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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Dec 29, 2016 |
| Title |
WTSUC2_rep1 |
| Sample type |
SRA |
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| Source name |
Seedlings
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| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype/variation: WTSUC2
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs of were isolated by Trizol reagent (Invitrogen), and were treated with DNase I (Ambion) to remove DNA. mRNAs were enriched with Oligo (dT)-conjugated magnetic beads and were then sent to the Genomics Core Facilities of the Shanghai Center for Plant Stress Biology, SIBS, CAS (Shanghai, China) for library preparation and Illumina sequencing.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Data processing |
Read were aligned to reference genome using TopHat.
TDF files were generated by IGVTools
Genome_build: TAIR10
Supplementary_files_format_and_content: TDF files with read coverage
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| Submission date |
Oct 28, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jian-Kang Zhu |
| E-mail(s) |
zhu132@purdue.edu
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| Organization name |
Purdue University
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| Department |
Department of Horticulture and Landscape Architecture
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| Street address |
625 Agriculture Mall Dr.
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| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47907 |
| Country |
USA |
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| Platform ID |
GPL17639 |
| Series (2) |
| GSE89291 |
RNA-seq data for hdp1-1 and hdp2-1 mutants |
| GSE89320 |
A Pair of Transposon-derived Proteins Function in A Histone Acetyltransferase Complex for Active DNA Demethylation |
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| Relations |
| BioSample |
SAMN05954294 |
| SRA |
SRX2310509 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2364845_tophat_DCGR002_WTSUC2_rep1_20150729.tdf |
11.2 Mb |
(ftp)(http) |
TDF |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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