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Sample GSM2858936 Query DataSets for GSM2858936
Status Public on Jan 09, 2018
Title HBVP
Sample type SRA
Source name human brain vascular pericytes
Organism Homo sapiens
Characteristics cell type: human brain vascular pericytes
culture medium: see ScienCell (product number 1205)
tissue of origin: brain vasculature
Extracted molecule total RNA
Extraction protocol Total RNA purchased from ScienCell (product number 1205)
The following is an excerpt from Hou et al, Sci Rep. 2015; 5:9570, the manuscript that details the protocol employed. Poly-A-tailed mRNA is isolated from total RNA using oligo-dT beads. Purified mRNA is then fragmented with heat in fragmentation buffer. First strand cDNA is then synthesized using random hexamer oligos containing partial Illumina 3′ adaptor sequence. After RNA removal, a modified oligo containing partial Illumina's 5′ adaptor is then ligated to the 5′ of the single stranded cDNA. The library is then amplified by PCR using oligos that contain full Illumina adaptor sequences and our in-house index sequences.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Description s053112_0062806
Data processing Basecalls/demuxxing performed using Illumina bcl2fastq v1.8.4
Reads were filtered and trimmed for adapters and quality. Expression estimates were calculated using RSEM v1.2.3 with alignments by bowtie v0.12.9
Genome_build: hg19
Supplementary_files_format_and_content: gzipped tab-delimited file containing RSEM's calculated Expected Counts gene expression estimates.
Submission date Nov 16, 2017
Last update date May 15, 2019
Contact name David Vereide
Organization name Morgridge Institute for Research
Department Regenerative Biology
Street address 330 North Orchard Street
City Madison
State/province WI
ZIP/Postal code 53715
Country USA
Platform ID GPL16791
Series (1)
GSE106991 RNA-seq analysis of human expandable arterial endothelial precursors (eAEPs), expandable mesenchymal precursors (eMPs), and controls
BioSample SAMN08032621
SRA SRX3398850

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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