.png){kind=icon}
返回
YPED: A web-accessible database system for protein expression analysis
.png){kind=icon}
OA
AI
DOI：10.1021/pr070325f.png)
.png){kind=icon}
.png){kind=icon}
分享.png){kind=icon}
收藏
摘要
En 中文
We have developed an integrated web-accessible software system called the Yale Protein Expression Database (YPED) to address the need for storage, retrieval, and integrated analysis of large amounts of data from high throughput proteomic technologies. YPED is an open source system which integrates gel analysis results with protein identifications from DIGE experiments. The system associates the DIGE gel spots and image, analyzed with DeCyder, with mass spectrometric protein identifications from selected gel spots. Following in gel trypsin digestion, proteins in spots of interest are analyzed using MALDI-TOF/TOF on an AB 4700 or, more recently, on an AB 4800 with protein identifications performed by Mascot in conjunction with the AB GPS Explorer system. In addition to DIGE, YPED currently handles protein identifications from MudPIT, iTRAQ, and ICAT experiments. Sample descriptions are compatible with the evolving MIAPE standards. Tandem MS/MS results from MudPIT, and ICAT analyses are validated with the Trans-Proteomic Pipeline and then stored in the database for viewing and linking to the identified proteins. Researchers can view, subset, and download their data through a secure Web interface that indudes a table containing proteins identified, a sample summary, the sample description, and a clickable gel image for DIGE samples. Tools are available to facilitate sample comparison and the viewing of phosphoproteins. A summary report with PANTHER dassification System annotations is also available to aid in biological interpretation of the results. The source code is open-source and is available from http://yped.med.yale.edu/yped-dist.
Keyword:
protein expression database
mass spectrometry
MudPIT
DIGE
ICAT
iTRAQ
proteomics
AI总结
对已上传原文的论文进行重点信息的提取，主要内容包括：简要概述、研究摘要、背景介绍、关键亮点、图文解析、展望与总结。
期刊
IF:
3.6
论文数:
9.4K
被引数:
2.3W
机构
暂无机构信息
引用论文
A statistical model for identifying proteins by tandem mass spectrometry.png)
ANALYTICAL CHEMISTRY
ANALYTICAL CHEMISTRYIF6.7
PREAI
分享收藏Protein labeling by iTRAQ: A new tool for quantitative mass spectrometry in proteome researchPROTEOMICS
PROTEOMICSIF3.9
PREAI
分享收藏
PEDRo: A database for storing, searching and disseminating experimental proteomics dataBMC GENOMICSOAAI
BMC GENOMICSIF3.7
OAAI分享收藏Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database searchANALYTICAL CHEMISTRY
ANALYTICAL CHEMISTRYIF6.7
PREAI
分享收藏
查看更多内容