title: Identification of cross-linked peptides from complex samples.
abstract: We have developed pLink, software for data analysis of cross-linked proteins coupled with mass-spectrometry analysis. pLink reliably estimates false discovery rate in cross-link identification and is compatible with multiple homo- or hetero-bifunctional cross-linkers. We validated the program with proteins of known structures, and we further tested it on protein complexes, crude immunoprecipitates and whole-cell lysates. We show that it is a robust tool for protein-structure and protein-protein-interaction studies.
authors: College of Biological Sciences, China Agricultural University, Beijing, China.
authors: Bing
authors: B
authors: Yang
authors: Yan-Jie
authors: YJ
authors: Wu
authors: Ming
authors: M
authors: Zhu
authors: Sheng-Bo
authors: SB
authors: Fan
authors: Jinzhong
authors: J
authors: Lin
authors: Kun
authors: K
authors: Zhang
authors: Shuang
authors: S
authors: Li
authors: Hao
authors: H
authors: Chi
authors: Yu-Xin
authors: YX
authors: Li
authors: Hai-Feng
authors: HF
authors: Chen
authors: Shu-Kun
authors: SK
authors: Luo
authors: Yue-He
authors: YH
authors: Ding
authors: Le-Heng
authors: LH
authors: Wang
authors: Zhiqi
authors: Z
authors: Hao
authors: Li-Yun
authors: LY
authors: Xiu
authors: She
authors: S
authors: Chen
authors: Keqiong
authors: K
authors: Ye
authors: Si-Min
authors: SM
authors: He
authors: Meng-Qiu
authors: MQ
authors: Dong
mesh_terms: D000465:Algorithms; D000818:Animals; D017173:Caenorhabditis elegans / Q000737:chemistry; D002851:Chromatography, High Pressure Liquid; D003432:Cross-Linking Reagents / Q000737:chemistry*; D003627:Data Interpretation, Statistical; D030562:Databases, Protein; D004926:Escherichia coli / Q000737:chemistry; D005189:False Positive Reactions; D006801:Humans; D013058:Mass Spectrometry; D008958:Models, Molecular; D010455:Peptides / Q000032:analysis* / Q000737:chemistry*; D011485:Protein Binding; D011487:Protein Conformation; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D012984:Software
chemical_list: D003432:Cross-Linking Reagents; D010455:Peptides