|
| Status |
Public on Mar 02, 2020 |
| Title |
saline [20.ACCATAC] |
| Sample type |
SRA |
| |
|
| Source name |
saline_cerebral cortex
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley
age: embryonic day 21
treatment: maternal administration of saline
tissue: cerebral cortex
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the right cerebral cortex using RNAeasy kit (Qiagen). Only RNA with RIN > 9.5 were used for RNA-seq.
oligo-dT
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
20.ACCATAC.run_2398_s_*_withindex_sequence.txt_ACCATAC
|
| Data processing |
Basecalling with Illumina RTA 1.9
Demultiplexing with Illumina bcl2fastq2
Fastq files were combined and aligned with STAR 2.0.4b
Gene counts derived with Subread:featureCount 1.45. RPKM and CPM calculated from gene counts with custom R scripting.
Genome_build: Ensembl Release 76 Rnor_5.0
Supplementary_files_format_and_content: Gene counts in tab-delimitted text format
|
| |
|
| Submission date |
Mar 01, 2020 |
| Last update date |
Mar 02, 2020 |
| Contact name |
Arvind Palanisamy |
| E-mail(s) |
arvind.palanisamy@wustl.edu
|
| Organization name |
Washington University School of Medicine
|
| Department |
Anesthesiology
|
| Street address |
660 S Euclid Ave
|
| City |
St. Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL25947 |
| Series (1) |
| GSE146155 |
Fetal cortical transcriptomic changes after oxytocin induced aberrant uterine contractility |
|
| Relations |
| BioSample |
SAMN14255359 |
| SRA |
SRX7825499 |
