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Series GSE99882 Query DataSets for GSE99882
Status Public on Jul 12, 2017
Title Identification of LEC1 binding sites in soybean embryos at 3 developmental stages
Organism Glycine max
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary LEAFY COTYLEDON1 (LEC1), an atypical subunit of the NF-Y CCAAT binding transcription factor, is a central regulator that controls many aspects of seed development including the maturation phase during which seeds accumulate storage macromolecules and embryos acquire the ability to withstand desiccation. To define the gene network and developmental processes controlled by LEC1, genes regulated directly by and downstream of LEC1 were identified. In order to identify the genes bound by LEC1 in soybean embryos, we used two antibodies specific for soybean LEC1 (GmLEC1) and performed chromatin immunoprecipitation followed by sequencing (ChIP-Seq) using chromatin isolated from soybean embryos at the cotyledon, early maturation and mid-maturation stages.
Overall design Identification of LEC1 binding sites in soybean embryos at 3 developmental stages (cotyledon, early maturation and mid-maturation), using two distinct antibodies directed against soybean LEC1 (GmLEC1). ChIP and total chromatin controls (input) were obtained for two biological replicates for each stage/antibody combinations. A total of 16 samples were sequenced using the Illumina HiSeq2000 platform.
Contributor(s) Pelletier J, Baden R, Cagliari A, Golberg RB, Harada JJ
Citation(s) 28739919
Submission date Jun 09, 2017
Last update date Jun 27, 2019
Contact name John Harada
Organization name University of California
Department Plant Biology
Lab Harada lab
Street address One Shields Avenue
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platforms (1)
GPL15008 Illumina HiSeq 2000 (Glycine max)
Samples (16)
GSM2656696 GmCOT_GmLEC1-ChIP_br1
GSM2656697 GmCOT_GmLEC1-ChIP_br2
GSM2656698 GmCOT_GmLEC1-input_br1
BioProject PRJNA389820
SRA SRP108900

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Supplementary file Size Download File type/resource
GSE99882_LEC1-COT_Gmax275_peak.bed.gz 763.7 Kb (ftp)(http) BED
GSE99882_LEC1-EM_Gmax275_peak.bed.gz 813.0 Kb (ftp)(http) BED
GSE99882_LEC1-MM_Gmax275_peak.bed.gz 964.5 Kb (ftp)(http) BED
GSE99882_LEC1pep-EM_Gmax275_peak.bed.gz 765.9 Kb (ftp)(http) BED
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