|Public on Mar 06, 2019
|IMR90-4 iPSC-derived blood-brain barrier endothelium
|culture condition: perfused
days in channel: 14
|Brain endothelium was cultured for 1 day under static conditions or 14 days under perfused conditions.
|iPSC-derived blood-brain barrier endothelium was seeded into channels in gelatin hydrogels.
|Endothelium was removed from channels using trypsin, and total RNA was isolated using Direct-zol RNA MiniPrep Plus Kit (Zymo Research) with DNase I treatment following manufacturer's instructions. Samples were submitted to Vanderbilt Technologies for Advanced Genomics (VANTAGE) for library preparation.
cDNA libraries were prepared using a stranded mRNA (poly-A-selected) kit.
|Illumina NovaSeq 6000
|Sequences were aligned to the human transcriptome using HISAT2 (version 1.2.0-OSX_x86_64). A list of known splice sites was generated using the UCSC Table Browser and hisat2_extract_splice_sites.py.
Alignments were assembled using StringTie (version 1.3.4d.OSX_x86_64).
FPKM values were extracted using Ballgown.
Supplementary_files_format_and_content: CSV file contains transcript coverage and FPKM values for both samples.
|Nov 15, 2018
|Last update date
|Mar 06, 2019
|Chemical and Biomolecular Engineering
|2400 Highland Ave, Room 303
|iPSC-Derived Brain Endothelium Exhibits Stable, Long-Term Barrier Function in Perfused Hydrogel Scaffolds