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• 10X Genomics single-nuclei RNA-sequencing of endometrium from women with and without PCOS

  Chromium Next GEM Single Cell 3’ Gel Bead Kit (Dual Index) v3.1 (10X Genomics) of endometrium from 27 women including 5 without PCOS and 12 with PCOS. Following baseline biopsies, PCOS participants underwent a 16-week randomized controlled trial with metformin (n=7) or lifestyle intervention (n=3). 25,000 raw reads per nucleus

  Dataset EGAD50000001017

• Oxidative DNA damage and ubiquitin proteasome system dysfunction underpins neurodegeneration in young adults with a DNA repair disorder

  Deposited here are WGS data generated from differentiated neural stem cells (NSCs) of NXPG-32 patient (XPG patient with neurodegeneration) and a matched healthy control CTRL-33.

  Dataset EGAD50000000232

• mCEL-Seq2 analysis of human brain tissues and border regions

  mCEL-Seq2 analysis with reference mapping of human brain tissues and border regions

  Dataset EGAD50000000046

• Recurrent loss of heterozygosity correlates with clinical outcome in pancreatic neuroendocrine cancer

  Pancreatic neuroendocrine tumors (pNETs) are uncommon cancers arising from pancreatic islet cells. Here we report analysis of gene mutation, copy number and RNA expression of 57 sporadic well-differentiated pNETs.

  Study EGAS00001003038

• RNA seq of MPNST tumour samples

  RNA sequencing of 10 MPNST tumour samples as part of a larger study of MPNST. Article: Lyskjær et al, 2020, J Pathol, "H3K27me3 expression and methylation status in histological variants of malignant peripheral nerve sheath tumours".

  Study EGAS00001004528

• Genetic Basis of Hepatosplenic T Cell Lymphoma (HSTL)

  Whole exome sequencing of hepatosplenic T cell lymphoma (HSTL) tumors, paired normals, and cell lines, including (1) 68 exome capture, paired-end Illumina Hiseq sequencing, BAM files from HSTL tumor samples, (2) 20 exome capture, paired-end Illumina Hiseq sequencing, BAM files from HSTL paired normal samples, and (3) 2 exome capture, paired-end Illumina Hiseq sequencing, BAM files from HSTL cell lines.

  Dataset EGAD00001003246

• Exome sequencing and RNAseq data

  Whole Exome Sequencing of 9 Colorectal Cancer (CRC) samples performed on Illumina HiSeq4000 consisting of aligned paired reads. RNAseq data sequenced on Illumina NextSeq500 consisting of FASTQ single reads from 3 CRC colon samples. A total of 12 samples from five patients (we matched normal tissue or pbmc and tumors) were sequenced on Illumina NextSeq500.

  Dataset EGAD00001003788

• RNA-seq data: Histone mutations in human Pre-Leukemic HSC and AML

  RNA-seq data from TEX cells transduced with HIST1H3H WT, HIST1H3H K27M, HIST1H3F WT, HIST1H3F K27I and Luc2 control in triplicate. In addition, RNA-Seq was performed on untransduced TEX cells. Libraries [rRNA-depleted stranded (HMR)] were sequenced on an Illumina Hiseq 4000 platform to generate 100 bp paired-end reads.

  Dataset EGAD00001004437

• Human lymphoma plasma cfRNA - raw data

  This study contains total RNA sequencing data from plasma of 65 different human donors: 30 diffuse large B-cell lymphoma patients, 13 primary mediastinal large B-cell lymphoma patients and 22 cancer-free controls.

  Study EGAS00001007127

• Whole genome sequencing on HiSeq platform of melanocytic nevi and normal sample pairs from 14 cases

  Aligned, merged and deduplicated BAM files from HiSeq whole genome sequencing of 28 samples: matched tumour-normal pairs from 14 melanocytic nevi cases

  Dataset EGAD00001004474

• H3K27me3 ChIP-Seq of 6 samples and H3K27ac ChIP-Seq of 4 samples with respective input controls

  H3K27me3 ChIP-Seq of 6 samples and H3K27ac ChIP-Seq of 4 samples with respective input controls

  Dataset EGAD00001004992

• Myeloid gene panel or whole exome sequencing data on blood and bone marrow of 15 individuals with germline RUNX1 mutations to characterize additional somatic mutations.

  This dataset consists of 20 fastq files in total from exome and myeloid gene panel sequencing of 15 carriers of germline RUNX1 mutations from 10 different families.

  Dataset EGAD00001006010

• Targeted sequencing data of peripheral blood mononuclear cells obtained from 4 ATL patients and 10 HTLV-1-infected asymptomatic carriers.

  Targeted capture sequencing data of peripheral blood mononuclear cells (PBMCs) obtained from 4 ATL patients (6 samples) and 10 HTLV-1-infected asymptomatic carriers.

  Dataset EGAD00001007031

• Whole Exome Sequencing of Mixed Histology Lung Cancer

  We conducted whole-exome sequencing (WES) and microarray profiling on 19 micro-dissected tumor regions of different histologic subtypes from 9 patients with lung cancers of mixed histologic patterns including 6 LUAD, 6 LCNEC, 3 SCLC, 3 LUSC, and one poorly differentiated NSCLC-NOS.

  Dataset EGAD00001007076

• Baseline and progression dataset

  RNAseq FASTq files from 44 pre-treatment (Ven-Obi or Clb-Obi) and 44 paired, post-treatment relapsed CD19+ B cells.

  Dataset EGAD00001009419

• Single-cell RNA-seq of cervical smears and early placental material

  Fastq files of single-cell RNA-sequencing data generated with 10X Genomics of twelve non-invasive cervical samples from pregnant women (7-12 weeks gestational age) and six placental biopsies from patients who had a recurrent miscarriage early during gestation (<12 weeks gestational age).

  Dataset EGAD00001010094

• Long read mRNA sequencing of blood cells exposed to different immune stimuli

  Long-read (PacBio) RNA sequencing dataset of in vitro stimulated PBMC cells. 5 samples consisting of 1 RPMI control and 4 stimulus conditions (lipopolysaccharide (LPS), polyI-polyC, S. aureus and C. albicans) all originating from one donor. Files are raw BAM format files generated by Sequel 2 machine.

  Dataset EGAD00001009998

• TGL49 LFS CHARM panel

  Targeted panel sequencing of hereditary cancer syndrome-associated genes (TP53, BRCA1, BRCA2, PALB2, MLH1, MSH2, MSH6, PMS2, EPCAM, and APC) in plasma and buffy coat samples from patients with Li-Fraumeni syndrome.

  Dataset EGAD00001010011

• Single-cell long-read transcriptomes from CH, MDS and AML patients with CH mutations

  Single-cell long-read (ONT) transcriptome sequencing from CH (n = 3), MDS (n = 5, MDS02 in 2 replicates) and AML (n =1, in 2 replicates) samples with mutations in splicing factors (SF3B1 - n = 8, U2AF1 n = 1) or transcription regulators (DNMT3A - CH04). Full length cDNA from 10x Genomics 3' V3.

  Dataset EGAD00001011282

• Paired ONT and downsampled Illumina cfDNA dataset

  Dac EGAC00001002860

• Tumor-Normal matched colon adenomas and carcinomas

  Dac EGAC00001003248

• Microenvironment in lymphoma pathogenesis and therapy - DAC

  Dac EGAC00001003228

• Leucocyte eQTLs in autoimmune disease and health

  Dac EGAC00001000338

• Multiple esclerosis and mixed microbial infections DAC

  Dac EGAC00001000892

• 16S rRNA gene amplification and maternal factors DAC

  Dac EGAC00001000931