|
| Status |
Public on Feb 08, 2011 |
| Title |
RNA-seq.null.rep2 |
| Sample type |
SRA |
| |
|
| Source name |
RNA-seq.null.rep2
|
| Organism |
Mus musculus |
| Characteristics |
developmental stage: E18.5
tissue type: 3 E18.5 rhombic lips (pooled)
genotype: Atoh1-/-
sequencing protocol: paired-end, 37-mer sequencing
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was mRNA enriched using oligo(dT) capture and ds cDNA was prepared. The ds cDNA was fragmented via nebulization. The fragmented DNA was end polished and ligated with Illumina methylated PE adaptors. Average insertion size 200bp, standard deviation 73bp.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
mRNA enriched ds cDNA was sequenced paired end
|
| Data processing |
Reads are mapped to genome (mm9) using ELAND with up to 2 mismatches allowed.
|
| |
|
| Submission date |
Jun 03, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Yuanxin Xi |
| E-mail(s) |
xiyuanxin@yahoo.com
|
| Phone |
530-220-2067
|
| Organization name |
The University of Texas MD Anderson Cancer Center
|
| Department |
Bioinformatics and Computational Biology
|
| Street address |
1400 Pressler St
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (1) |
| GSE22111 |
The Atoh1 targetome in murine postnatal cerebellum |
|
| Relations |
| SRA |
SRX022876 |
| BioSample |
SAMN00016824 |
