mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors

Abstract Transcription factors (TFs) are well-known important regulators in cell biology and tissue development. However, in mouse, one of the most widely-used model species, currently the vast majority of the known TFs have not been functionally studied due to the lack of sufficient annotations. To...

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Autores principales:	Kun Sun, Huating Wang, Hao Sun
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0c8b9122fb4143ffa26a8a29c997e893
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spelling	oai:doaj.org-article:0c8b9122fb4143ffa26a8a29c997e8932021-12-02T16:07:47ZmTFkb: a knowledgebase for fundamental annotation of mouse transcription factors10.1038/s41598-017-02404-w2045-2322https://doaj.org/article/0c8b9122fb4143ffa26a8a29c997e8932017-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-02404-whttps://doaj.org/toc/2045-2322Abstract Transcription factors (TFs) are well-known important regulators in cell biology and tissue development. However, in mouse, one of the most widely-used model species, currently the vast majority of the known TFs have not been functionally studied due to the lack of sufficient annotations. To this end, we collected and analyzed the whole transcriptome sequencing data from more than 30 major mouse tissues and used the expression profiles to annotate the TFs. We found that the expression patterns of the TFs are highly correlated with the histology of the tissue types thus can be used to infer the potential functions of the TFs. Furthermore, we found that as many as 30% TFs display tissue-specific expression pattern, and these tissue-specific TFs are among the key TFs in their corresponding tissues. We also observed signals of divergent transcription associated with many TFs with unique expression pattern. Lastly, we have integrated all the data, our analysis results as well as various annotation resources to build a web-based database named mTFkb freely accessible at http://www.myogenesisdb.org/mTFkb/ . We believe that mTFkb could serve as a useful and valuable resource for TF studies in mouse.Kun SunHuating WangHao SunNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-11 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Kun Sun Huating Wang Hao Sun mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
description	Abstract Transcription factors (TFs) are well-known important regulators in cell biology and tissue development. However, in mouse, one of the most widely-used model species, currently the vast majority of the known TFs have not been functionally studied due to the lack of sufficient annotations. To this end, we collected and analyzed the whole transcriptome sequencing data from more than 30 major mouse tissues and used the expression profiles to annotate the TFs. We found that the expression patterns of the TFs are highly correlated with the histology of the tissue types thus can be used to infer the potential functions of the TFs. Furthermore, we found that as many as 30% TFs display tissue-specific expression pattern, and these tissue-specific TFs are among the key TFs in their corresponding tissues. We also observed signals of divergent transcription associated with many TFs with unique expression pattern. Lastly, we have integrated all the data, our analysis results as well as various annotation resources to build a web-based database named mTFkb freely accessible at http://www.myogenesisdb.org/mTFkb/ . We believe that mTFkb could serve as a useful and valuable resource for TF studies in mouse.
format	article
author	Kun Sun Huating Wang Hao Sun
author_facet	Kun Sun Huating Wang Hao Sun
author_sort	Kun Sun
title	mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
title_short	mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
title_full	mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
title_fullStr	mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
title_full_unstemmed	mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors
title_sort	mtfkb: a knowledgebase for fundamental annotation of mouse transcription factors
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/0c8b9122fb4143ffa26a8a29c997e893
work_keys_str_mv	AT kunsun mtfkbaknowledgebaseforfundamentalannotationofmousetranscriptionfactors AT huatingwang mtfkbaknowledgebaseforfundamentalannotationofmousetranscriptionfactors AT haosun mtfkbaknowledgebaseforfundamentalannotationofmousetranscriptionfactors
_version_	1718384698996031488

mTFkb: a knowledgebase for fundamental annotation of mouse transcription factors

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