|
Status |
Public on Oct 01, 2017 |
Title |
S4 Corn Stover 1 |
Sample type |
SRA |
|
|
Source name |
Whole organism
|
Organism |
Anaeromyces robustus |
Characteristics |
energy substrate: Corn Stover growth phase harvested from: Exponential growth
|
Treatment protocol |
See characteristics for energy source treatments
|
Growth protocol |
Cultures grown in ~ 10 ml Medium C (Davies et. al, J Gen Microbiol. 1993 Jun;139 Pt 6:1395-400.) at 39°C to mid-log phase (P≥5 psi)
|
Extracted molecule |
total RNA |
Extraction protocol |
Qiagen RNEasy Mini Kit (Plant/Fungi Protocol) Illumina TruSeq Stranded mRNA library standard protocol
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
S4_substrate_raw_tpm.txt S4_substrate_raw_expectedcounts.txt CS1
|
Data processing |
Aligned reads from all conditions to transcriptomes using Trinity utility align_and_estimate_abundance.pl with RSEM estimation method Genome_build: de novo Supplementary_files_format_and_content: tab delimited text files containing estimated abundances of each transcript
|
|
|
Submission date |
Feb 28, 2017 |
Last update date |
May 15, 2019 |
Contact name |
John Henske |
E-mail(s) |
johnhenske@engineering.ucsb.edu
|
Organization name |
University of California, Santa Barbara
|
Department |
Department of Chemical Engineering
|
Street address |
Engineering II Building
|
City |
Santa Barbara |
State/province |
CA |
ZIP/Postal code |
93106-5080 |
Country |
USA |
|
|
Platform ID |
GPL23124 |
Series (1) |
GSE95479 |
Substrate-based regulation in gut fungi |
|
Relations |
BioSample |
SAMN06468419 |
SRA |
SRX2598498 |