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TranscriptomicsTranscriptome profiling of siliques at 4 developmental stages in Arabidopsis
To search for the differential expressed genes during post-fertilization 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 C...
ORGANISM(S): Arabidopsis thaliana 
2016-03-28 | E-GEOD-55866 | biostudies-arrayexpress
TranscriptomicsIdentification of long ncRNAs using RNA-seq in Arabidopsis
We profiled Arabidopsis transcriptom using RNA-seq. Each RNA library yielded 223-250 million 101-bp single-end reads (235M on average). Using Tophat and Cufflinks, 30,199~30,650 assembled transcripts were identified in each of 4 samples. Of them, 1340 ones were derived from intergenic regions includ...
ORGANISM(S): Arabidopsis thaliana 
2012-08-23 | E-GEOD-38612 | biostudies-arrayexpress
TranscriptomicsIdentification of CLF-regulated transcripts using strand-specific RNA-sequencing in Arabidopsis
CURLY LEAF (CLF), the major histone methyltransferase of Polycomb Repressive Complex 2 (PRC2), modifies trimethylation of histone H3 lysine 27 (H3K27me3) and mediates dynamical chromatin repression in Arabidopsis. Here we used strand specific RNA-sequencing to profile Arabidopsis transcriptomes obta...
ORGANISM(S): Arabidopsis thaliana 
2016-03-28 | E-GEOD-61545 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling of noncoding RNAs in maize (paired-end)
To identificate long noncoding RNAs in maize, we profiled transcriptome of shoots and roots using non-directional paired-end RNA-seq based on poly(A) selection. Transcriptom profiling in maize shoots and roots.
ORGANISM(S): Zea mays subsp. mays 
2015-11-25 | E-GEOD-56459 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling of noncoding RNAs in maize (single-end)
To identificate long noncoding RNAs in maize, we profiled transcriptome of shoots and roots using stranded single-end RNA-seq based on poly(A) selection. Transcriptom profiling in maize shoots and roots.
ORGANISM(S): Zea mays subsp. mays 
2015-11-25 | E-GEOD-56460 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling of various organs at different developmental stages in rice (single-end)
To identificate long noncoding RNAs in rice, we profiled transcriptome of various organs at different developmental stages using stranded single-end RNA-seq based on poly(A) selection. Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flowering,...
ORGANISM(S): Oryza sativa Japonica Group 
2015-11-25 | E-GEOD-56463 | biostudies-arrayexpress
TranscriptomicsTranscriptome profiling of various organs at different developmental stages in rice (paired-end)
To identificate long noncoding RNAs in rice, we profiled transcriptome of various organs at different developmental stages using nondirectional paired-end RNA-seq based on poly(A) selection. Transcriptom profiling in flower buds, flowers, flag leaves and roots sampled before flowering and after flow...
ORGANISM(S): Oryza sativa Japonica Group 
2015-11-25 | E-GEOD-56462 | biostudies-arrayexpress
TranscriptomicsIdentification of CLF-regulated transcripts in embryos at the mature-green stage by strand-specific RNA-sequencing in Arabidopsis
CURLY LEAF (CLF), the major histone methyltransferase of Polycomb Repressive Complex 2 (PRC2), modifies trimethylation of histone H3 lysine 27 (H3K27me3) and mediates dynamical chromatin repression in Arabidopsis. Our previous results suggested that CLF may play regulatory roles on seed size and lip...
ORGANISM(S): Arabidopsis thaliana 
2016-03-28 | E-GEOD-68080 | biostudies-arrayexpress
TranscriptomicssmRNA under high osmotic stress
To identifiy osmotic stress responsive smRNAs, we used a deep-sequencing technique to profile small RNA populations in leaf and root tissues of plants under high osmotic stress and control conditions. We treated 30day-old plants with high osmotic stress and sampled leaves and roots from the same pla...
ORGANISM(S): Arabidopsis thaliana 
2012-09-19 | E-GEOD-36560 | biostudies-arrayexpress
TranscriptomicsTranscriptome Profiling of Roots and leaves Under High Osmotic Stress in Arabidopsis
The functions of miRNAs and their target mRNAs in Arabidopsis development have been widely documented, however, roles of stress responsive miRNAs and their targets are not as well understood. Using small RNA deep sequencing and ATH1 microarrays to profile mRNAs, we identified IAR3 (IAA-Ala Resistant...
ORGANISM(S): Arabidopsis thaliana 
2012-09-19 | E-GEOD-36789 | biostudies-arrayexpress
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