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Series GSE37895 Query DataSets for GSE37895
Status Public on May 11, 2012
Title Methylation Changes in Soybean Early Maturation Seed Parts
Organism Glycine max
Experiment type Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Seeds are comprised of three majors parts of distinct parental origin: the seed coat, embryo, and endosperm. The maternally-derived seed coat is important for nurturing and protecting the seeds during development. By contrast, the embryo and the endosperm are derived from a double fertilization event, where one sperm fertilizes the egg to form the diploid zygote and the other sperm fertilizes the central cell to form the triploid endosperm. Each seed parts undergo distinct developmental programs during seed development. What methylation changes occurring in the different seed parts, if any, remains unknown. To uncover the possible role of DNA methylation in different parts of the seed, we characterized the methylome of three major parts of an early maturation stage seed: seed coat, embryonic cotyledons, and embryonic axis using Illumina sequencing.
 
Overall design Illumina sequencing of bisulfite-converted genomic DNA, transcripts, and small RNAs from three parts of an early maturation stage seed: seed coat (EM-SC), embryonic cotyledons (EM-COT), and embryonic axis (EM-AX).
 
Contributor(s) Goldberg RB, Chen M, Lin J, Le BH
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Submission date May 10, 2012
Last update date Dec 07, 2016
Contact name Bob Goldberg
E-mail bobglab@mcdb.ucla.edu
Phone 310-825-3270
Organization name University of California, Los Angeles
Department Molecular, Cell and Developmental Biology
Street address 610 Charles E Young Drive East
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platforms (1)
GPL15008 Illumina HiSeq 2000 (Glycine max)
Samples (10)
GSM929633 Early maturation-stage embryonic cotyledons
GSM929634 Early maturation-stage embryonic axis
GSM1213855 Early maturation-stage seed coat [RNA-seq]
Relations
SRA SRP012991
BioProject PRJNA165677

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
GSE37895_LCMmethylome_readme.txt 672 b (ftp)(http) TXT
GSE37895_RAW.tar 4.3 Gb (http)(custom) TAR (of TXT)
GSE37895_processed_readme.txt 672 b (ftp)(http) TXT
Raw data are available in SRA
Processed data provided as supplementary file

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