FifBase: a comprehensive fertility-associated indicators factor database for domestic animals

doi:10.1093/bib/bbaa432

	FifBase: a comprehensive fertility-associated indicators factor database for domestic animals
	Li, Hao 1; Hou, Junyao 1; Chen, Ziyu 1; Zeng, Jingyu 1; Ni, Yu 2; Li, Yayu 2; Xiao, Xia 1; Zhou, Yaqi 1; Zhang, Ning 1; Long, Deyu 1; Liu, Hongfei 3; Yang, Luyu 1; Bai, Xinyue4 ; Li, Qun 5; Li, Tongtong 1; Che, Dongxue 1; Li, Leijie 6; Wang, Xiaodan 7; Zhang, Peng 1; Liao, Mingzhi 1
	2021-09
发表期刊	BRIEFINGS IN BIOINFORMATICS (IF:6.8[JCR-2023],7.9[5-Year])
ISSN	1467-5463
EISSN	1477-4054
卷号	22 期号:5
DOI	10.1093/bib/bbaa432
摘要	Fertility refers to the ability of animals to maintain reproductive function and give birth to offspring, which is an important indicator to measure the productivity of animals. Fertility is affected by many factors, among which environmental factors may also play key roles. During the past years, substantial research studies have been conducted to detect the factors related to fecundity, including genetic factors and environmental factors. However, the identified genes associated with fertility from countless previous studies are randomly dispersed in the literature, whereas some other novel fertility-related genes are needed to detect from omics-based datasets. Here, we constructed a fertility index factor database FifBase based on manually curated published literature and RNA-Seq datasets. During the construction of the literature group, we obtained 3301 articles related to fecundity for 13 species from PubMed, involving 2823 genes, which are related to 75 fecundity indicators or 47 environmental factors. Eventually, 1558 genes associated with fertility were filtered in 10 species, of which 1088 and 470 were from RNA-Seq datasets and text mining data, respectively, involving 2910 fertility-gene pairs and 58 fertility-environmental factors. All these data were cataloged into FifBase (http://www.nwsuaflmz.com/FifBase/), where the fertility-related factor information, including gene annotation and environmental factors, can be browsed, retrieved and downloaded with the user-friendly interface.
关键词	biological database domestic animal fertility genetic factors environmental factors
收录类别	SCIE
语种	英语
WOS研究方向	Biochemistry & Molecular Biology ; Mathematical & Computational Biology
WOS类目	Biochemical Research Methods ; Mathematical & Computational Biology
WOS记录号	WOS:000709461800035
出版者	OXFORD UNIV PRESS
原始文献类型	Review
引用统计	正在获取...
文献类型	期刊论文
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/131981
专题	生命科学与技术学院_硕士生
通讯作者	Liao, Mingzhi
作者单位	1.Northwest A&F Univ, Coll Life Sci, Yangling 712100, Shaanxi, Peoples R China; 2.Northwest A&F Univ, Coll Informat Engn, Yangling, Shaanxi, Peoples R China; 3.Northwest A&F Univ, Coll Anim Sci & Technol, Yangling, Shaanxi, Peoples R China; 4.ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai, Peoples R China; 5.Fudan Univ, Inst Biomed Sci, Shanghai, Peoples R China; 6.Shanghai Jiao Tong Univ, SJTU Yale Joint Ctr Biostat, Dept Bioinformat & Biostat, Shanghai, Peoples R China; 7.Tsinghua Univ, Sch Life Sci, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Li, Hao,Hou, Junyao,Chen, Ziyu,et al. FifBase: a comprehensive fertility-associated indicators factor database for domestic animals[J]. BRIEFINGS IN BIOINFORMATICS,2021,22(5).
APA	Li, Hao.,Hou, Junyao.,Chen, Ziyu.,Zeng, Jingyu.,Ni, Yu.,...&Liao, Mingzhi.(2021).FifBase: a comprehensive fertility-associated indicators factor database for domestic animals.BRIEFINGS IN BIOINFORMATICS,22(5).
MLA	Li, Hao,et al."FifBase: a comprehensive fertility-associated indicators factor database for domestic animals".BRIEFINGS IN BIOINFORMATICS 22.5(2021).