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• Development of Computational Approaches for Cell Hashing in scRNA-Seq

  As a test of cell overloading after cell hashing, a sample of peripheral blood mononuclear cells (PBMC) from a single subject was separated into naive T cells, memory T cells, and non-T cell PBMC populations using fluorescence activated cell sorting (FACS). Each population was separated into two technical replicates, then stained with BioLegend TotalSeq-A antibodies. All 6 samples were pooled, then loaded into 6 wells of a 10X Genomics Chromium 3' RNA-seq v3 chip at increasing cell counts: 16,000 (k), 24k, 32k, 48k, 64, and 80k cells per well. We also included a single sample that was not hashed or pooled, as well as a single sample that was stained with hashing antibodies, but not pooled in two separate wells.

  Study phs002695

• Transcriptomic profiles of two pathogenic germline truncating variant of BRCA2

  Observation of the impact of two truncating variants of BRCA2 on the expression data

  Study EGAS50000000614

• Multiple Sclerosis Replication Chip data (MS Chip)

  Genetic data typed with the MS Chip, designed by the International Multiple Sclerosis Genetics Consortium (IMSGC).

  Study EGAS00001003216

• single cell RNA-seq of small cell lung cancer tumors

  This study investigated the transcriptomic profile of small cell lung cancer from 10 patients. Tumors were rapidly dissociated after the surgical procedure. Libraries were constructed using the VDJ NextGEM v1.1 10x Genomics Chromium kit. Samples were sequenced on a NextSeq 550 sequencer (Illumina).

  Study EGAS50000001400

• Cardiometabolic effects of Anaerobutyricum soehngenii

  This study investigated the effects of the probiotic strain Anaerobutyricum soehngenii on plasma metabolites and cardiometabolic parameters. Strain engraftment was determined through strain tracking of fecal metagenomics. Plasma metabolites levels were determined using untargeted metabolomics. Additionally the interaction with metformin dose was studied.

  Study EGAS50000000415

• Reconstructed VDJ sequences from Smart-seq2 data

  The dataset contains reconstructed VDJ sequences (fasta files) and accompanying metadata for each cell (csv file) from scRNA-seq data generated with the Smart-seq2 protocol. The VDJ sequences were reconstructed with the computational tool BraCeR using raw fastq files as input. The dataset contains sequences from 355 IgA+ peripheral blood B-lineage cells of two untreated celiac disease patients. The sequences comprise both IgA+ transglutaminase 2-specific and other IgA+ B cells.

  Dataset EGAD50000000341

• Altered Blood and Keratinocyte microRNA/transfer RNA Fragment Profiles Related to Fibromyalgia Syndrome and its Severity

  We provide small RNA transcriptome signatures of whole blood and cultured keratinocytes, which separate FMS patients from healthy controls. This opens new perspectives for FMS diagnostics, symptom monitoring, and clinical management.

  Study EGAS50000000638

• Multi-platform genome sequencing of families with rare disease

  This dataset contains genome sequencing data from 51 individuals from 19 different family trios/quads with rare disease who consented to data sharing. PacBio Revio HiFi data (FASTQ, unaligned or aligned BAM) are available for 48 samples, and Illumina NovaSeq 6000 FASTQ data are available for 13 samples (1 trio without HiFi data, plus 10 affected probands with corresponding HiFi data).

  Dataset EGAD50000002109

• 10Xchromium 3' RNA-seq of 21 samples from human embryonic heart

  21 samples were taken from human embryonic heart of PCW 5.5-14 of a total of 13 fetuses. Samples were subject to 10Xgenomics chromium single cell 3' sequencing version 2 or 3. Data was analyzed using STARSolo version 2.7.10a, using human genome GRCh38.p12 and transcript annotations from ENSEMBL release 93 from reference package GRCh38-3.0.0 as available from 10Xgenomics.

  Dataset EGAD50000001499

• H021-Master Umbrella study2 (not to be released)

  Study EGAS00001005145