JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles.
JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles.
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DOI：
10.1093/nar/gkp950
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发表时间：
2010-01
影响因子：
14.9
通讯作者：
Sandelin A
中科院分区：
文献类型：
--
作者：
Portales-Casamar E;Thongjuea S;Kwon AT;Arenillas D;Zhao X;Valen E;Yusuf D;Lenhard B;Wasserman WW;Sandelin A
JASPAR（http://jaspar.genereg.net）是一个领先的开放获取矩阵图谱数据库，它描述了转录因子（TFs）以及其他以序列特异性方式与DNA相互作用的蛋白质的DNA结合模式。它的第4个主要版本是核心数据库迄今为止最大规模的一次扩充：该数据库现在拥有457个非冗余的精选图谱。新条目包括来自ChIP - seq和ChIP - chip全基因组结合实验的首批图谱，以及177个酵母TF结合图谱。酵母部分的引入为活跃的研究群体带来了JASPAR的便利。随着结合模型因新数据而得到完善，JASPAR数据库现在对矩阵使用版本控制：在这个版本中，12%的旧模型被更新为改进版本。通过采用一种新的DNA结合结构域命名法，转录因子家族的分类得到了改进。提供了一个精选的哺乳动物转录因子目录，将JASPAR图谱的使用扩展到属于同一结构家族的其他转录因子。数据库的这些变化使系统为更快速获取新的高通量数据源做好了准备。此外，三个新的特别集合提供了由近期其他高通量方法产生的矩阵图谱数据。
JASPAR (http://jaspar.genereg.net) is the leading open-access database of matrix profiles describing the DNA-binding patterns of transcription factors (TFs) and other proteins interacting with DNA in a sequence-specific manner. Its fourth major release is the largest expansion of the core database to date: the database now holds 457 non-redundant, curated profiles. The new entries include the first batch of profiles derived from ChIP-seq and ChIP-chip whole-genome binding experiments, and 177 yeast TF binding profiles. The introduction of a yeast division brings the convenience of JASPAR to an active research community. As binding models are refined by newer data, the JASPAR database now uses versioning of matrices: in this release, 12% of the older models were updated to improved versions. Classification of TF families has been improved by adopting a new DNA-binding domain nomenclature. A curated catalog of mammalian TFs is provided, extending the use of the JASPAR profiles to additional TFs belonging to the same structural family. The changes in the database set the system ready for more rapid acquisition of new high-throughput data sources. Additionally, three new special collections provide matrix profile data produced by recent alternative high-throughput approaches.
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影响因子：
64.8
作者：
Heintzman, Nathaniel D.;Hon, Gary C.;Hawkins, R. David;Kheradpour, Pouya;Stark, Alexander;Harp, Lindsey F.;Ye, Zhen;Lee, Leonard K.;Stuart, Rhona K.;Ching, Christina W.;Ching, Keith A.;Antosiewicz-Bourget, Jessica E.;Liu, Hui;Zhang, Xinmin;Green, Roland D.;Lobanenkov, Victor V.;Stewart, Ron;Thomson, James A.;Crawford, Gregory E.;Kellis, Manolis;Ren, Bing
通讯作者：
Ren, Bing
DOI：
10.1126/science.1162327
发表时间：
2009-06-26
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Badis G;Berger MF;Philippakis AA;Talukder S;Gehrke AR;Jaeger SA;Chan ET;Metzler G;Vedenko A;Chen X;Kuznetsov H;Wang CF;Coburn D;Newburger DE;Morris Q;Hughes TR;Bulyk ML
通讯作者：
Bulyk ML
影响因子：
16
作者：
Badis, Gwenael;Chan, Esther T.;van Bakel, Harm;Pena-Castillo, Lourdes;Tillo, Desiree;Tsui, Kyle;Carlson, Clayton D.;Gossett, Andrea J.;Hasinoff, Michael J.;Warren, Christopher L.;Gebbia, Marinella;Talukder, Shaheynoor;Yang, Ally;Mnaimneh, Sanie;Terterov, Dimitri;Coburn, David;Yeo, Ai Li;Yeo, Zhen Xuan;Clarke, Neil D.;Lieb, Jason D.;Ansari, Aseem Z.;Nislow, Corey;Hughes, Timothy R.
通讯作者：
Hughes, Timothy R.
影响因子：
46.9
作者：
Meng, XD;Brodsky, MH;Wolfe, SA
通讯作者：
Wolfe, SA
影响因子：
46.9
作者：
Berger, Michael F.;Philippakis, Anthony A.;Bulyk, Martha L.
通讯作者：
Bulyk, Martha L.