generated from cancer cell lines sequenced in the Cancer Genome Project to establish the sensitivity, specificity, accuracy and reproducibility of the WTSI GCLP sequencing pipeline

  Study EGAS00001001173

• Papuan Y chromosome Diversity Panel

  Island Southeast Asia and Oceania host one of the world’s richest assemblages of human phenotypic, linguistic and cultural diversity. Despite this, the region’s male genetic lineages are globally among the last to remain unresolved. We compiled ~9.7 Mb of Y chromosome sequence from a diverse sample of over 380 men from this region, including 152 first reported here. The granularity of this dataset allows us to fully resolve and date the regional Y chromosome phylogeny. This new high-resolution tree confirms two main population bursts: multiple rapid diversifications following the region’s initial settlement ~50 kya, and extensive expansions <6 kya. Notably, ~40-25 kya the deep rooting local lineages of C-M130, M-P256, and S-B254 show almost no further branching events in Island Southeast Asia, New Guinea and Australia, matching a similar pause in diversification seen in maternal mitochondrial DNA lineages. The main local lineages start diversifying ~25 kya, at the time of the Last Glacial Maximum. This improved Y chromosome topology highlights localized events with important historical implications, including pre-Holocene contact between Mainland and Island Southeast Asia, potential interactions between Australia and the Papuan world, and a sustained period of diversification following the flooding of the ancient Sunda and Sahul continents as the insular landscape observed today formed. The high-resolution phylogeny of the Y chromosome presented here thus enables a detailed exploration of

  Study EGAS00001006025

• The Druze analysis group

  To comprehensively characterize the genetic structure of the Druze population, we recruited and genotyped 40 parent-offspring trios from the Upper Galilee in Israel and the Golan Heights, attempting to capture different extended families (clans) across various geographical locations.

  Study EGAS00001000963

• CTOS colorectal cancer organoids – WES and RNA-seq

  Runs for WES and RNA-seq (excluding C138_WES pending file replacement).

  Dataset EGAD50000002401

• Targeted PacBio long-read scRNA-seq

  Twist custom capture–based targeted PacBio long-read scRNA-seq datasets for human adrenal sampleA and sampleB

  Dataset EGAD50000002212

• Short-read scRNA-seq

  10x Chromium Single Cell 3′ single-cell cDNA sequencing data for adrenal tissue sampleA and sampleB.

  Dataset EGAD50000002210

• RNAseq for 208 patients with medulloblastoma cancer (MB_COMICS cohort)

  This dataset contains 208 paired fastq files sequenced with Illumina HiSeq 2500.

  Dataset EGAD50000000600

• Taste Receptor Genotypes_Centenarians and Young

  This dataset includes targeted genotyping data for six BMI-associated polymorphisms across four candidate genes in young and centenarian individuals.

  Dataset EGAD00010002829

• SAFIR02_Oncoscan

  Genomics to select patients with metastatic breast cancer for targeted therapy (microarray_oncoscan)

  Dataset EGAD00010002241

• INMUNGEN_CoV2_genotype

  Cohort: Raw genotype files for INMUNGEN_CoV2 cohort. Genotype Chip: HumanCore Exome Chip (Illumina) and Axiom Spanish Biobank Array (Thermofisher) genomic build: b37

  Dataset EGAD00010002174

• Reference epigenome CKD23_C_Mesan_mRNA-Seq data generated from KEP study

  A CKD23_C_Mesan_mRNA-Seq paired end data for Mesangial cells(kidney)

  Dataset EGAD00001003481

• Reference epigenome CKD27_C_Mesan_mRNA-Seq data generated from KEP study

  A CKD27_C_Mesan_mRNA-Seq paired end data for Mesangial cells(kidney)

  Dataset EGAD00001003484

• Reference epigenome CKD23_C_Mesan_smRNA-Seq data generated from KEP study

  A CKD23_C_Mesan_smRNA-Seq single end data for Mesangial cells(kidney)

  Dataset EGAD00001003497

• Reference epigenome CKD27_C_Mesan_smRNA-Seq data generated from KEP study

  A CKD27_C_Mesan_smRNA-Seq single end data for Mesangial cells(kidney)

  Dataset EGAD00001003500

• RNA-sequencing of SYSCOL colorectal adenoma-carcinoma samples

  RNA-sequencing alignment for SYSCOL colorectal adenoma-carcinoma samples

  Dataset EGAD00001003318

• Reference epigenome SMC05_ChIP-Seq(H3K27me3) data generated from KEP study

  A SMC05_ChIP-Seq(H3K27me3) paired end data for skeletal muscle cells

  Dataset EGAD00001003849

• Reference epigenome SMC06_ChIP-Seq(H3K27me3) data generated from KEP study

  A SMC06_ChIP-Seq(H3K27me3) paired end data for skeletal muscle cells

  Dataset EGAD00001003850

• Reference epigenome SMC01_ChIP-Seq(H3K27me3) data generated from KEP study

  A SMC01_ChIP-Seq(H3K27me3) paired end data for skeletal muscle cells

  Dataset EGAD00001003845