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Sample GSM3732010 Query DataSets for GSM3732010
Status Public on Feb 12, 2020
Title Control3 [OPK363NC]
Sample type SRA
 
Source name CNS Percoll pellet
Organism Homo sapiens
Characteristics disease: glioblastoma patient
tissue: Healthy control tissue
Extracted molecule total RNA
Extraction protocol Tissue was mechanically dissociated, treated with 0.25% trypsin and 25ug/mL Dnase for 30 min at 37C, and then passed through a 140um nylon mesh. The resulting cells were then separated on 30% percoll gradient to remove myelin and erythrocytes.
Libraries were created according to the 10X Genomics protocol (Zheng et al. Nature Communications 2017).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Data processing Raw sequencing data were processed using the 10x Genomics Cell Ranger pipeline (version 1.3).
Cellranger mkfastq demultiplexed libraries based on sample indices and generated FASTQ files
Cellranger count performed alignment against hg38 human genome using STAR , filtering, and feature counting for unique molecular identifier (UMI)
Genome_build: hg38
Supplementary_files_format_and_content: csv format with rows as genes and columns as cells
 
Submission date Apr 20, 2019
Last update date Feb 13, 2020
Contact name Michael Wheeler
E-mail(s) mwheeler0@bwh.harvard.edu
Organization name Brigham and Women's Hospital
Department Neurology
Street address 60 Fenwood Rd.
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL20301
Series (2)
GSE130105 Genome-wide analysis of the transcriptional profile of the CNS in healthy control patients.
GSE130119 MAFG-driven astrocytes promote CNS inflammation
Relations
BioSample SAMN11471881
SRA SRX5715450

Supplementary file Size Download File type/resource
GSM3732010_C3_filtered_gene_bc_matrices.csv.gz 4.7 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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