|
| Status |
Public on Mar 26, 2014 |
| Title |
E15.5 miR-1s dKO |
| Sample type |
SRA |
| |
|
| Source name |
whole heart, embryonic 15.5 days
|
| Organism |
Mus musculus |
| Characteristics |
tissue: whole heart
developmental stage: embryonic 15.5 days
strain: Sv129
genotype/variation: dKO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were extracted using TRIzol Reagent. mRNAs were purified using a poly-A selection approach.
Sequencing libraries were prepared according to a standard protocol. Barcode (P2.5 miR-1s dHET): TGACCA Barcode (P2.5 miR-1s dKO): CGATGT; Barcode (E15.5 miR-1s dHET): AGTCAA; Barcode (E15.5 miR-1s dKO): AGTTCC
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
paired-end (100bp)
|
| Data processing |
Reads were aligned to the mouse reference genome using TopHat program (Bowtie algorithm)
Transcript assembles and identification of differentially expressed genes were achieved using Cufflinks package
To account for expression bias due to transcript length, each sample transcript expression was normalized by using cufflinks algorithm with a FDR of 0.05
Genome_build: NCBI Build 37/mm9
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Apr 03, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Yong Zhao |
| E-mail(s) |
yong.zhao@mssm.edu
|
| Phone |
212-824-8916
|
| Organization name |
Icahn School of Medicine at Mount Sinai
|
| Department |
Mindich Child Health and Development Institute
|
| Street address |
1470 Madison Ave
|
| City |
New York City |
| State/province |
NY |
| ZIP/Postal code |
10029 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE45760 |
Identification of dysregulated genes after deletion of miR-1-1 and miR-1-2 |
|
| Relations |
| SRA |
SRX259744 |
| BioSample |
SAMN01998185 |
