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| Status |
Public on Dec 20, 2017 |
| Title |
Adult-specific trimethylation of histone H3 lysine 4 is prone to dynamic changes with aging in C. elegans somatic cells |
| Organism |
Caenorhabditis elegans |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Other
|
| Summary |
In this study, we profiled genome-wide pattern of tri-methylation of lysine 4 on histone H3 (H3K4me3) in the somatic cells of young and old C. elegans to investigate the changes of H3K4me3 during aging. In addition, we profiled H3K4me3 pattern in developmental stage L3. We found that H3K4me3 pattern in L3 is largely maintained in adults and the age-dynamic H3K4me3 are mainly adult stage specific. We profiled gene expression in young and old C. elegans somatic cells with ribo-RNAseq. The changes of H3K4me3 and RNA abundance are positively correlated.
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| Overall design |
We performed genome-wide mapping of histone H3 and H3K4me3 in larval stage L3, young adult (D2A) and old adult (D12A) C.elegans somatic cells by ChIP-seq. ribo-RNAseq was performed in young (D2A) and old (D12A) somatic cells to identify RNA expression changes during aging from D2A to D12A.
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| Contributor(s) |
Lee SS, Pu M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Jul 27, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Siu Sylvia Lee |
| E-mail(s) |
leelabcornell@gmail.com
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| Organization name |
Cornell University
|
| Street address |
520 Campus road
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14850 |
| Country |
USA |
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| Platforms (3) |
| GPL13657 |
Illumina HiSeq 2000 (Caenorhabditis elegans) |
| GPL18245 |
Illumina HiSeq 2500 (Caenorhabditis elegans) |
| GPL19757 |
Illumina NextSeq 500 (Caenorhabditis elegans) |
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| Samples (28)
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| Relations |
| BioProject |
PRJNA396031 |
| SRA |
SRP113700 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE101964_ribo_RNAseq_glp-1_D2_D12_genes.fpkm_tracking.gz |
1.3 Mb |
(ftp)(http) |
FPKM_TRACKING |
| GSE101964_subtract_D12K4rep3ChIP_vs_H3_rmdup.bw.gz |
26.8 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_D12K4rep4ChIP_vs_H3_rmdup.bw.gz |
26.5 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_D12K4rep5ChIP_vs_H3_rmdup.bw.gz |
26.6 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_D2K4rep3ChIP_vs_H3_rmdup.bw.gz |
27.1 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_D2K4rep4ChIP_vs_H3_rmdup.bw.gz |
26.4 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_D2K4rep5ChIP_vs_H3_rmdup.bw.gz |
27.0 Mb |
(ftp)(http) |
BW |
| GSE101964_subtract_L3K4me3ChIP_vs_H3_rmdup.bw.gz |
28.4 Mb |
(ftp)(http) |
BW |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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