|
| Status |
Public on Oct 30, 2020 |
| Title |
CF146_day16_mt |
| Sample type |
SRA |
| |
|
| Source name |
Cystic fibrosis sputum
|
| Organism |
Homo sapiens |
| Characteristics |
exacerbation day: day16
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction
Ovation¨ Complete Prokaryotic RNA-Seq Library
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Quality filtering using PRINSEQ ++
Cloning vector sequences were removed using SMALT with 80 % identity against the NCBI UniVec database.
Human genome sequences were removed using SMALT with 80 % identity against the human reference genome GRCh38
The transcripts were mapped to the NCBI RefSeq database of complete bacterial genomes using SMALT at 96 % identity.
|
| |
|
| Submission date |
Nov 05, 2019 |
| Last update date |
Oct 31, 2020 |
| Contact name |
Cynthia Silveira |
| E-mail(s) |
csilveira@sdsu.edu
|
| Organization name |
San Diego State University
|
| Department |
Biology
|
| Street address |
5500 Campanile Dr, North Life Sciences 302
|
| City |
San Diego |
| State/province |
CALIFORNIA |
| ZIP/Postal code |
92182 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN13198926 |
| SRA |
SRX7101177 |
