title: CAPER: a chromosome-assembled human proteome browsER.
abstract: High-throughput mass spectrometry and antibody-based experiments have begun to produce a large amount of proteomic data sets. Chromosome-based visualization of these data sets and their annotations can help effectively integrate, organize, and analyze them. Therefore, we developed a web-based, user-friendly Chromosome-Assembled human Proteome browsER (CAPER). To display proteomic data sets and related annotations comprehensively, CAPER employs two distinct visualization strategies: track-view for the sequence/site information and the correspondence between proteome, transcriptome, genome, and chromosome and heatmap-view for the qualitative and quantitative functional annotations. CAPER supports data browsing at multiple scales through Google Map-like smooth navigation, zooming, and positioning with chromosomes as the reference coordinate. Both track-view and heatmap-view can mutually switch, providing a high-quality user interface. Taken together, CAPER will greatly facilitate the complete annotation and functional interpretation of the human genome by proteomic approaches, thereby making a significant contribution to the Chromosome-Centric Human Proteome Project and even the human physiology/pathology research. CAPER can be accessed at  http://www.bprc.ac.cn/CAPE .
authors.affiliation: Institute of Basic Medical Sciences and School of Basic Medicine, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100005, China.
authors.forename: Feifei
authors.initials: F
authors.lastname: Guo
authors.forename: Dan
authors.initials: D
authors.lastname: Wang
authors.forename: Zhongyang
authors.initials: Z
authors.lastname: Liu
authors.forename: Liang
authors.initials: L
authors.lastname: Lu
authors.forename: Wei
authors.initials: W
authors.lastname: Zhang
authors.forename: Haiyan
authors.initials: H
authors.lastname: Sun
authors.forename: Hongxing
authors.initials: H
authors.lastname: Zhang
authors.forename: Jie
authors.initials: J
authors.lastname: Ma
authors.forename: Songfeng
authors.initials: S
authors.lastname: Wu
authors.forename: Ning
authors.initials: N
authors.lastname: Li
authors.forename: Ying
authors.initials: Y
authors.lastname: Jiang
authors.forename: Weimin
authors.initials: W
authors.lastname: Zhu
authors.forename: Jun
authors.initials: J
authors.lastname: Qin
authors.forename: Ping
authors.initials: P
authors.lastname: Xu
authors.forename: Dong
authors.initials: D
authors.lastname: Li
authors.forename: Fuchu
authors.initials: F
authors.lastname: He
mesh_terms: D000906:Antibodies / Q000235:genetics / Q000378:metabolism; D030562:Databases, Protein; D015894:Genome, Human; D006801:Humans; D016247:Information Storage and Retrieval; D020407:Internet; D058977:Molecular Sequence Annotation; D020543:Proteome / Q000235:genetics / Q000378:metabolism; D012984:Software; D014584:User-Computer Interface
chemical_list: D000906:Antibodies; D020543:Proteome