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• Flexible and rapid validation of structural variants using adaptive sampling

  This is the DAC that oversees the application and approval process for access to the Oxford Nanopore fastq files associated with the study, "Flexible and rapid validation of structural variants using adaptive sampling". The DAC members include Dr. Stephen W. Scherer (swscherer@sickkids.ca) and Dr. Lars Feuk (lars.feuk@igp.uu.se).

  Dac EGAC50000000748

• The life-saving benefit of dexamethasone in severe COVID-19 is linked to a reversal of monocyte dysregulation

  Assessment of dexamethasone response in human lung through scRNA-seq analysis of bronchoalveolar lavage (BAL) samples from patients with severe COVID-19.

  Study EGAS50000000203

• CD8+ Tumor-Infiltrating Lymphocyte Abundance is a Positive Prognostic Indicator in Nasopharyngeal Cancer

  This retrospective tissue study explores the prognostic significance of tumour-infiltrating lymphocyte (TIL) populations in NPC, using a combination of RNA sequencing and immunohistochemistry.

  Study EGAS00001006396

• Dataset of Recurrent resistance mutations to lirafugratinib delineate treatment sequences for FGFR2-driven tumors

  This dataset is made of 23 pairs of RNAseq and 36 pairs of Exome-seq, both sequenced from Illumina Novaseq. This includes 47 samples, composed of 25 tumors, 13 healthy and 9 xenograft

  Dataset EGAD50000001981

• Bulk RNASeq of metastatic colorectal cancer organoids with ATOH1 knockout

  Bulk RNA sequencing was performed on mCRC organoids subjected to cetuximab treatment, comparing ATOH1 knockout and control conditions. The dataset is intended to elucidate the contribution of ATOH1-regulated secretory cell population to cetuximab persistence mechanisms.

  Dataset EGAD50000002060

• Exome Sequencing data from infertility cases.

  This dataset includes exome sequencing (ES) from a cohort of patients with infertility. Sequencing was performed on genomic DNA extracted from blood, using Agilent SureSelect XT Low Input exome capture and Illumina NovaSeq 6000 paired-end sequencing and is intended to facilitate research into novel genetic causes of infertility.

  Dataset EGAD50000001881

• RNA-Seq dataset for malignant pleural and peritoneal mesothelioma

  This dataset contains RNA sequencing data of pleural and peritoneal mesothelioma. The number of samples is 18. Sequencing was performed on Illumina NovaSeq 6000 and Illumina NovaSeqXPlus. The sequencing was always paired.

  Dataset EGAD50000001342

• miRNA-sequencing of PBMCs from COVID-19 patients experiencing different degrees of the disease (mild and critical), and control patients

  micro RNA-sequencing of peripheral blood mononuclear cells collected from mild COVID-19 (n = 6), critical COVID-19 (n = 13) and control (n = 8) patients. Sequencing data is provided as FASTQ files.

  Dataset EGAD50000001406

• Genomic characterization of CNA-quiet oral cancer

  Low-coverage whole genome sequencing and targeted (30 gene panel) deep sequencing of oral cancer. Note that the targeted deep sequencing is not actually amplicon sequencing but hybrid capture sequencing, which was not available as on option.

  Dataset EGAD50000000790

• Raw ONT R10 data: Rapid brain tumor classification from sparse epigenomic data

  This dataset contains 207 samples sequenced using rapid-multiplexed barcoded library preparation on Nanopore PromethION R10 flow cells on P2 Solo and P24 systems. One unaligned BAM file per sample is provided.

  Dataset EGAD50000000791