|
| Status |
Public on Jul 03, 2014 |
| Title |
roundspd dKO rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Round spermatids
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Round spermatids
age: Adult
genotype: dKO
|
| Treatment protocol |
No treatment
|
| Growth protocol |
Normal breeding
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Using mirVana RNA isolation Kit extract total RNAs
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were mapped to mm9 whole genome using TOPHAT
Fragments Per Kilobase of exon per Megabase of library size (RPKM) were calculated and isoforms were assembled by using a protocol from Cufflinks
Genome_build: mm9
|
| |
|
| Submission date |
Jul 02, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Wei Yan |
| E-mail(s) |
wyan@medicine.nevada.edu
|
| Phone |
(775) 784-7765
|
| Organization name |
University of Nevada
|
| Department |
Physiology
|
| Lab |
Wei Yan Lab
|
| Street address |
1664 N. Virginia Street
|
| City |
reno |
| State/province |
NV |
| ZIP/Postal code |
89557 |
| Country |
USA |
| |
|
| Platform ID |
GPL11002 |
| Series (1) |
| GSE59017 |
Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and dKO round spermatids Transcriptomes |
|
| Relations |
| BioSample |
SAMN02899988 |
| SRA |
SRX643615 |
