|
| Status |
Public on Jan 26, 2011 |
| Title |
s5_ago104 Ovaries |
| Sample type |
SRA |
| |
|
| Source name |
ago104_KO
|
| Organism |
Zea mays |
| Characteristics |
cultivar: B73
genotype/variation: ago104 KO
cell type: Immature ovaries
|
| Growth protocol |
Ovaries collected from immature ears grown in screen-house conditions, temperature 20 (night) -25 (days) with 14 hours of light/day.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAs isolated using TRIZOL. Illumina libraries were constructed for the wild type and mutant samples following Illumina/Solexa's standard protocol for Digital Gene Expression Tag Profiling library preparation. Adapter was as follows: 5′-CAAGCAGAAGACGGCATACGATCTAACGATGTACGCA GCAG-3’, corresponding to DpnII-derived tags.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
Alignment: 17pb tags were were extracted from the raw data and mapped to the maize (March, 2010) B73 reference genome using BOWTIE. All reads mapping with 0-1 mismatches were retained.
|
| |
|
| Submission date |
Jan 25, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Daniel Grimanelli |
| E-mail(s) |
daniel.grimanelli@ird.fr
|
| Phone |
+33 4 67 41 63 76
|
| Organization name |
IRD
|
| Lab |
Epigenetics and Seed Development Lab
|
| Street address |
911 Av Agropolis
|
| City |
Montpellier |
| ZIP/Postal code |
34394 |
| Country |
France |
| |
|
| Platform ID |
GPL9141 |
| Series (1) |
| GSE26859 |
Profiling of AGO104-dependent gene expression in maize ovaries |
|
| Relations |
| SRA |
SRX039422 |
| BioSample |
SAMN00199077 |
