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Series GSE37893 Query DataSets for GSE37893
Status Public on May 11, 2012
Title Methylation Changes in Soybean Early Maturation Seed Compartments Using Laser Capture Microdissection (LCM)
Organism Glycine max
Experiment type Methylation profiling by high throughput sequencing
Summary What methylation changes are occurring in different compartments of early maturation stage seed largely remains unknown. To uncover the possible role of DNA methylation in different compartments of early maturation stage seed, we characterized the methylome of two major compartments (abaxial parenchyma and adaxial parenchyma) in embryonic cotyledon, four major compartments (parenchyma, plumule, root tip, and vascular) in embryonic axis, and seed coat layers (parenchyma and palisade) using Illumina sequencing. The whole seed coat and embryonic cotyledons were captured using LCM to serve as controls.
 
Overall design Illumina sequencing of bisulfite-converted genomic DNA from cotyledon abaxial parenchyma (EM-COT-ABPY), cotyledon adaxial parenchyma (EM-COT-ADPY), seed coat parenchyma (EM-SC-PY), seed coat palisade (EM-SC-PA), axis parenchyma (EM-AX-PY), axis plumule (EM-AX-PL), axis root tip (EM-AX-RT), axis vascular (EM-AX-VS), whole seed coat (EM-SC), and whole embryonic cotyledons (EX-COT)
 
Contributor(s) Goldberg RB, Chen M, Lin JY, Le BH, Hur J
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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)
GSM929624 early maturation-stage cotyledon abaxial parenchyma compartment
GSM929625 early maturation-stage cotyledon adaxial parenchyma compartment
GSM1388204 early maturation-stage seed coat palisade
Relations
SRA SRP012990
BioProject PRJNA165675

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
GSE37893_RAW.tar 9.3 Gb (http)(custom) TAR (of TXT)
GSE37893_README.txt 673 b (ftp)(http) TXT
Raw data are available in SRA
Processed data provided as supplementary file

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