Introduction
Currently, the bottleneck of proteomics research has shifted from the output of the experimental data to the in-depth analysis of the huge amount data. The development of large-scale, high-throughput and automated mass spectrometry data analysis platforms to process, storage, manage and share the mass spectrometer data resources has become one of the most hot topics.
Herein, we build a system called Proteome View
for mass spectrometry data analysis, management and display. The
proteomics pipeline is designed to:
1. Carry out an automated, comprehensive, standardized analysis of
proteomics data through all its various stages;
2. Capture and store the information needed to fully describe the
results, how they were obtained, validate their significance, and
permit the analysis to be repeated if necessary.
All Projects
| Project Title | Project Tag | Description | Institution | Contributors | Contact information | Reference |
|---|---|---|---|---|---|---|
| Fetal Liver Proteome | Fetal Liver | A dataset of human fetal liver proteome identified by subcellular fractionation and multiple protein separation and identification technology. | BIRM | Prof. Xiaohong Qian; Prof. Ying Jiang | qianxh1@163.com; jiangying304@hotmail.com | Ying W, Jiang Y, Guo L. et al., A dataset of human fetal liver proteome identified by subcellular fractionation and multiple protein separation and identification technology. Mol Cell Proteomics. 2006 |
| French Liver Proteome | French Liver | A dataset of French fetal liver proteome | BIRM BGI Fudan SIBS | Prof. Xiaohong Qian; Prof. Ying Jiang; Prof. Siqi Liu; Prof. Pengyuan Yang; Prof. Rong Zeng | qianxh1@163.com; jiangying304@hotmail.com; siqiliu@genomics.org.cn; pyyang@fudan.edu.cn | |
| Chinese Adult Liver Proteome | Chinese Adult Liver | A proteome profile dataset of the human adult liver | BIRM BGI Fudan SIBS | Prof. Xiaohong Qian; Prof. Ying Jiang; Prof. Siqi Liu; Prof. Pengyuan Yang;Prof. Rong Zeng | qianxh1@163.com; jiangying304@hotmail.com; siqiliu@genomics.org.cn; pyyang@fudan.edu.cn | Chinese Human Liver Proteome Profiling Consortium. First insight into the human liver proteome from PROTEOME(SKY)-LIVER(Hu) 1.0, a publicly available database. J Proteome Res. 2010, 9, 79-94. |
| Human Liver Organelle Proteome | Human Liver Organelle | Proteome profiles of six human liver organelles | BIRM | Prof. Xiaohong Qian; Prof. Ying Jiang | qianxh1@163.com; jiangying304@hotmail.com | |
| Human Liver cancer cell line Proteome | Liver cancer cell line | Proteome profiles of eight human liver cancer cell lines | Fudan | Prof. Pengyuan Yang | pyyang@fudan.edu.cn | |
| Human Liver phosphoproteome | Human Liver | Phosphoproteome analysis of human liver tissue by long-gradient nanoflow LC coupled with multiple stage MS analysis. | Dalian Institute of Chemical Physics | Prof. Mingling Ye | mingliang@dicp.ac.cn | Han G, Ye M, Liu H. et al., Phosphoproteome analysis of human liver tissue by long-gradient nanoflow LC coupled with multiple stage MS analysis. Electrophoresis 2010, 31, 1080 |
| Human Colon Tissue Proteome | Human Colon Tissue | A proteome profile dataset of the human colon tissue (cancer and normal) | BPRC | Prof. Xiaohong Qian; Prof.Ping Xu | qianxh1@163.com; xupingghy@gmail.com | |
| Human Colon cell lines Proteome | Human Colon cell lines | A proteome profile dataset of the human colon cancer cell lines (SW480 and HCT116) | Fudan | Prof. Pengyuan Yang | pyyang@fudan.edu.cn | |
| Human gastric tissue Proteome | Human gastric tissue | A proteome profile dataset of the human gastric tissue (cancer and normal) | JINan University | Prof. Qingyu He | tqyhe@jnu.edu.cn | |
| Human gastric cell lines Proteome | Human gastric cell lines | A proteome profile dataset of the human gastric cancer cell lines (AGS, BGC823 and Sgc-7901) | BGI | Prof. Siqi Liu | siqiliu@genomics.org.cn | |
| Fast-sequencing proteome platform | HeLa | Application of 12-hour Fast-seq strategy on HeLa deep proteome coverage | BPRC | Prof. Xiaohong Qian; Prof. Jun Qin | qianxh1@163.com; jqin@bcm.tmc.edu | A Fast Workflow of covering and quantifying mammalian proteome at the depth of 8,000 gene products |
| Fast-sequencing proteome platform | HUVEC | DMSO and MLN | BPRC | Prof. Xiaohong Qian; Prof. Jun Qin | qianxh1@163.com; jqin@bcm.tmc.edu | A Fast Workflow of covering and quantifying mammalian proteome at the depth of 8,000 gene products |
| Chinese Human Chromosome Proteome 2013 | CCPD 2013 | Human liver cancer celline | Chinese Human Chromosome Proteome Consortium | Prof. Ping Xu; Prof. Xiaohong Qian; Prof. Pengyuan Yang; Prof. Siqi Liu; Prof. Qingyu He | jxupingghy@gmail.com; qianxh1@163.com; pyyang@fudan.edu.cn; siqiliu@genomics.org.cn; tqyhe@jnu.edu.cn | Proteome profiling of three hepatocellular carcinoma (HCC) cell lines: Hep3B, 97H and LM3 |
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