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Sample GSM2589121 Query DataSets for GSM2589121
Status Public on May 01, 2017
Title seeds harvested at stage 7.3
Sample type SRA
 
Source name seed
Organism Glycine max
Characteristics genetic background: BRS284
developmental stage: stage 7.3
treatment: fresh
Treatment protocol Seeds were freshly harvested and frozen inLN2 or subjected to fast drying by incubation at 40% RH at 30 ° C until they reached a moisture content of 10% (dry weight basis).
Growth protocol Soybean plants (Glycine max L. cv. BRS284) were grown using standard planting and cultural techniques in the experimental farm of São Paulo State University in Botucatu (Brazil) in two consecutive years (2012/2013; 2013/2014).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from while seeds using the NucleoSpin® RNA Plant kit (Macherey-Nagel)
cDNA libraries were generated using the TruSeq RNA sample preparation kit (Illumina, San Diego, CA, USA) to obtain single-end 100-bp long inserts
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description Gm_7.3
Data processing Sequencing adaptors and low complexity reads were removed in an initial filtering step.
After quality control, reads were mapped to the ‘Williams 82’ soybean reference genome (assembly Glyma.Wm82.a1.0, annotation v2.0) using Bowtie2
Three lanes of a sequencing flowcell were clustered using the TruSeq PE Cluster kit v3-cBot-HS kit (Illumina)
Genome_build: Glyma.Wm82.a1.0
 
Submission date Apr 25, 2017
Last update date May 15, 2019
Contact name Julia Buitink
E-mail(s) julia.buitink@inrae.fr
Phone +33241225544
Organization name INRAE
Department BAP
Lab SEED
Street address 42 rue Georges Morel
City Beaucouze
ZIP/Postal code 49070
Country France
 
Platform ID GPL19246
Series (1)
GSE98199 Expression profiling of Glycine max seed maturation by high throughput sequencing
Relations
BioSample SAMN06830777
SRA SRX2764642

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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