|
| Status |
Public on Sep 17, 2019 |
| Title |
bmpIwp2_1 |
| Sample type |
SRA |
| |
|
| Source name |
BMP+IWP2 treated hESCs
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hESCs
|
| Treatment protocol |
hESCs in Sample1 were kept in mTeSR1 for 48h in the growth conditions. hESCs in Samples 2, 3 and 4 were also kept in mTeSR1 but treated with 10ng/ml BMP4, 10ng/ml BMP4 + 4μM IWP2, and 10ng/ml BMP4 + 10μM SB431542 respectively for 48h.
|
| Growth protocol |
hESCs were grown in the chemically defined medium mTeSR1 in tissue culture dishes and kept at 370C, 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with Invitrogen RNAqueous Micro Kit.
Illumina paired end 150
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
bmpIwp2_1
|
| Data processing |
Reads were aligned to the genome using STAR-2.6.1d software with the 2-pass procedure
STAR output was quantified using RSEM-1.3.1. Alignment and quantification were performed separately for each replicate.
Genome_build: UCSC hg38
Supplementary_files_format_and_content: Excel file with Fragments per kilobase per transcript per million (FPKM) values obtained from RSEM for each replicate in each sample.
|
| |
|
| Submission date |
Sep 16, 2019 |
| Last update date |
Sep 17, 2019 |
| Contact name |
Aryeh Warmflash |
| E-mail(s) |
aw21@rice.edu
|
| Phone |
7133482456
|
| Organization name |
Rice University
|
| Street address |
6100 Main St
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77005 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE137492 |
Dissecting the dynamics of signaling events in the BMP,WNT and NODAL cascade during self-organized fate patterning in human gastruloids |
|
| Relations |
| BioSample |
SAMN12766470 |
| SRA |
SRX6853253 |
