Dr Jing Li's Group


  Department of Bioinformatics and Biostatistics

  Shanghai Jiao Tong University





Recently published: "Network Module-Based Model in the Differential Expression Analysis for RNA-seq". Bioinformatics. (2017, April).      READ MORE >


Recently published: "CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation". Journal of Proteome Research. (2017, Feb).      READ MORE >


Recently published: "Construction and Deciphering of Human Phosphorylation-Mediated Signaling Transduction Networks".Journal of Proteome Research. (2015, Jul).      READ MORE >


Recently published: "Network-Based Association Study of Obesity and Type 2 Diabetes with Gene Expression Profiles". Biomed Res Int. (2015, Jul).      READ MORE >


Recently published: "Biological Network Module-Based Model for the Analysis of Differential Expression in Shotgun Proteomics". Journal of Proteome Research. (2014, Dec).      READ MORE >


Recently published: "GroupRank: Rank Candidate Genes in PPI Network by Differentially Expressed Gene Groups". PLOS ONE. (2014, Oct).      READ MORE >









We are interested in formulating the processes of complex phenotype/diseases (specifically in cancers) and prioritizing disease genes or variations by integrating interpretation of transcription and translation data using regulatory/ interaction network and public literatures. Our main focus is construction ofbiological network/pathway and modularity underneath specific molecular processes or biological states, identification of functional sub-network/module and optimization of statistic models and development of systems biology approaches for identifying individual and modular biomarker of complex disease from microarray transcriptional and shotgun proteomics data.

Selected papers:

  1. Network Module-Based Model in the Differential Expression Analysis for RNA-seq. Bioinformatics ,2017.
  2. CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation. Journal of Proteome Research , 2017.
  3. Biological Network Module-Based Model for the Analysis of Differential Expression in Shotgun Proteomics. Journal of Proteome Research , 2014.
  4. Evaluation and integration of existing methods for computational prediction of allergens. BMC Bioinformatics, 2013.
  5. A Bioinformatics Workflow for Variant Peptide Detection in Shotgun Proteomics. Molecular Cellular Proteomics, 2011.
  6. CanProVar: A Human Cancer Proteome Variation Database. Human mutation, 2010.
  7. Network-assisted Protein Identification and Data Interpretation in Shotgun Proteomics. Molecular Systems Biology, 2009.
  8. Multi-Site Assessment of The Precision and Reproducibility of Multiple Reaction Monitoring–based Measurements of Proteins in Plasma. Nature Biotechnology, 2009.
  9. Regulatory Module Network of bHLH Transcription Factors in Mouse Brain. Genome Biology, 2007.



News:

---2017--   


[Sept]   Welcome new graduate students Yongxin, Yihao, Liangquan and Christopher join us!

[Sept]   Mingli's article is published in Bioinformatics, Congs!.

[July]   NEW!!

Biostatistics& Bioinformatics Workshop 2017




[April]   Welcome new PhD student Yafei Chang to our lab.

[April]   Mingli's statistical model paper is accepted to Bioinformatics.

[March]   Xiaojing's allergen prediction paper is online at Interdisciplinary Sciences: Computational Life Sciences

[Feb]   Menghuan's CanProVar 2.0 paper is published at Journal of Proteome Research.



---2016--   


[Sept]   Wecome Xi Cheng and Jingya Jia to our group.



[May]   Congratulations to Jing Li, and Xi Cheng for receiving the University's Outstanding Graduate.


---2015---   


[Sept]    Master students Jinqiu Xiao joined the group. Welcome!


[Sept]    Welcome new PhD student Peng Cui to our lab.


[July]    Menghuan Zhang's paper is published at Journal of Proteome Research.


[Feb]   Siyi Zhang's paper is accepted to BioMed Research International.

























T: +86-21-34204348
F: +86-21-34204573
E:  jing.li@sjtu.edu.cn

Room 221, Building 4, Biology Complex 800 Dongchuan Road, Minhang District Shanghai, China, 200240


©2012-2013 Jing Li