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• bulkRNAseq: Human periportal liver assembloids recapitulate periportal liver tissue in vitro

  Sample number: 40 Sample details:Total 40 samples, including hepatocyte organoids (74 samples), primary human hepatocytes (15 samples), cholangicocyte organoids (11 samples), hepatocytes cultured in monlayer (5 samples) and portal fibroblasts (3 samples).

  Dataset EGAD50000001454

• Whole genome sequencing data of cfDNA and WBC from 5 patients with mUC

  Whole genome Illunima sequencing of cfDNA of 5 metastatic urothelial carcinoma patients. White blood cell (WBC) samples are used as patient matched germline samples (n=5). All files are in paired-end fastq format.

  Dataset EGAD50000001570

• Exome-sequencing on early oral squamous cell carcinoma with clear margins

  Whole exome sequencing (WES) on early oral squamous cell carcinoma (OSCC) with clear margins, and on resection margins, 86 patients with a median follow-up of 58 months (range 30.4-83 months). Raw data (fastq format).

  Dataset EGAD50000001209

• WGS data of 100 Breast Cancer patients from SV Based ctDNA Detection study

  Whole Genome Sequencing data of 100 Breast Cancer patients from "Ultrasensitive Detection and Monitoring of Circulating Tumor DNA using Structural Variants in Early-Stage Breast Cancer" study.

  Dataset EGAD50000001175

• Hematological toxicity following CAR-T cells injection dataset

  This dataset containes 44 paired of bulk RNA sequencing and 42 parired of single cell RNA sequencing issued from bone marrow aspirations obtained from patients treated with CAR-T (CD3+, CAR T+, CD34+ sorted populations).

  Dataset EGAD50000001142

• Tumor reactive γδ T cells contribute to a complete response to PD-1 blockade in a Merkel cell carcinoma patient

  Single cell RNA and TCR sequencing of γδ T cells FACS sorted from peripheral blood of two Merkel cell carcinoma patients

  Dataset EGAD50000000137

• Sensitive circulating tumor DNA based residual disease detection in epithelial ovarian cancer

  We analyzed 264 plasma samples collected between June 2016 and September 2021 from 63 epithelial ovarian cancer patients using tumor-guided plasma cell-free DNA analysis to detect residual disease after treatment.

  Dataset EGAD50000000360

• HeH_SNParry

  This dataset included 110 samples with high hyperdiploid acute lymphoblastic leukemia that were genotyped using Affymetrix SNP Array or Illumina's BeadArray platform.

  Dataset EGAD00010002456

• germline SNP6.0

  Over 1.87 million SNP and CNV loci are screened by Affymetrix SNP 6.0 array

  Dataset EGAD00010001635

• leukemia omni2.5

  Over 2.5 million SNP and CNV loci are screened by Illumina Infinium Omni2.5Exome-8 Kit

  Dataset EGAD00010001638

• leukemia SNP6.0

  Over 1.87 million SNP and CNV loci are screened by Affymetrix SNP 6.0 array

  Dataset EGAD00010001637

• germline omni2.5

  Over 2.5 million SNP and CNV loci are screened by Illumina Infinium Omni2.5Exome-8 Kit

  Dataset EGAD00010001636

• COLONOMICS Whole Exome Sequencing

  This dataset consists of Illumina HiSeq 2000 Whole Exome Sequencing of 84 colorectal samples: 42 Tumor tissue samples and 42 Normal tissue samples (adjacent to tumor sites). 2x75bp paired-end sequencing reads: 2 fastq files per sample

  Dataset EGAD00001004826

• Familial Multiple Sclerosis study variant calling samples

  Familial Multiple Sclerosis study dataset, including variant calling files from 138 samples with three different phenotypes: Multiple Sclerosis (MS), other Autoimmune Diseases (AID) and unaffected individuals.

  Dataset EGAD00001005952

• RNA-Seq of serially passaged TIC-enriched spheres of colorectal cancer

  18 samples of RNA-Seq of serially passaged TIC-enriched spheres of colorectal cancer (CRC), sequenced on HiSeq2000 and HiSeq2500

  Dataset EGAD00001006264

• Exome sequencing of women with familial high-grade serous ovarian carcinoma

  Germline exome sequencing data (paired Fastq files) from 516 BRCA1/2-negative women affected with familial high-grade serous (or similar) ovarian carcinoma, as analysed and described in Subramanian et al (Nature Communications, 2020).

  Dataset EGAD00001006030

• RNA sequencing data of high-grade serous ovarian cancer samples

  RNA sequencing data of over 200 HGSOC samples at diagnosis, after chemotherapy and during progression.

  Dataset EGAD00001006456

• MBD4 targeted sequencing in pool experiment

  Targeted sequencing of MBD4 of either tumor and germline DNA from Uveal Melanoma assembled by pool (germline pool or tumor pool).

  Dataset EGAD00001006989

• STAR outputs from RNA-seq

  STAR outputs from RNA-seq of 84 pancreatic neuroendocrine neoplasms, 10 normal islet samples and 4 cell line samples.

  Dataset EGAD00001006991

• Longitudinal single-cell RNA-seq data from metastatic ovarian cancer

  Longitudinal single-cell RNA-seq data of prospectively collected tumor tissue samples before and after chemotherapy from 11 HGSOC patients.

  Dataset EGAD00001006922

• Clear cell sarcoma dataset

  This deposit consists of DNA and RNA sequencing data from 67 CCS samples. 55 samples had tumor DNA sequencing data. 6 had matched normal sequencing data. 34 samples had tumor RNA sequencing data.

  Dataset EGAD00001008611

• IL7RA activated cord blood derived leukemia

  Whole exome sequencing of cord bloods with activated IL7RA leading to leukemia outgrowth in NSG mice. Four leukemia and two corresponding normal controls were sequenced on an Illumina Nextseq550 sequencer (paired end 2x 150 bp).

  Dataset EGAD00001007734

• ADAPTeR Study: WES data from ccRCC patients

  ADAPTeR study WES from multi-region samples taken pre and post nivolumab

  Dataset EGAD00001008164

• Osteosarcoma capture-based RNA sequencing

  This dataset includes 23 specimens from osteosarcoma patients (primary, relapsed, metastatic). It contains bam files from RNA sequencing using a library in which coding regions of cDNA are captured and short-read, paired-end sequencing.

  Dataset EGAD00001008434

• Differential Presence of Exons in Cell-Free DNA

  Differential Presence of Exons in Cell-Free DNA Reveals Different Patterns in Colorectal Cancer Between Metastatic, Non-Metastatic Patients and Healthy Donors. 159 samples, Illumina sequencing technology.

  Dataset EGAD00001009510