|
| Status |
Public on Feb 14, 2018 |
| Title |
E12.5 Pitx1 KO Rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Hindlimb
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Hindlimb
strain: C57BL/6
developmental stage: E12.5
genotype: Pitx1 KO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hindlimbs were collected and total RNA was isolated using the mirVana RNA Isolation Kit (ThermoFisher Scientific).
Libraries were constructed with TruSeq Stranded mRNA Sample Prep Kit for Illumina and sequenced on the Illumina NextSeq platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Sequenced libraries were evaluated and trimmed with FastQC.
Sequenced reads were aligned to mm9 using Tophat2 on the Galaxy platform
Cuffdiff was used to generate qualified RPKM and to identify differentially expressed genes and transcripts
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include RPKM values and log2(fold_change)
|
| |
|
| Submission date |
Sep 29, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Jialiang Wang |
| E-mail(s) |
jialiang.wang@utsouthwestern.edu
|
| Organization name |
University of Texas Southwestern Medical Center
|
| Street address |
5323 Harry Hines Blvd
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75390 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE104459 |
PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets [RNA-Seq] |
| GSE104460 |
PITX1 Promotes Chondrogenesis and Myogenesis in Mouse Hindlimbs Through Conserved Regulatory Targets |
|
| Relations |
| BioSample |
SAMN07722610 |
| SRA |
SRX3234624 |
