|
| Status |
Public on Jun 01, 2016 |
| Title |
NF_TC_4H_2 |
| Sample type |
SRA |
| |
|
| Source name |
Nod Factor 4h replicate 2
|
| Organism |
Medicago truncatula |
| Characteristics |
tissue: Root Hairs
age: 5 days
genotype: wild type A17
|
| Treatment protocol |
Nod Factors 4h and 20h
|
| Growth protocol |
in vitro culture: Media Fahraeus
|
| Extracted molecule |
total RNA |
| Extraction protocol |
100 Root Hairs (Qiagen_RNeasy.pdf)
RNA libraries were prepared for sequencing using standard Illumina protocols for TruSeq RNA (TruSeq_RNA_SamplePrep_v2_Guide_15026495_C.pdf); RNA- Seq in Paired-end, sizing 260 (polyA selection)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
HiSeq2000 multiplex
|
| Data processing |
Mapping with Bowtie2 version 2.0 with option –local against transcripts
count by gene: count only consistent paired-end reads
Genome_build: Medicago Transcripts, one transcript by gene : 50899 genes
Supplementary_files_format_and_content: Gene ID, Length of Gene, nb single reads, nb PE reads
|
| |
|
| Submission date |
Apr 15, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Véronique BRUNAUD |
| E-mail(s) |
[email protected]
|
| Organization name |
INRAE - CNRS - UPSUD
|
| Lab |
IPS2
|
| Street address |
rue Noetzlin
|
| City |
Gif-sur-Yvette |
| ZIP/Postal code |
91190 |
| Country |
France |
| |
|
| Platform ID |
GPL17491 |
| Series (1) |
| GSE67921 |
Transcriptomic response to Nod Factor treatments on Medicago |
|
| Relations |
| BioSample |
SAMN03486446 |
| SRA |
SRX996337 |
