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Series GSE59981 Query DataSets for GSE59981
Status Public on Mar 29, 2015
Title SRA of transcriptome of Hevea brasiliensis
Organism Hevea brasiliensis
Experiment type Expression profiling by high throughput sequencing
Summary We report here the use of next-generation massively parallel sequencing technologies and de novo transcriptome assembly to gain insight into the wide range of transcriptome of two Hevea brasiliensis clones (RY8-79 and PR107). The output of sequenced data showed that more than 26 million sequence reads with average length of 90nt were generated in both clones. Totally 51829 unigenes (mean size = 640 bp) were assembled through transcriptome de novo assembly, which represent more than 16-fold of all the sequences of Hevea brasiliensis deposited in the GenBank. Assembled sequences were annotated with gene descriptions, gene ontology and clusters of orthologous group terms. Base on limit rule with FDR≤0.001 and |log2 Ratio|≥1, 6726 different expression unigenes (3018 up and 3708 down) were detected as PR107 versus RY8-79. Functional analysis showed mass of categories were reprogrammed between two clones, which relate latex generation and expelling difference between them. As a comparative transcriptome analysis, the results obtained here will greatly expand our understanding of physiological differences among varieties in molecular level and will contribute t
 
Overall design The transcriptome of latex in Hevea brasiliensis
 
Contributor(s) Chao J, Chen Y, Tian W
Citation(s) 25928745
Submission date Jul 31, 2014
Last update date May 15, 2019
Contact name Jinquan Chao
E-mail(s) 278152670@qq.com
Organization name Chinese Academy of Tropical Agricultural Sciences
Department Rubber Research Institute
Street address Baodao Xincun
City Danzhou
ZIP/Postal code 571737
Country China
 
Platforms (1)
GPL11409 Illumina HiSeq 2000 (Hevea brasiliensis)
Samples (2)
GSM1462978 clone PR107
GSM1462979 clone RY8-79
Relations
BioProject PRJNA257219
SRA SRP045158

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE59981_VT879-vs-VT107.compare.xls.gz 987.4 Kb (ftp)(http) XLS
GSE59981_VT879-vs-VT107.diff.xls.gz 389.1 Kb (ftp)(http) XLS
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Raw data are available in SRA
Processed data are available on Series record

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