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| Status |
Public on Dec 16, 2021 |
| Title |
Smad3 binding regions in human epidermal keratinocytes (HaCaT). |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Smad proteins transduce signals downstream of transforming growth factor-b (TGF-b), and are one of the factors that regulate the expression of genes related to diseases affecting the skin. In the present study, we identified MAB21L4, also known as male abnormal 21 like 4 or C2orf54, as one of the most up-regulated targets of TGF-b and Smad3 in differentiated human progenitor epidermal keratinocytes using chromatin immunoprecipitation sequencing (ChIP-seq) and RNA sequencing (RNA-seq). Smad2 and Smad3 bound to the regulatory regions of the MAB21L4 gene locus. We found that TGF-b induced expression of the barrier protein involucrin (encoded by the IVL gene). Transcriptional activity of the IVL promoter induced by TGF-b was inhibited by siRNAs for MAB21L4. Further analysis revealed that MAB21L4 siRNAs also down-regulated the expression of several target genes of TGF-b. MAB21L4 protein was located mainly in the cytosol, where it was physically bound to Smad3 and a transcriptional corepressor c-Ski. siRNAs for MAB21L4 did not inhibit the binding of Smad3 to their target genomic regions but down-regulated acetylation of histone H3 lys 27 (H3K27ac), an active enhancer mark, near the Smad3 binding regions. These findings suggest that TGF-b-induced MAB21L4 up-regulates the gene expression induced by TGF-b, possibly through physical interactions with a transcriptional corepressor c-Ski in the cytosol.
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| Overall design |
Smad3 and Smad2 ChIP samples were sequenced for analysis.
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| Contributor(s) |
Ogami T, Tamura Y, Tsutsumi S, Aburatani H, Miyazawa K, Miyazono K, Koinuma D |
| Citation(s) |
34908107 |
| Submission date |
Nov 22, 2021 |
| Last update date |
Dec 18, 2021 |
| Contact name |
Daizo Koinuma |
| E-mail(s) |
d-koinuma@umin.ac.jp
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| Organization name |
University of Tokyo
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| Department |
Pathology
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| Street address |
Hongo 7-3-1, Bunkyo-ku
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| City |
Tokyo |
| ZIP/Postal code |
113-0033 |
| Country |
Japan |
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| Platforms (2) |
| GPL17301 |
Ion Torrent PGM (Homo sapiens) |
| GPL17303 |
Ion Torrent Proton (Homo sapiens) |
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| Samples (5)
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| GSM5698659 |
Smad3 binding region in HaCaT cells stimulated with TGF-beta, replicate 1 |
| GSM5698660 |
Smad3 binding region in HaCaT cells stimulated with TGF-beta, replicate 2 |
| GSM5698661 |
control genomic data in HaCaT cells |
| GSM5698662 |
Smad2 binding region in HaCaT cells stimulated with TGF-beta, replicate 1 |
| GSM5698663 |
Smad2 binding region in HaCaT cells stimulated with TGF-beta, replicate 2 |
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| This SubSeries is part of SuperSeries: |
| GSE180252 |
ChIP-seq and RNA-seq of Human progenitor epidermal keratinocytes (HPEK) and HaCaT cells |
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| Relations |
| BioProject |
PRJNA782488 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE189303_RAW.tar |
592.2 Mb |
(http)(custom) |
TAR (of BED, BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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