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Series GSE188240 Query DataSets for GSE188240
Status Public on Dec 08, 2022
Title Gene expression of differentiated human induced pluripotent stem cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Gene expression of Human DiPS 1016 SeVA iPSCs and hiPSCs-differentiated into endothelial, vascular smooth muscle or white adipose tissue cells.
 
Overall design RNA was extracted from Human DiPS 1016 SeVA iPSCs and hiPSCs-differentiated into endothelial, vascular smooth muscle or white adipose tissue cells using the QIAcube and the RNeasy Plus Mini Kit (QIAGEN). RNA quality was ascertained with the TapeStation (Agilent), and only samples with a RIN>9.0 value were used for sequencing. Sequencing libraries were made with the PrepX DNA library kit (Takara bio) using the Apollo system (Takara bio). Quality control for the libraries was performed using the KAPA library quantification kit (Roche) and the TapeStation (Agilent). Sequencing libraries were barcoded, pooled and sequenced on a HiSeq 2500 (Illumina) with single-end 150bp reads. Sequencing output was de-multiplexed, barcodes removed, trimmed for quality, and FastQC was run on all files for quality control. Reads were aligned to human genome assembly GRCh38 using STAR76.
 
Contributor(s) Spetz JK, Florido MH, Fraser CS, Qin X, Yu SJ, Singh R, Friesen M, Cowan CA, Rubin LL, Salem JE, Moslehi JJ, Sarosiek KA
Citation(s) 36351019
Submission date Nov 04, 2021
Last update date Dec 08, 2022
Contact name Johan Spetz
E-mail(s) spetz@hsph.harvard.edu
Phone 8575009549
Organization name Harvard School of Public Health
Department JBL Center for Radiation Sciences
Lab Sarosiek Lab
Street address HSPH2, Room 229, 655 Huntington Ave.
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (12)
GSM5673238 undifferentiated hiPSC sample 1
GSM5673239 undifferentiated hiPSC sample 2
GSM5673240 undifferentiated hiPSC sample 3
Relations
BioProject PRJNA777961
SRA SRP344652

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE188240_ipsc_rnaseq_processed.txt.gz 686.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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