Hlavacek:Publications: Difference between revisions

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==Recent work==
==Selected Publications==


*Mu F, Unkefer CJ, Unkefer PJ, Hlavacek WS (2011) Prediction of metabolic reactions based on atomic and molecular properties of small-molecule compounds. [http://bioinformatics.oxfordjournals.org/ Bioinformatics]  
*Chylek LA, Akimov V, Dengjel J, Rigbolt KTG, Hu B, Hlavacek WS, Blagoev B (2014) Phosphorylation site dynamics of early T-cell receptor signaling. PLOS ONE 9: e104240. [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0104240 Full Text]


*Lemons NW, Hu B, Hlavacek WS (2011) Hierarchical graphs for rule-based modeling of biochemical systems. [http://www.biomedcentral.com/bmcbioinformatics BMC Bioinformatics] '''12''':45 PMID 21288338
*Chylek LA, Harris LA, Tung CS, Faeder JR, Lopez CF, Hlavacek WS (2014) Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems. Wiley Interdiscip. Rev. Syst. Biol. Med. 6: 13-36. [http://onlinelibrary.wiley.com/doi/10.1002/wsbm.1245/abstract Full Text]


*Bauer AL, Hlavacek WS, Unkefer PJ, Mu F (2010) Using sequence-specific chemical and structural properties of DNA to predict transcription factor binding sites. [http://www.ploscompbiol.org PLoS Comput Biol] '''6''':e1001007 PMID 21124945
*Barua D, Hlavacek WS (2013) Modeling the effect of APC truncation on destruction complex function in colorectal cancer cells. PLOS Comput. Biol. 9: e1003217. [http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1003217 Full Text]
 
*Yang J, Meng X, Hlavacek WS (2010) Rule-based modelling and simulation of biochemical systems with molecular finite automata. [http://scitation.aip.org/IET-SYB IET Syst Biol] '''4''', 453-466 PMID 21073243
 
==Selected publications==
 
*Wall ME, Hlavacek WS, Savageau MA (2004) Design of gene circuits: lessons from bacteria. [http://www.nature.com/nrg/index.html Nat Rev Genet] '''5''', 34-42 PMID 14708014
 
*Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W (2006) Rules for modeling signal-transduction systems. [http://stke.sciencemag.org/ Sci STKE] '''2006''', re6. PMID 16849649

Latest revision as of 08:17, 25 August 2014

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Selected Publications

  • Chylek LA, Akimov V, Dengjel J, Rigbolt KTG, Hu B, Hlavacek WS, Blagoev B (2014) Phosphorylation site dynamics of early T-cell receptor signaling. PLOS ONE 9: e104240. Full Text
  • Chylek LA, Harris LA, Tung CS, Faeder JR, Lopez CF, Hlavacek WS (2014) Rule-based modeling: a computational approach for studying biomolecular site dynamics in cell signaling systems. Wiley Interdiscip. Rev. Syst. Biol. Med. 6: 13-36. Full Text
  • Barua D, Hlavacek WS (2013) Modeling the effect of APC truncation on destruction complex function in colorectal cancer cells. PLOS Comput. Biol. 9: e1003217. Full Text
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