IHB OpenIR  > 水生生物分子与细胞生物学研究中心  > 期刊论文
Tetrahymena Functional Genomics Database (TetraFGD): an integrated resource for Tetrahymena functional genomics
Xiong, Jie1; Lu, Yuming1; Feng, Jinmei1,2; Yuan, Dongxia1; Tian, Miao1,3; Chang, Yue1,3; Fu, Chengjie1; Wang, Guangying1,3; Zeng, Honghui1; Miao, Wei1; Zeng, HH (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
2013-03-12
Source PublicationDATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION
ISSN1758-0463
Issue-Pages:bat008
AbstractThe ciliated protozoan Tetrahymena thermophila is a useful unicellular model organism for studies of eukaryotic cellular and molecular biology. Researches on T. thermophila have contributed to a series of remarkable basic biological principles. After the macronuclear genome was sequenced, substantial progress has been made in functional genomics research on T. thermophila, including genome-wide microarray analysis of the T. thermophila life cycle, a T. thermophila gene network analysis based on the microarray data and transcriptome analysis by deep RNA sequencing. To meet the growing demands for the Tetrahymena research community, we integrated these data to provide a public access database: Tetrahymena functional genomics database (TetraFGD). TetraFGD contains three major resources, including the RNA-Seq transcriptome, microarray and gene networks. The RNA-Seq data define gene structures and transcriptome, with special emphasis on exon-intron boundaries; the microarray data describe gene expression of 20 time points during three major stages of the T. thermophila life cycle; the gene network data identify potential gene-gene interactions of 15 049 genes. The TetraFGD provides user-friendly search functions that assist researchers in accessing gene models, transcripts, gene expression data and gene-gene relationships. In conclusion, the TetraFGD is an important functional genomic resource for researchers who focus on the Tetrahymena or other ciliates.; The ciliated protozoan Tetrahymena thermophila is a useful unicellular model organism for studies of eukaryotic cellular and molecular biology. Researches on T. thermophila have contributed to a series of remarkable basic biological principles. After the macronuclear genome was sequenced, substantial progress has been made in functional genomics research on T. thermophila, including genome-wide microarray analysis of the T. thermophila life cycle, a T. thermophila gene network analysis based on the microarray data and transcriptome analysis by deep RNA sequencing. To meet the growing demands for the Tetrahymena research community, we integrated these data to provide a public access database: Tetrahymena functional genomics database (TetraFGD). TetraFGD contains three major resources, including the RNA-Seq transcriptome, microarray and gene networks. The RNA-Seq data define gene structures and transcriptome, with special emphasis on exon-intron boundaries; the microarray data describe gene expression of 20 time points during three major stages of the T. thermophila life cycle; the gene network data identify potential gene-gene interactions of 15 049 genes. The TetraFGD provides user-friendly search functions that assist researchers in accessing gene models, transcripts, gene expression data and gene-gene relationships. In conclusion, the TetraFGD is an important functional genomic resource for researchers who focus on the Tetrahymena or other ciliates.
SubtypeArticle
KeywordGene-expression Rna Sequence Protein
Department[Xiong, Jie; Lu, Yuming; Feng, Jinmei; Yuan, Dongxia; Tian, Miao; Chang, Yue; Fu, Chengjie; Wang, Guangying; Zeng, Honghui; Miao, Wei] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China; [Feng, Jinmei] Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China; [Tian, Miao; Chang, Yue; Wang, Guangying] Univ Chinese Acad Sci, Beijing 100049, Peoples R China
DOI10.1093/database/bat008
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Funding OrganizationKnowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402]
Indexed BySCI
Language英语
WOS Research AreaMathematical & Computational Biology
WOS SubjectMathematical & Computational Biology
WOS IDWOS:000316173800001
WOS KeywordGENE-EXPRESSION ; RNA ; SEQUENCE ; PROTEIN
Funding OrganizationKnowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402] ; Knowledge Innovation Program of CAS [KSCX2-EW-G-6-4]; Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; open foundation of the State Key Laboratory of Genetics Resources and Evolution [GREKF10-09]; National Scientific Data Sharing Platform for population and health, biologic medicine information center of China [2005DKA32402]
Citation statistics
Cited Times:31[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/19339
Collection水生生物分子与细胞生物学研究中心_期刊论文
Corresponding AuthorZeng, HH (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China
2.Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming 650223, Peoples R China
3.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
Recommended Citation
GB/T 7714
Xiong, Jie,Lu, Yuming,Feng, Jinmei,et al. Tetrahymena Functional Genomics Database (TetraFGD): an integrated resource for Tetrahymena functional genomics[J]. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION,2013(-):bat008.
APA Xiong, Jie.,Lu, Yuming.,Feng, Jinmei.,Yuan, Dongxia.,Tian, Miao.,...&Zeng, HH .(2013).Tetrahymena Functional Genomics Database (TetraFGD): an integrated resource for Tetrahymena functional genomics.DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION(-),bat008.
MLA Xiong, Jie,et al."Tetrahymena Functional Genomics Database (TetraFGD): an integrated resource for Tetrahymena functional genomics".DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION .-(2013):bat008.
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