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| Status |
Public on Sep 24, 2022 |
| Title |
Whole-genome bisulfite sequencing and histone 3.3 ChIP-seq of microdissected developing mouse lens |
| Organism |
Mus musculus |
| Experiment type |
Methylation profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Using whole genome bisulfite sequencing (WGBS), we investigated dynamics of DNA methylation and chromatin changes during mouse lens fiber and epithelium differentiation between embryos (E14.5) and newborns (P0.5) using microdissected lenses. Histone H3.3 variant chromatin landscapes were also generated by ChIP-seq using microdissected newborn lenses.
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| Overall design |
Whole-genome bisulfite sequencing (WGBS) of DNA methylation in microdissected mouse lens epithelium and fiber in embryonic (E14.5) and newborn (P0.5) mice, and histone 3.3 ChIP-seq of microdissected lens epithelium and fiber in newborn mice (P1)
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| Contributor(s) |
Chang WK, Zhao Y, Rayee D, Xie Q, Suzuki M, Zheng D, Cvekl A |
| Citation(s) |
36698218, 38643244 |
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| Submission date |
Sep 21, 2022 |
| Last update date |
May 17, 2024 |
| Contact name |
William Chang |
| E-mail(s) |
william.chang@einsteinmed.edu, williamkurtischang@gmail.com
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| Phone |
4107331644
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| Organization name |
Albert Einstein College of Medicine
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| Department |
Ophthalmology
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| Lab |
Cvekl
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| Street address |
1301 Morris Park Ave
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| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (17)
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| GSM6596307 |
E14.5 lens fiber, WGBS, rep1 |
| GSM6596308 |
E14.5 lens fiber, WGBS, rep2 |
| GSM6596309 |
E14.5 lens fiber, WGBS, rep3 |
| GSM6596310 |
P0.5 lens epithelium, WGBS, rep1 |
| GSM6596311 |
P0.5 lens epithelium, WGBS, rep2 |
| GSM6596312 |
P0.5 lens epithelium, WGBS, rep3 |
| GSM6596313 |
P0.5 lens fiber, WGBS, rep1 |
| GSM6596314 |
P0.5 lens fiber, WGBS, rep2 |
| GSM6596315 |
P0.5 lens fiber, WGBS, rep3 |
| GSM6596316 |
P1 lens epithelium, H3.3 ChIP-seq, rep1 |
| GSM6596317 |
P1 lens epithelium, H3.3 ChIP-seq, rep2 |
| GSM6596318 |
P1 lens fiber, H3.3 ChIP-seq, rep1 |
| GSM6596319 |
P1 lens fiber, H3.3 ChIP-seq, rep2 |
| GSM6596320 |
P1 lens H3.3 ChIP-seq, control |
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| Relations |
| BioProject |
PRJNA882908 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE213901_RAW.tar |
4.0 Gb |
(http)(custom) |
TAR (of BED, BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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