Jake Chen

 

Recent Submissions

  • Wan, Ping; Wu, Jun; Zhou, Yuan; Xiao, Junshu; Feng, Jie; Zhao, Weizhong; Xiang, Shen; Jiang, Guanglong; Chen, Jake Y. (Elsevier, 2011-04)
    miRNAs are non-coding small RNAs that involve diverse biological processes. Until now, little is known about their roles in plant drought resistance. Physcomitrella patens is highly tolerant to drought; however, it is not ...
  • Wu, Xiaogang; Hasan, Mohammad Al; Chen, Jake Yue (Elsevier, 2014-12-07)
    Proteomics is inherently a systems science that studies not only measured protein and their expressions in a cell, but also the interplay of proteins, protein complexes, signaling pathways, and network modules. There is a ...
  • Chen, Jake Y.; Wu, Xiaogang; Zhang, Fan; Pandey, Ragini; Huang, Hui; Huan, Tianxiao (Office of the Vice Chancellor for Research, 2010-04-09)
    With the advent of Genome-based Medicine, there is an escalating need for discovering how the modifications of biological molecules, either individually or as an ensemble, can be uniquely associated with human physiological ...
  • Huang, Hui; Nguyen, Thanh; Ibrahim, Sara; Shantharam, Sandeep; Yue, Zongliang; Chen, Jake Y. (BioMed Central, 2015-09-25)
    BACKGROUND: Drug repositioning is a cost-efficient and time-saving process to drug development compared to traditional techniques. A systematic method to drug repositioning is to identify candidate drug's gene expression ...
  • Wu, Xiaogang; Chen, Jake Y. (Office of the Vice Chancellor for Research, 2011-04-08)
    Systems biology refers to the use of systems engineering and systems science techniques to the understanding of biological systems. At Indiana Center for Systems Biology and Personalized Medicine (ICSBPM), we are particularly ...
  • Muhammad, Syed Aun; Fatima, Nighat; Syed, Nawazish-I.-Husain; Wu, Xiaogang; Yang, X. Frank; Chen, Jake Y. (Public Library of Science, 2015)
    Invasive candidiasis is potentially life-threatening systemic fungal infection caused by Candida albicans (C. albicans). Candida enters the blood stream and disseminate throughout the body and it is often observed in ...
  • Yue, Zongliang; Wan, Ping; Huang, Hui; Xie, Zhan; Chen, Jake Y. (Springer (Biomed Central Ltd.), 2014)
    We developed a new computational technique called Step-Level Differential Response (SLDR) to identify genetic regulatory relationships. Our technique takes advantages of functional genomics data for the same species under ...
  • Yue, Zongliang; Kshirsagar, Madhura M.; Nguyen, Thanh; Suphavilai, Chayaporn; Neylon, Michael T.; Zhu, Liugen; Ratliff, Timothy; Chen, Jake Y. (Oxford University Press, 2015-06-15)
    In this article, we described a new database framework to perform integrative "gene-set, network, and pathway analysis" (GNPA). In this framework, we integrated heterogeneous data on pathways, annotated list, and gene-sets ...
  • Ibrahim, Sara; Capouch, Don; Chandorkar, Sujay; Chen, Jake; Saykin, Andrew J.; Wu, Xiaogang; Huang, Hui (Office of the Vice Chancellor for Research, 2012-04-13)
    Network pharmacology has emerged as a new topic of study in recent years. Molecular connectivity maps between drugs and genes/proteins in specific disease contexts can be particularly valuable, since the functional approach ...
  • Chen, Jake (Office of the Vice Chancellor for Research, 2012-04-13)
    In this project researchers developed software that can help extract results from PubMed literature to a comprehensive connectivity map, developing information on the relationships among drugs, proteins, and diseases. The ...
  • Li, Jillian; Zhang, Fan; Chen, Jake Y (2010-07)
    Bone cells can sense physical forces and convert mechanical stimulation conditions into biochemical signals that lead to expression of mechanically sensitive genes and proteins. However, it is still poorly understood how ...