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SRX487579: GSM1347701: Siliques_Stage3; Arabidopsis thaliana; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2000) run: 105.1M spots, 21.2G bases, 13.3Gb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Transcriptome profiling of siliques at 4 developmental stages in Arabidopsis
show Abstracthide Abstract
To search for the differential expressed genes during postferlization and embryonic development in Arabidopsis, We profiled transcriptome of siliques at 4 developmental stages using RNA-seq based on poly(A) selection. Each RNA library yielded 100 million 101-bp paired-end reads.Using Tophat and Cufflinks with the Arabidopsis TAIR10 annotation as reference, we identifed 33,451 assembled transcripts in 4 samples. Of them, 5,608 were up-regulated genes in at least one sample. A group of them are preferentially expressed at mature green-stage of seeds. Overall design: Transcriptome profiling in 0-5 day, 6-10 day, 11-15 day and 16-20 day post-anthesis siliques
Sample: Siliques_Stage3
SAMN02688793 • SRS570918 • All experiments • All runs
Instrument: Illumina HiSeq 2000
Strategy: RNA-Seq
Selection: cDNA
Layout: PAIRED
Construction protocol: Total RNAs were extracted using Trizol reagent (Invitrogen, USA). Total RNA was treated with TURBO DNase I (Ambion, USA) for 30 min and purified using RNeasy® Plant Mini Kit (QIAGEN, Germany). RNA sequence libraries were prepared with TruSeq RNA sample Prep V2 kit according to the instructions (Illumina). The quality and size of cDNA libraries for sequencing were checked using the Agilent 2200 TapeStation system (Agilent Inc.).We sequenced the samples using HiSeq 2000 sequencing system (illumine Inc.) with 100-cycle paired-end sequencing protocol.
Experiment attributes:
GEO Accession: GSM1347701
External link:
Runs: 1 run, 105.1M spots, 21.2G bases, 13.3Gb
Run# of Spots# of BasesSizePublished


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