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Sample GSM1416741 Query DataSets for GSM1416741
Status Public on Jun 10, 2015
Title MDR6 strain replicate 3
Sample type SRA
Source name wheat
Organism Zymoseptoria tritici
Characteristics strain: 09-ASA-3a pz
fungicide-phenotype: TriR6 MDR
Growth protocol strains were grown in liquid YPD during 60 h at 18°C and 140 rpm
Extracted molecule total RNA
Extraction protocol RNA was extracted using the RNeasy plant mini kit (Qiagen) and verified on 2100 Bioanalyzer (Agilent)
library prep with RNA Truseq Sample prep kit at sequencing provider IGA technologies, Udine, Italy
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing primary bioinformatics analysis for quality metrics control (Illumina pipeline vers. 1.9)
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped then mapped to reference genes (Mgraminicolav2.FrozenGeneCatalog20080910.transcripts)
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009.
Genome_build: Mgraminicolav2.FrozenGeneCatalog20080910.transcripts
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample.
Submission date Jun 19, 2014
Last update date May 15, 2019
Contact name Sabine Fillinger
Organization name INRA
Department UMR1290 BIOGER
Street address BP01
City Thiverval-Grignon
ZIP/Postal code 78850
Country France
Platform ID GPL18273
Series (1)
GSE58672 Next generation RNA sequencing to identify overexpressed transporter genes in Zymoseptoria tritici field strains
BioSample SAMN02867567
SRA SRX612455

Supplementary file Size Download File type/resource
GSM1416741_09-ASA-3apz-3.txt.gz 147.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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