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• The CCA Genome Core is responsible for archiving the sequencing data generated by the Cancer Centre Amsterdam (CCA).

  Dac EGAC00001000181

• tRCC UTSW 2024 Cohort

  This submission contains the WES and RNA-Seq raw data for the study titled 'Comparative Genomics of a Translocation Renal Cell Carcinoma Mouse Model Reveals Molecular Mechanisms of Tumorigenesis.

  Dac EGAC50000000105

• bfast CohortD OSPL

  ctDNA sample data (one sample per line) for BFAST Cohort D including sample-level summaries like tumor fraction (cTF).

  Dataset EGAD50000000147

• Walter and Eliza Hall Institute - University of Melbourne

  Data Access Committee for Gocuk, Lancaster et al. 2024: nanopore sequencing data of patients with choroideremia and X-linked retinitis pigmentosa, to determine X inactivation skew.

  Dac EGAC50000000301

• Whole exome sequencing data for two samples

  Whole exome sequencing of two human samples run on the Illumina HiSeq2500 platform. It contains two BAM files aligned to the refrence genoeme GRCh38.

  Dataset EGAD50000000825

• SMPaeds PanelSeq of cfDNA at relapse with UMIs

  Deep sequencing of a targeted panel of 67 paediatric cancer related genes for cfDNA with UMIs at approximately 1500xUMI coverage.

  Dataset EGAD50000000781

• Psoriasis PBMCs

  This DAC is for the purpose of controlling access to Psoriasis PBMC scRNA-seq data of the study Spermidine/spermine N1-acetyltransferase controls tissue-specific regulatory T cell function in chronic inflammation

  Dac EGAC50000000470

• HUG-CELL ASD Data Access Committee

  Data Access Committee for data generated by projects involving ASD and associated phenotypes by the Human Genome and Stem Cell Research Center (HUG-CELL), University of São Paulo

  Dac EGAC50000000475

• Picuris Pueblo Genomic Project – Ancient Dataset

  Ancient individual from Picuris Pueblo. Please refer to paper for more information.

  Dataset EGAD50000001246

• APOBEC Breast Cancer Whole Genome

  Five tumor-normal human breast cancer cases driven by APOBEC mutagenesis, including normal tissue, primary, and metastatic samples for each patient.

  Dataset EGAD50000001275

• ATAC-Seq of human stimulated and cultured CD4+ Treg cells

  This dataset includes whole genome sequence data for ATAC-seq (42 samples) of human stimulated and cultured CD4+ Treg cells.

  Dataset EGAD00001004829

• TLR7 variants in human lupus patients

  Set of 2 bam files from patients affected with Lupus. Fastq alignments for exonic variants present in TLR7 gene.

  Dataset EGAD00001008534

• Reconstructed BCRs

  Computationally reconstructed B-cell receptor sequences (using BraCeR) from scRNA-seq data for all cells passing quality control.

  Dataset EGAD00001008456

• DLP+ Single Cell Genomic Library A98288

  DLP+ Single Cell Genomic Library A98288 for Follicular lymphoma patient sample TFRIPAIR2_FL

  Dataset EGAD00001010247

• Reference epigenome KNIH001 miRNA-seq data generated from KEP study

  A KNIH001 miRNA-seq single end data for islet cells

  Dataset EGAD00001002760

• scRNA PDX

  Single cell RNA-seq for PT1-derived PDX samples

  Dataset EGAD00001006134

• Leeds Paired Primary and Recurrent GBM RNAseq

  Whole transcriptome, strand-directional RNAseq data for paired primary dn recurrent samples from patients with glioblastoma

  Dataset EGAD00001005224

• Additional Sanger Sequencing and qPCR data to PSCNL samples

  Sanger sequencing and RT-qPCR data for validation used in Primary lymphomas of the central nervous system (PCNSL).

  Dataset EGAD00001008583

• Melanoma post mortem analysis

  We have been applying whole genome and transcriptome sequencing across metastases collected during post mortem. Herein we show the findings for the first such patient.

  Dataset EGAD00001005072

• Reference epigenome KNIH002 miRNA-seq data generated from KEP study

  A KNIH002 miRNA-seq single end data for islet cells

  Dataset EGAD00001002761

• Reference epigenome KNIH005 miRNA-seq data generated from KEP study

  A KNIH005 miRNA-seq single end data for islet cells

  Dataset EGAD00001002764

• Reference epigenome KNIH003 miRNA-seq data generated from KEP study

  A KNIH003 miRNA-seq single end data for islet cells

  Dataset EGAD00001002762

• Reference epigenome KNIH004 miRNA-seq data generated from KEP study

  A KNIH004 miRNA-seq single end data for islet cells

  Dataset EGAD00001002763

• ITS amplicon sequencing dataset

  This dataset contains raw ITS amplicon sequencing data for 719 sputum samples from individuals in Guangdong province, China.

  Dataset EGAD00001009817

• DLP+ Single Cell Genomic Library A98221A

  DLP+ Single Cell Genomic Library A98221A for Follicular lymphoma patient sample TFRIPAIR5_FL

  Dataset EGAD00001010245

• COMET TCRseq raw data

  This is the raw TCRseq data for the manuscript T cell receptor repertoire sequencing reveals chemotherapy-driven clonal expansion in colorectal liver metastases.

  Dataset EGAD00001010269

• Reference epigenome KNIH005 mRNA-seq data generated from KEP study

  A KNIH005 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002171

• Reference epigenome IPS02_N_NPC_mRNA-Seq data generated from KEP study

  A IPS02_N_NPC_mRNA-Seq paired end data for Neural progenitor cells(Nestin)

  Dataset EGAD00001003489

• Reference epigenome IPS03_N_ENeuron_smRNA-Seq data generated from KEP study

  A IPS03_N_ENeuron_smRNA-Seq single end data for Early neuron cells(Tuj1)

  Dataset EGAD00001003503

• Reference epigenome IPS02_N_NPC_smRNA-Seq data generated from KEP study

  A IPS02_N_NPC_smRNA-Seq single end data for Neural progenitor cells(Nestin)

  Dataset EGAD00001003502

• Reference epigenome KNIH001 mRNA-seq data generated from KEP study

  A KNIH001 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002167

• Reference epigenome IPS05_X_NPC_mRNA-Seq data generated from KEP study

  A IPS05_X_NPC_mRNA-Seq paired end data for Neural progenitor cells(Nestin)

  Dataset EGAD00001003492

• RNA-seq data of LMS tumors

  This dataset contains paired fastq files for LMS tumor samples

  Dataset EGAD00001003828

• Oxford Human islet ATAC-seq dataset of 5 human islets

  ATAC-seq data for 5 non-diabetic human pancreatic islet samples

  Dataset EGAD00001003759

• Reference epigenome KNIH002 mRNA-seq data generated from KEP study

  A KNIH002 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002168

• Reference epigenome KNIH003 mRNA-seq data generated from KEP study

  A KNIH003 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002169

• Benchmark and validation of whole exome sequencing of a trio and singleton for mobile element detection.

  Illumina HiSeq paired-end exome sequencing of a trio and singleton.

  Dataset EGAD00001000883

• Illumina HiSeq X Ten

  Three files of patients 10, 11 and 13 with WGS done on Illumina HiSeq X Ten. For research purpose and authorised user only.

  Dataset EGAD00001003439

• Reference epigenome IPS06_X_ENeuron_mRNA-Seq data generated from KEP study

  A IPS06_X_ENeuron_mRNA-Seq paired end data for Early neuron cells(Tuj1)

  Dataset EGAD00001003493

• Reference epigenome IPS03_N_ENeuron_mRNA-Seq data generated from KEP study

  A IPS03_N_ENeuron_mRNA-Seq paired end data for Early neuron cells(Tuj1)

  Dataset EGAD00001003490

• Whole Genome Bi-Sulfite Sequencing files for RMS.

  WGBS files accompanying the paper titled "Identification of Therapeutic Targets in Rhabdomyosarcoma Through Integrated Genomic, Epigenomic, and Proteomic Analyses".

  Dataset EGAD00001004315

• Reference epigenome IPS05_X_NPC_smRNA-Seq data generated from KEP study

  A IPS05_X_NPC_smRNA-Seq single end data for Neural progenitor cells(Nestin)

  Dataset EGAD00001003505

• Reference epigenome KNIH006 mRNA-seq data generated from KEP study

  A KNIH006 mRNA-seq paired end data for beta cells

  Dataset EGAD00001002172

• Reference epigenome IPS06_X_ENeuron_smRNA-Seq data generated from KEP study

  A IPS06_X_ENeuron_smRNA-Seq single end data for Early neuron cells(Tuj1)

  Dataset EGAD00001003506

• Reference epigenome KNIH004 mRNA-seq data generated from KEP study

  A KNIH004 mRNA-seq paired end data for islet cells

  Dataset EGAD00001002170

• HIV exome pilot, exome data hs37d5

  exome sequence data for 57 HIV elite long term non-progressors and rapid progressors. Complete dataset of improved BAMs mapped to hs37d5 and including phenotype information.

  Dataset EGAD00001003345

• Reference epigenome KNIH006 miRNA-seq data generated from KEP study

  A KNIH006 miRNA-seq single end data for beta cells

  Dataset EGAD00001002765

• Melanoma - Exome sequencing

  whole exome sequencing of tumor- as well as PBMC-derived DNA of five melanoma patients for identification of naturally presented patient-specific neoepitopes

  Dataset EGAD00001002731

• Small RNA Sequencing across Diverse Biofluids Identifies Optimal Methods for exRNA Isolation

  We tested the efficiency and reproducibility of 10 RNA isolation methods on 5 different biofluids. Pooled human plasma and serum, bile and urine were used along with cell culture supernatants from human embryonic stem cells (hESC), primary neonatal rat ventricular myocytes (NRVM) and human cholangiocarcinoma cells (KMBC). 4 RNA isolation methods designed to isolate total RNA from bio fluids without enrichment of exRNA carriers were used. 6 methods that preferentially enriched for exRNA carriers were also compared. Small RNA libraries were constructed using the NEBNext small-RNA library prep. The efficiency and reproducibility of the different RNA isolation methods was compared using small-RNA seq.

  Study phs002143

• Maternal and Developmental Risks from Environmental and Social Stressors (MADRES) Center for Environmental Health Disparities

  MADRES is a prospective pregnancy cohort based in urban Los Angeles, recruiting predominantly low income Hispanic mothers-to-be as part of a children's health study, funded by Environmental Influences on Child Health Outcomes (ECHO). Participants were measured for a number of chemical exposures and biomarkers. Two epigenetic markers will be available through dbGaP: miRNA expression in pregnancy (measured via Nanostring human assay, v3) and DNA methylation from pregnancy and children's cord blood (measured via EPIC array). Principal findings of this research described differences in miRNA expression profiles between early and late pregnancy, as well as miRNA expression affected by psychosocial stress.

  Study phs003194