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Sample GSM5225623 Query DataSets for GSM5225623
Status Public on Aug 22, 2023
Title vascular smooth muscle cells aorta dog A
Sample type SRA
Source name vascular smooth muscle cells aorta
Organism Canis lupus familiaris
Characteristics cell type: vascular smooth muscle cells
Extracted molecule total RNA
Extraction protocol cells were trypsinized and stored in RLT. Total RNA was isolated using a RNeasy Mini Kit (Qiagen).
Sequencing libraries were prepared using the Rapid Directional RNA-Seq Kit (NEXTflex)
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Description MOK5999_readCounts_raw.txt
Data processing RNA-seq reads were aligned to the reference genome using STAR version 2.4.2a
Read groups were added to the BAM files with Picard's AddOrReplaceReadGroups
The BAM files are sorted with Sambamba v0.4.5 and transcript abundances were quantified with HTSeq-count version 0.6.1p1, using the union mode.
Genome_build: canfam3.1
Supplementary_files_format_and_content: raw counts
Submission date Apr 03, 2021
Last update date Aug 22, 2023
Contact name Frank van Steenbeek
Phone 0302532848
Organization name Utrecht University
Street address Yalelaan 104
City Utrecht
State/province Select State/Province
ZIP/Postal code 3584 CM
Country Netherlands
Platform ID GPL21400
Series (1)
GSE171437 Locational memory of macrovessel vascular cells is transcriptionally imprinted
BioSample SAMN18613224
SRA SRX10509670

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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