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Sample GSM3892576 Query DataSets for GSM3892576
Status Public on Jun 17, 2019
Title PBMC_POST
Sample type SRA
 
Source name PBMC from the DRESS patient 2 weeks after treatment
Organism Homo sapiens
Characteristics disease diagnosis: DRESS
tissue: PBMC
manipulation: Cultured
Extracted molecule total RNA
Extraction protocol Samples were prepared using 10X Genomics Chromium 5' kit and 3' kit (v2).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description PBMC_POST2W
Patient with drug-induced hypersensitivity syndrome.
Single-cell RNA-Seq
Data processing CellRanger (10X Genomics) pipelines were used for demultiplexing base calls into Fastq, filtering, barcode counting and filtering, UMI counting and alignment with reference human genome GRCh38.
The quality control, normalization, linear regression of number of UMIs and scaling were performed using Seurat (v2.3.4).
Two different groups (disease vs. healthy volunteers, pre- vs. post-treatment) were aligned using canonical correlation analysis by Seurat package (v2.3.4).
Genome_build: GRCh38
Supplementary_files_format_and_content: *.h5: Filtered gene expression matrices with cells identified as cell barcodes and the values representing gene UMI counts.
 
Submission date Jun 16, 2019
Last update date Jun 18, 2019
Contact name Doyoung Kim
E-mail(s) dykim@yuhs.ac
Organization name Yonsei University College of Medicine
Department Dermatology
Street address 50-1 Yonsei-ro Seodaemun-gu
City Seoul
ZIP/Postal code 03722
Country South Korea
 
Platform ID GPL21290
Series (1)
GSE132802 Single-cell RNA-sequencing of skin, fresh blood, and cultured peripheral blood mononuclear cells from a patient with drug-induced hypersensitivity syndrome and healthy volunteers
Relations
BioSample SAMN12070445
SRA SRX6075367

Supplementary file Size Download File type/resource
GSM3892576_PBMC_POST2W_filtered_gene_bc_matrices_h5.h5 13.9 Mb (ftp)(http) H5
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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