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| Status |
Public on Aug 30, 2019 |
| Title |
ATAC-Seq Profiling of Open Chromatin Regions in Soybean Early-Maturation Embryos |
| Organism |
Glycine max |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Transcription Factors are bound to the nucleosome-depleted region or open chormatin. ATAC-Seq can help us to dissect the interactions among TFs which are important for soybean seed development.
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| Overall design |
Nuclei were isolated from soybean early-maturation embryos. Early maturation embryos were hand-dissected and collected from the seed with 6-7mm in length. ATAC-seq was performed on isolated nuclei from two biological replicates.
For each replicate, the library was sequenced in single-end (Run 1) and and in paired-end mode (Run 2). Only paired-end files were used in the analysis.
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| Contributor(s) |
Goldberg RB, Harada JJ, Apuya N, Jo L, Chen M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Aug 29, 2019 |
| Last update date |
Aug 31, 2019 |
| Contact name |
Bob Goldberg |
| E-mail(s) |
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 |
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| Platforms (1) |
| GPL15008 |
Illumina HiSeq 2000 (Glycine max) |
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| Samples (4)
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| GSM4054459 |
early-maturation embryo replicate 1_single-end (Run 1) |
| GSM4054460 |
early-maturation embryo replicate 1_paired-end (Run 2) |
| GSM4054461 |
early-maturation embryo replicate 2_single-end (Run 1) |
| GSM4054462 |
early-maturation embryo replicate 2_paired-end (Run 2) |
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| Relations |
| BioProject |
PRJNA562918 |
| SRA |
SRP219844 |
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