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• Immunophenotype data for a subset of NSCLC cases in OAK

  The investigators would like to correlate NGS data from OAK to immunophenotype designation performed manually based on a panCK/CD8 immunohistochemistry stain for a subset of squamous cell carcinomas.

  Dataset EGAD50000001253

• The dataset for Early detection of ovarian cancer using cell-free DNA fragmentomes and protein biomarkers

  The dataset for “Early detection of ovarian cancer using cell-free DNA fragmentomes and protein biomarkers” includes 409 cram files from whole genome next-generation sequencing on the Illumina HiSeq2500. The samples analyzed include plasma samples from healthy individuals and patients with cancer.

  Dataset EGAD50000000695

• scRNA/TCR-seq of CD8+ T cells from a melanoma patient

  Specific in vitro stimulation of patient-derived PBMC with the neoantigens SYTL4-S363F and KIF2C-P13L was followed by enriching for CD137+ activated T cells. Restimulated T cells as well as an unstimulated patient PBMC sample from the same time point were used for scRNA-Seq/scTCR-Seq.

  Dataset EGAD50000000854

• SV Based ctDNA detection in localized soft tissue sarcoma

  WGS from FFPE for "Detecting ctDNA Using Personalized Structural Variants to Forecast Recurrence in Localized Soft Tissue Sarcoma." study. 33 patients had whole genome sequencing through the Illumina platform at an average depth of 15x. Tumor informed structural variants were identified and ddPCR assays were designed for individualized structural variant-based ctDNA detection.

  Dataset EGAD50000002614

• Whole genome shotgun sequencing and somatic mutations data in Hepatocellular carcinoma

  Hepatocellular carcinoma (HCC) is the most common malignancy of the liver. Genomic analysis is conducted to identify genetic alterations in driver genes which are all druggable targets for cancer therapy.

  Study EGAS00001002578

• Integrative multi-omic analyses of malignant pleural mesothelioma

  Multi-omic data (whole-genome sequencing, RNA-seq, EPIC 850K methylation arrays) for 123 samples from the MESOMICS project, the French project of molecular characterization of malignant pleural mesothelioma

  Study EGAS00001004812

• Preterm Infant Gut Metagenomes from the NutriBrain Clinical Trial

  Data Access Committee responsible for governing access to metagenomic sequencing datasets generated from fecal samples collected from preterm infants enrolled in the NutriBrain clinical trial. The study investigates the impact of early-life nutrition on gut microbiome development and neurodevelopmental outcomes. Samples were collected longitudinally during the neonatal period under standardized protocols, and total microbial DNA was extracted for high-throughput shotgun metagenomic sequencing.

  Dac EGAC50000001008

• Fibromyalgia versus small fiber neuropathy: Diverse keratinocyte transcriptome signature

  We provide a diverse keratinocyte transcriptome signature between SFN and FMS patients, which may hint towards distinct pathomechanisms of small fiber sensitization and lay the basis for advanced diagnostics in both entities

  Study EGAS00001005004

• Denisova admixture in Southeast Asia and Oceania

  Genome-wide data from populations from south Asia, Southeast Asia, and Oceania were analyzed for signatures of Denisova admixture to infer the history of human migration to this part of the world

  Study EGAS00001006132

• Bulk ATAC data

  Bulk ATAC libraries were generated for patient samples A.1, A.3, A.5, A.6, A.7, A.11, A.12, A.13 and A.15. For each patient a library of CD3- cells (myeloid cells, considered tumor cells) and CD3+ cells (T cells, considered healthy) were generated.

  Dataset EGAD00001010188