SRX062325 GSM721725: Globular Stage Whole Seed SRP006767 GSE29163 SRS192964 GSM721725: Globular Stage Whole Seed RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721725 GEO Accession GSM721725 SRX062326 GSM721726: Heart Stage Whole Seed SRP006767 GSE29163 SRS192965 GSM721726: Heart Stage Whole Seed RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721726 GEO Accession GSM721726 SRX062327 GSM721727: Cotyledon Stage Whole Seed SRP006767 GSE29163 SRS192966 GSM721727: Cotyledon Stage Whole Seed RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721727 GEO Accession GSM721727 SRX062328 GSM721728: Early-Maturation Stage Whole Seed SRP006767 GSE29163 SRS192967 GSM721728: Early-Maturation Stage Whole Seed RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721728 GEO Accession GSM721728 SRX062329 GSM721729: Dry Whole Seed SRP006767 GSE29163 SRS192968 GSM721729: Dry Whole Seed RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721729 GEO Accession GSM721729 SRX062330 GSM721730: Leaf SRP006767 GSE29163 SRS192969 GSM721730: Leaf RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721730 GEO Accession GSM721730 SRX062331 GSM721731: Root SRP006767 GSE29163 SRS192970 GSM721731: Root RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721731 GEO Accession GSM721731 SRX062332 GSM721732: Stem SRP006767 GSE29163 SRS192971 GSM721732: Stem RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721732 GEO Accession GSM721732 SRX062333 GSM721733: Floral Bud SRP006767 GSE29163 SRS192972 GSM721733: Floral Bud RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721733 GEO Accession GSM721733 SRX062334 GSM721734: Seedling SRP006767 GSE29163 SRS192973 GSM721734: Seedling RNA-Seq TRANSCRIPTOMIC cDNA 76 0 Application Read Forward 1 Illumina HiSeq 2000 gds 300721734 GEO Accession GSM721734 SRX3067925 GSM2734729 SRP006767 SRS2412496 GSM2734729 RNA-Seq TRANSCRIPTOMIC cDNA Collected tissues were quickly frozen in liquid nitrogen and ground to a fine powder using a mortar and pestle. Total RNA was isolated from the powder using the Concert Plant RNA Reagent (Invitrogen, Carlsbad, CA) according to the manufacturerâs instructions. Isolated total RNA was treated with RNase-free DNase I (Ambion, Austin, TX) and was subjected to two rounds of poly-A+ RNA selection using oligo-d(T)25 magnetic beads (Dynabeads, Invitrogen, Carlsbad, CA). Sequencing libraries were prepared using 100 nanograms of twice-selected polyA+ RNA following the Illumina mRNA-Seq Protocol (Part #1004898 Rev. D). Briefly, polyA+ RNA was fragmented and used as template for random-primed cDNA synthesis. Double-stranded cDNAs were treated with T4 and Klenow DNA Polymerases and T4 PNK to generate blunt-end cDNAs. An 'A' base was added to the 3â ends of the phosphorylated blunt-end cDNAs, followed by the ligation of Illumina adapters. Adapter-ligated cDNAs were size selected on an agarose gel for the desired size of ~ 200 bp. Purified cDNAs were amplified by PCR for 15 cycles. Quantification of cDNA libraries was carried out using a Nanodrop ND-3300 Fluoro-spectrophotometer (Thermo Scientific, Waltham, MA). Amplified cDNA size was determined by agarose gel electrophoresis. Single-end 76-bp reads were generated for each library by the UCLA Genome Sequencing Center (http://gsc.ucla.edu/) using an Illumina Genome Analyzer IIx and HiSeq 2000. Illumina HiSeq 2000 gds 302734729 GSM2734729 GEO Accession GSM2734729 SRX3067926 GSM2734730 SRP006767 SRS2412495 GSM2734730 RNA-Seq TRANSCRIPTOMIC cDNA Collected tissues were quickly frozen in liquid nitrogen and ground to a fine powder using a mortar and pestle. Total RNA was isolated from the powder using the Concert Plant RNA Reagent (Invitrogen, Carlsbad, CA) according to the manufacturerâs instructions. Isolated total RNA was treated with RNase-free DNase I (Ambion, Austin, TX) and was subjected to two rounds of poly-A+ RNA selection using oligo-d(T)25 magnetic beads (Dynabeads, Invitrogen, Carlsbad, CA). Sequencing libraries were prepared using 100 nanograms of twice-selected polyA+ RNA following the Illumina mRNA-Seq Protocol (Part #1004898 Rev. D). Briefly, polyA+ RNA was fragmented and used as template for random-primed cDNA synthesis. Double-stranded cDNAs were treated with T4 and Klenow DNA Polymerases and T4 PNK to generate blunt-end cDNAs. An 'A' base was added to the 3â ends of the phosphorylated blunt-end cDNAs, followed by the ligation of Illumina adapters. Adapter-ligated cDNAs were size selected on an agarose gel for the desired size of ~ 200 bp. Purified cDNAs were amplified by PCR for 15 cycles. Quantification of cDNA libraries was carried out using a Nanodrop ND-3300 Fluoro-spectrophotometer (Thermo Scientific, Waltham, MA). Amplified cDNA size was determined by agarose gel electrophoresis. Single-end 76-bp reads were generated for each library by the UCLA Genome Sequencing Center (http://gsc.ucla.edu/) using an Illumina Genome Analyzer IIx and HiSeq 2000. Illumina HiSeq 2000 gds 302734730 GSM2734730 GEO Accession GSM2734730