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| Status |
Public on Nov 23, 2021 |
| Title |
Genome-wide Analysis of Sp6/Epiprofin DNA Binding Sites in the Developing Mouse Molar Using ChIP-seq Analysis |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
In this study, whole-genome ChIP-seq analysis was performed to identify Sp6 regulatory targets from postnatal mouse molars. Enriched sequence reads (peaks) from Sp6 immunoprecipitations were located predominately adjacent to transcriptional start sites. Notably enriched for Sp6 peaks were genes highly-expressed in the tooth. Bioinformatic analysis of two pools of 1400 Sp6 enriched sequences identified a consensus nine-nucleotide DNA pulldown sequence of CTg/aTAATTA from mesenchyme and the nearly identical sequence, CTa/gTAATTA, from epithelium. Sp6 AT-rich interaction sequences are nearly identical to the ChIP-seq enriched sequences reported for Sp7 and Sp9. ChIP-seq analysis indicates Sp6 regulates a significant number of genes expressed in the tooth.
GSE145909 is the original submission. GSE151391 is also from the same study.
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE151391
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| Overall design |
Analysis of Sp6 DNA binding in dental epithelium and dental mesenchyme using ChIP-seq analysis
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| Contributor(s) |
Yoshitomi Y, Rhodes CS, Freese NH, Nakamura T, Chiba Y, Yamada Y |
| Citation(s) |
34662808 |
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| Submission date |
Feb 25, 2020 |
| Last update date |
Nov 24, 2021 |
| Contact name |
Yasuo Yoshitomi |
| E-mail(s) |
yositomi@icloud.com
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| Organization name |
NIH
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| Department |
NIDCR
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| Street address |
30 Convent Dr.
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA608714 |
| SRA |
SRP250706 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE145909_RAW.tar |
583.0 Mb |
(http)(custom) |
TAR (of BAR, BED, XLSX) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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