galaxy-proteomics

Download

galaxy-proteomics@lists.galaxyproject.org

December 2013

3 participants
1 discussions

CAPER: A new proteomics Galaxy Server
by Dave Clements 06 Dec '13

06 Dec '13

Hello all (proteomaticians?), Please welcome a new public Galaxy server to the Galaxy proteomics community: CAPER <http://www.bprc.ac.cn/CAPE>: An Interactive, Configurable, and Extensible Workflow-Based Platform to Analyze Data Sets from the Chromosome-centric Human Proteome Project. The full entry from the http://wiki.galaxyproject.org/PublicGalaxyServerspage is below. There are online tutorials, and email support is offered by Dong Li and Dan Wang, both CC'd here. Also, please tell them what a spectacularly great email list this is, so that they will subscribe to it. ;-) Happy December! Dave C CAPER [image: CAPER] <http://www.bprc.ac.cn/CAPE> - *Links:* - CAPER <http://www.bprc.ac.cn/CAPE> at Beijing Proteome Research Center<http://www.bprc.ac.cn/>, China - "CAPER 2.0: An Interactive, Configurable, and Extensible Workflow-Based Platform to Analyze Data Sets from the Chromosome-centric Human Proteome Project <http://pubs.acs.org/doi/abs/10.1021/pr400795c>" by Wang, *et al.*, *J. Proteome Res.*, DOI: 10.1021/pr400795c, Publication Date (Web): November 22, 2013 - *Domain/Purpose:* - "An Interactive, Configurable, and Extensible Workflow-Based Platform to Analyze Data Sets from the Chromosome-centric Human Proteome Project <http://www.c-hpp.org/>" - *Comments:* - The Chromosome-centric Human Proteome Project (C-HPP) aims to map and annotate the entire human proteome by the "chromosome-by-chromosome" strategy. As the C-HPP proceeds, the increasing volume of proteomic data sets presents a challenge for customized and reproducible bioinformatics data analyses for mining biological knowledge. To address this challenge CAPER 2.0 - an interactive, configurable and extensible workflow-based platform is developed for C-HPP data analyses. In addition to the previous visualization functions of track-view and heatmap-view<http://pubs.acs.org/doi/abs/10.1021/pr300831z>, CAPER 2.0 presents a powerful toolbox for C-HPP data analyses and also integrates a configurable workflow system that supports the view, construction, edit, run, and share of workflows. These features allow users to easily conduct their own C-HPP proteomic data analyses and visualization by CAPER 2.0. CAPER 2.0 now presents four specific workflows for finding missing proteins, mapping peptides to chromosomes for genome annotation, integrating peptides with transcription factor binding sites from ENCODE data sets, and functionally annotating proteins. - *User Support:* - Tutorials<http://61.50.138.124/caper2/static/documentation/index.html> - Email: Dong Li <lidong.bprc(a)foxmail.com>, Dan Wang<wangdanburnett(a)163.com> - *Quotas:* - Free for academic users. Creating an account is recommended. - *Sponsor(s):* - Beijing Proteome Research Center (BPRC) <http://www.bprc.ac.cn/>, the Human Liver Proteome Project (HLPP)<http://www.hupo.org/initiatives/human-liver-proteome-project/>, and the Chromosome-centric Human Proteome Project (C-HPP)<http://www.c-hpp.org/> -- http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ http://wiki.galaxyproject.org/

3 2