|
| Status |
Public on May 12, 2017 |
| Title |
bonobo_101116_lane_6 |
| Sample type |
SRA |
| |
|
| Source name |
placenta
|
| Organism |
Pan paniscus |
| Characteristics |
tissue: placenta
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The villous portion of the tissue was homogenized in Trizol resulting in the isolation of total RNA following the manufacturer's instructions (Life Technologies, Grand Island, NY). The RNA was further purified using Qiagen’s RNeasy Midi Kit in conjunction with the RNase-Free DNase Set following the manufacturer’s protocol to remove any contaminating DNA from the sample (Valencia, CA)
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 II |
| |
|
| Data processing |
Reads failing QC were removed using fastQC, aligned using STAR, and quantified using Cufflinks against appropriate ENSEMBL reference genomes
Genome_build: ENSEMBL v80
Supplementary_files_format_and_content: gene FPKM values from cufflinks
|
| |
|
| Submission date |
Mar 11, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Don Leigh Armstrong |
| E-mail(s) |
don@donarmstrong.com
|
| Organization name |
University of Illinois at Urbana Champaign
|
| Department |
Institute for Genomic Biology
|
| Lab |
Computing Genomes for Reproductive Health
|
| Street address |
1206 W Gregory Drive
|
| City |
Urbana |
| State/province |
IL |
| ZIP/Postal code |
61801 |
| Country |
USA |
| |
|
| Platform ID |
GPL21585 |
| Series (1) |
| GSE79121 |
Expression Profiling of Term Placenta in Viviparous Mammals by RNA-Seq |
|
| Relations |
| BioSample |
SAMN04546399 |
| SRA |
SRX1629202 |
