Comment[GEAAccession]	E-GEAD-372
MAGE-TAB Version	1.1
Investigation Title	Transcriptome analysis of human pulmonary endothelial cells exposed to laminar shear stress
Experiment Description	Laminar shear stress generated by blood flow stimulates endothelial cells and activates signal transduction, which plays an important role in vascular homeostasis. In this study, we performed 3 experiments of RNA sequencing. Overall design of experiment 1: Gene expression profiles of HPAEC untreated (static) and exposed to shear stress for 6 or 24 h were generated by deep sequencing, in triplicate. Overall design of experiment 2: Gene expression profiles of HPAEC untreated (static) and stimulated by PMA with or without laminar shear stress were generated by deep sequencing, in triplicate. Overall design of experiment 3: Gene expression profiles of HPAEC untreated (control) and stimulated by PMA with or without treatment of 1-O-dodecyl-rac-glycerol were generated by deep sequencing, in triplicate.
Experimental Design	stimulus or stress design
Experimental Factor Name	stress
Experimental Factor Type	stress
Person Last Name	Hirata
Person First Name	Tsuyoshi
Person Affiliation	Laboratory for Metabolomics  Center for Integrative Medical Sciences(IMS), RIKEN
Person Roles	submitter
Public Release Date	2020-12-10
Protocol Name	P-GEAD-518	P-GEAD-519	P-GEAD-520	P-GEAD-521	P-GEAD-522
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid library construction protocol	nucleic acid sequencing protocol	normalization data transformation protocol
Protocol Description	Human pulmonary artery endothelial cells (HPAEC) were commercially obtained and used for the RNA sequencing analysis.	Total RNA from HPAEC was extracted using the RNeasy Plus Mini Kit (Qiagen), according to the manufacturer's protocol.	Polyadenylated mRNA was selected using the NEBNext Poly(A) mRNA Magnetic Isolation Module (New England Biolabs). Subsequently, the library was synthesized with the NEBNext Ultra RNA Library Prep Kit (New England Biolabs) using the NEB index kit.	The pooled libraries were sequenced on the Illumina NextSeq 500 or NextSeq 550 instrument using the 75-cycles High Output v2 Kit (Illumina).	The reads were aligned with STAR software (ver. 2.5.3a) onto the transcript reference based on hg19 (human reference). The read counts for each gene were estimated using RSEM software (ver. 1.3.0).
SDRF File	E-GEAD-372.sdrf.txt
Comment[AEExperimentType]	RNA-seq of coding RNA
Comment[BioProject]	PRJDB9991
Comment[Last Update Date]	2020-12-10