SAVoR: a server for sequencing annotation and visualization of RNA structures.
SAVoR: a server for sequencing annotation and visualization of RNA structures.
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DOI：
10.1093/nar/gks310
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发表时间：
2012-07
影响因子：
14.9
通讯作者：
Wang LS
中科院分区：
文献类型：
--
作者：
Li F;Ryvkin P;Childress DM;Valladares O;Gregory BD;Wang LS
RNA secondary structure is required for the proper regulation of the cellular transcriptome. This is because the functionality, processing, localization and stability of RNAs are all dependent on the folding of these molecules into intricate structures through specific base pairing interactions encoded in their primary nucleotide sequences. Thus, as the number of RNA sequencing (RNA-seq) data sets and the variety of protocols for this technology grow rapidly, it is becoming increasingly pertinent to develop tools that can analyze and visualize this sequence data in the context of RNA secondary structure. Here, we present Sequencing Annotation and Visualization of RNA structures (SAVoR), a web server, which seamlessly links RNA structure predictions with sequencing data and genomic annotations to produce highly informative and annotated models of RNA secondary structure. SAVoR accepts read alignment data from RNA-seq experiments and computes a series of per-base values such as read abundance and sequence variant frequency. These values can then be visualized on a customizable secondary structure model. SAVoR is freely available at http://tesla.pcbi.upenn.edu/savor.
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影响因子：
16
作者：
Mukherjee N;Corcoran DL;Nusbaum JD;Reid DW;Georgiev S;Hafner M;Ascano M Jr;Tuschl T;Ohler U;Keene JD
通讯作者：
Keene JD
影响因子：
46.9
作者：
Trapnell C;Williams BA;Pertea G;Mortazavi A;Kwan G;van Baren MJ;Salzberg SL;Wold BJ;Pachter L
通讯作者：
Pachter L
影响因子：
1.8
作者：
HOFACKER, IL;FONTANA, W;SCHUSTER, P
通讯作者：
SCHUSTER, P
影响因子：
8.8
作者：
Li, Fan;Zheng, Qi;Gregory, Brian D.
通讯作者：
Gregory, Brian D.
影响因子：
48
作者：
Underwood, Jason G.;Uzilov, Andrew V.;Katzman, Sol;Onodera, Courtney S.;Mainzer, Jacob E.;Mathews, David H.;Lowe, Todd M.;Salama, Sofie R.;Haussler, David
通讯作者：
Haussler, David