AnimalTFDB 3.0: a comprehensive resource for annotation and prediction of animal transcription factors.
AnimalTFDB 3.0: a comprehensive resource for annotation and prediction of animal transcription factors.
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DOI：
10.1093/nar/gky822
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发表时间：
2019-01-08
影响因子：
14.9
通讯作者：
Guo AY
中科院分区：
文献类型：
--
作者：
Hu H;Miao YR;Jia LH;Yu QY;Zhang Q;Guo AY
动物转录因子数据库 (AnimalTFDB) 是一个旨在提供动物转录因子 (TF) 和辅因子最全面、最准确信息的资源。 AnimalTFDB 已经维护和更新了七年，我们将继续改进它。最近，我们将AnimalTFDB更新至3.0版本（http://bioinfo.life.hust.edu.cn/AnimalTFDB/），并对其进行了更多的数据和功能改进。 AnimalTFDB 包含来自 97 个动物基因组的 125,135 个 TF 基因和 80,060 个转录辅因子基因。除了数据量的扩大之外，还增加了一些新的特性和功能。这些新功能是：（i）更准确的 TF 系列分配规则； (ii) 转录辅助因子的分类； (iii) TF结合位点信息； (iv) 人类转录因子的 GWAS 表型相关信息； (v) 22 个动物物种中的转录因子表达； (vi) TF结合位点预测工具，用于识别核苷酸序列的潜在结合TF； (vii) 设计了一个单独的人类 TF 数据库网络界面 (HumanTFDB)，以更好地利用人类 TF。新版本的AnimalTFDB提供了转录因子和辅因子的全面注释和分类，将成为转录因子和转录调控研究的有用资源。
The Animal Transcription Factor DataBase (AnimalTFDB) is a resource aimed to provide the most comprehensive and accurate information for animal transcription factors (TFs) and cofactors. The AnimalTFDB has been maintained and updated for seven years and we will continue to improve it. Recently, we updated the AnimalTFDB to version 3.0 (http://bioinfo.life.hust.edu.cn/AnimalTFDB/) with more data and functions to improve it. AnimalTFDB contains 125,135 TF genes and 80,060 transcription cofactor genes from 97 animal genomes. Besides the expansion in data quantity, some new features and functions have been added. These new features are: (i) more accurate TF family assignment rules; (ii) classification of transcription cofactors; (iii) TF binding sites information; (iv) the GWAS phenotype related information of human TFs; (v) TF expressions in 22 animal species; (vi) a TF binding site prediction tool to identify potential binding TFs for nucleotide sequences; (vii) a separate human TF database web interface (HumanTFDB) was designed for better utilizing the human TFs. The new version of AnimalTFDB provides a comprehensive annotation and classification of TFs and cofactors, and will be a useful resource for studies of TF and transcription regulation.
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影响因子：
64.8
作者：
Kim, Min-Sik;Pinto, Sneha M.;Getnet, Derese;Nirujogi, Raja Sekhar;Manda, Srikanth S.;Chaerkady, Raghothama;Madugundu, Anil K.;Kelkar, Dhanashree S.;Isserlin, Ruth;Jain, Shobhit;Thomas, Joji K.;Muthusamy, Babylakshmi;Leal-Rojas, Pamela;Kumar, Praveen;Sahasrabuddhe, Nandini A.;Balakrishnan, Lavanya;Advani, Jayshree;George, Bijesh;Renuse, Santosh;Selvan, Lakshmi Dhevi N.;Patil, Arun H.;Nanjappa, Vishalakshi;Radhakrishnan, Aneesha;Prasad, Samarjeet;Subbannayya, Tejaswini;Raju, Rajesh;Kumar, Manish;Sreenivasamurthy, Sreelakshmi K.;Marimuthu, Arivusudar;Sathe, Gajanan J.;Chavan, Sandip;Datta, Keshava K.;Subbannayya, Yashwanth;Sahu, Apeksha;Yelamanchi, Soujanya D.;Jayaram, Savita;Rajagopalan, Pavithra;Sharma, Jyoti;Murthy, Krishna R.;Syed, Nazia;Goel, Renu;Khan, Aafaque A.;Ahmad, Sartaj;Dey, Gourav;Mudgal, Keshav;Chatterjee, Aditi;Huang, Tai-Chung;Zhong, Jun;Wu, Xinyan;Shaw, Patrick G.;Freed, Donald;Zahari, Muhammad S.;Mukherjee, Kanchan K.;Shankar, Subramanian;Mahadevan, Anita;Lam, Henry;Mitchell, Christopher J.;Shankar, Susarla Krishna;Satishchandra, Parthasarathy;Schroeder, John T.;Sirdeshmukh, Ravi;Maitra, Anirban;Leach, Steven D.;Drake, Charles G.;Halushka, Marc K.;Prasad, T. S. Keshava;Hruban, Ralph H.;Kerr, Candace L.;Bader, Gary D.;Iacobuzio-Donahue, Christine A.;Gowda, Harsha;Pandey, Akhilesh
通讯作者：
Pandey, Akhilesh
DOI：
10.1093/bioinformatics/btr064
发表时间：
2011-04-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Grant CE;Bailey TL;Noble WS
通讯作者：
Noble WS
DOI：
10.1093/bioinformatics/btu286
发表时间：
2014-06-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Kilpatrick AM;Ward B;Aitken S
通讯作者：
Aitken S
影响因子：
7
作者：
Li JJ;Huang H;Bickel PJ;Brenner SE
通讯作者：
Brenner SE
影响因子：
14.9
作者：
Keshava Prasad TS;Goel R;Kandasamy K;Keerthikumar S;Kumar S;Mathivanan S;Telikicherla D;Raju R;Shafreen B;Venugopal A;Balakrishnan L;Marimuthu A;Banerjee S;Somanathan DS;Sebastian A;Rani S;Ray S;Harrys Kishore CJ;Kanth S;Ahmed M;Kashyap MK;Mohmood R;Ramachandra YL;Krishna V;Rahiman BA;Mohan S;Ranganathan P;Ramabadran S;Chaerkady R;Pandey A
通讯作者：
Pandey A