|
| Status |
Public on Apr 16, 2013 |
| Title |
HH18 VEN |
| Sample type |
SRA |
| |
|
| Source name |
Heart tube
|
| Organism |
Gallus gallus |
| Characteristics |
strain: Cobb-Cobb broiler line
developmental stage: HH18
tissue: Heart ventricles
|
| Extracted molecule |
total RNA |
| Extraction protocol |
HH18 chick (n=200) and E11.0 ICR (n=160, in duplicate) mouse hearts were dissected into AVC, OFT, and VEN and the samples were pooled. Standard phenol-chloroform extraction of RNA was performed. RNA integrity was checked with Agilent 2100 Bioanalyzer
RNAseq libraries were generated without normalizations or RNA/cDNA fragmentation
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
HiSeq 2000 reads are aligned by TOPHAT2 (http://tophat.cbcb.umd.edu/) to produce bam files.
Gene expression profiles were generated using a Bayesian p-value
Genome_build: galGal3
Supplementary_files_format_and_content: tab-delimited text files include expression values (normalized reads to total per million)
|
| |
|
| Submission date |
Dec 28, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniel DeLaughter |
| Organization name |
Vanderbilt University Medical School
|
| Department |
Cell and Developmental Biology
|
| Lab |
Scott Baldwin Laboratory
|
| Street address |
Preston Research Building Room 460
|
| City |
Nashville |
| State/province |
TN |
| ZIP/Postal code |
37203 |
| Country |
USA |
| |
|
| Platform ID |
GPL16133 |
| Series (1) |
| GSE43194 |
Spatial Transcriptional Profile of the Chick and Mouse Endocardial Cushions Identify Novel Regulators of Endocardial EMT in vitro |
|
| Relations |
| SRA |
SRX213294 |
| BioSample |
SAMN01881288 |
