|
| Status |
Public on Oct 13, 2016 |
| Title |
RUES2-BMP-4h |
| Sample type |
SRA |
| |
|
| Source name |
embryonic stem cells
|
| Organism |
Homo sapiens |
| Characteristics |
time point: 4h
agent: BMP4
|
| Treatment protocol |
BMP4 50ng/ml
|
| Growth protocol |
hESCs were cultured as 500um diameter discs (CYTOO micropatterned coverslips) in MEF-conditioned medium in presence of 20ng/ml bFGF.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol and Rneasy mini kit (QIAGEN)
Illumina TruSeq RNA Sample Prep Kit v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
RUES2-BMP-4h
|
| Data processing |
Reads were aligned using the STAR aligner
featureCounts was used to assign reads to Gencode v18 gene annotations.
DESeq2 was used to normalize the count matrix.
Genome_build: NCBI genome build 37
Supplementary_files_format_and_content: normalized gene count matrix
|
| |
|
| Submission date |
Jan 21, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Albert Ruzo |
| E-mail(s) |
[email protected]
|
| Organization name |
The Rockefeller University
|
| Department |
Laboratory of Stem Cell Biology and Molecular Embryology
|
| Street address |
1230 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE77057 |
A balance between secreted inhibitors and edge-sensing controls gastruloid self-organization |
|
| Relations |
| BioSample |
SAMN04432207 |
| SRA |
SRX1539262 |
