Rao:Publications: Difference between revisions
No edit summary |
|||
(40 intermediate revisions by the same user not shown) | |||
Line 1: | Line 1: | ||
{{Rao}} | |||
{|cellspacing="5" cellpadding="10" style="background:#3674C2; width: 750px;" | |||
|-valign="top" | |||
|style="background:#ffffff"| | |||
==Publications== | ==Publications== | ||
''PDF reprints are provided below within the context of fair use. Please obtain copies from the publisher if appropriate.'' | ''PDF reprints are provided below within the context of fair use. Please obtain copies from the publisher if appropriate.'' | ||
<br> | |||
'''Cellular Stoichiometry of the Chemotaxis Proteins in ''Bacillus subtilis''.''' <br> | |||
''Journal of Bacteriology'', 2011 <br> | |||
Cannistraro VJ, Glekas GD, [[User:ChrisRao|Rao CV]], Ordal GW<br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/21515776 Pubmed] | |||
<br> | |||
'''The role of the mar/sox/rob regulon in regulating outer membrane porin expression.''' <br> | |||
''Journal of Bacteriology'',193(9):2252-2260, 2011 <br> | |||
Chubiz L, [[User:ChrisRao|Rao CV]]<br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/21398557 Pubmed] | |||
<br> | |||
'''Continuous control of flagellar gene expression by the σ28–FlgM regulatory circuit in ''Salmonella enterica''''' <br> | |||
''Molecular Microbiology'', 79(1):264-78, 2011 <br> | |||
Saini S, Floess E, Aldridge C, Brown J, Aldridge PD, [[User:ChrisRao|Rao CV]]<br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/21166907 Pubmed] | |||
<br> | <br> | ||
'''Attractant binding induces distinct structural changes to the polar and lateral signaling clusters in ''Bacillus subtilis'' chemotaxis.''' <br> | '''Attractant binding induces distinct structural changes to the polar and lateral signaling clusters in ''Bacillus subtilis'' chemotaxis.''' <br> | ||
''Journal of Biological Chemistry'', | ''Journal of Biological Chemistry'', 286(4):2587-95, 2011 <br> | ||
Wu K, Walukiewicz HE, Glekas GD, Ordal GW, [[User:ChrisRao|Rao CV]] <br> | Wu K, Walukiewicz HE, Glekas GD, Ordal GW, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/21098025 PubMed] | |||
<br> | |||
'''Site-specific methylation in ''Bacillus subtilis'' chemotaxis: The effect of covalent modifications to the chemotaxis receptor McpB.''' <br> | |||
''Microbiology'', 157(Pt 1):56-65, 2011 <br> | |||
Glekas GD, Cates JR, Cohen TM, [[User:ChrisRao|Rao CV]], Ordal GW <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/20864474 PubMed] | |||
<br> | |||
'''The interaction dynamics of a negative feedback loop regulates flagellar number in ''Salmonella enterica'' serovar Typhimurium''' <br> | |||
''Molecular Microbiology'', 78(6):1416–1430, 2010 <br> | |||
Aldridge C, Poonchareon K, Saini S, Soloyva A, [[User:ChrisRao|Rao CV]], Imada K, Minamino T, Aldridge PD<br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/21143315 PubMed] | |||
<br> | <br> | ||
Line 13: | Line 47: | ||
''Journal of Bacteriology'', 192(24):6477-81, 2010 <br> | ''Journal of Bacteriology'', 192(24):6477-81, 2010 <br> | ||
Saini S, Koirala S, Floess E, Mears PJ, Chemla YR, Golding I, Aldridge C, | Saini S, Koirala S, Floess E, Mears PJ, Chemla YR, Golding I, Aldridge C, | ||
Aldridge PD, Rao CV <br> | Aldridge PD, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20935096 PubMed] | |||
<br> | <br> | ||
'''Role of cross talk in regulating the dynamic expression of the flagellar Salmonella pathogenicity island 1 and type 1 fimbrial genes''' <br> | '''Role of cross talk in regulating the dynamic expression of the flagellar Salmonella pathogenicity island 1 and type 1 fimbrial genes''' <br> | ||
''Journal of Bacteriology'', 192(21):5767-77, 2010 <br> | ''Journal of Bacteriology'', 192(21):5767-77, 2010 <br> | ||
Saini S, Slauch JM, Aldridge PD, Rao CV <br> | Saini S, Slauch JM, Aldridge PD, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20833811 PubMed] | |||
<br> | <br> | ||
'''The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella''' <br> | '''The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella''' <br> | ||
''PLoS Pathogens'', 6(7):e1001025, 2010 <br> | ''PLoS Pathogens'', 6(7):e1001025, 2010 <br> | ||
Saini S, Ellermeier JR, Slauch JM, Rao CV <br> | Saini S, Ellermeier JR, Slauch JM, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20686667 PubMed] | |||
<br> | <br> | ||
'''Aromatic acid metabolites of ''Escherichia coli'' K-12 can induce the ''marRAB'' operon''' <br> | '''Aromatic acid metabolites of ''Escherichia coli'' K-12 can induce the ''marRAB'' operon''' <br> | ||
''Journal of Bacteriology'', 92(18):4786-9, 2010 <br> | ''Journal of Bacteriology'', 92(18):4786-9, 2010 <br> | ||
Chubiz LM, Rao CV <br> | Chubiz LM, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20639340 PubMed] [http://toothbase.scs.uiuc.edu/~chris/chubiz2010.pdf PDF] | |||
<br> | <br> | ||
'''SprB is the molecular link between Salmonella pathogenicity island 1 (SPI1) and SPI4''' <br> | '''SprB is the molecular link between Salmonella pathogenicity island 1 (SPI1) and SPI4''' <br> | ||
''Journal of Bacteriology'', 192(9):2459-62, 2010 <br> | ''Journal of Bacteriology'', 192(9):2459-62, 2010 <br> | ||
Saini S, Rao CV <br> | Saini S, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20190046 PubMed] | |||
<br> | <br> | ||
'''A modular positive feedback-based gene amplifier''' <br> | '''A modular positive feedback-based gene amplifier''' <br> | ||
''Journal of Biological Engineering'', 26;4:4, 2010 <br> | ''Journal of Biological Engineering'', 26;4:4, 2010 <br> | ||
Nistala GJ, Wu K, Rao CV, Bhalerao KD <br> | Nistala GJ, Wu K, [[User:ChrisRao|Rao CV]], Bhalerao KD <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20187959 PubMed] | |||
<br> | <br> | ||
'''The role of configuration and coupling in autoregulatory gene circuits.''' <br> | '''The role of configuration and coupling in autoregulatory gene circuits.''' <br> | ||
''Molecular Microbiology'', 75(2):513-27, 2010 <br> | ''Molecular Microbiology'', 75(2):513-27, 2010 <br> | ||
Wu K, Rao CV <br> | Wu K, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20025666 PubMed] | |||
<br> | <br> | ||
'''Regulation of arabinose and xylose metabolism in ''Escherichia coli''''' <br> | '''Regulation of arabinose and xylose metabolism in ''Escherichia coli''''' <br> | ||
''Applied and Environmental Microbiology'', 76(5):1524-32, 2010 <br> | ''Applied and Environmental Microbiology'', 76(5):1524-32, 2010 <br> | ||
Desai TD, Rao CV <br> | Desai TD, [[User:ChrisRao|Rao CV]] <br> | ||
[http://www.ncbi.nlm.nih.gov/pubmed/20023096 PubMed] | |||
<br> | |||
'''A PAS domain binds asparagine in the chemotaxis receptor McpB in ''Bacillus subtilis''''' <br> | |||
''Journal of Biological Chemistry'', 285(3):1870-8, 2010 <br> | |||
Glekas GD, Foster RM, Cates JR, Estrella JA, Wawrzyniak MJ, [[User:ChrisRao|Rao CV]], Ordal GW <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19864420 PubMed] | |||
<br> | |||
'''High-resolution, long-term characterization of bacterial motility using optical tweezers''' <br> | |||
''Nature Methods'', 6(11):831-5, 2009 <br> | |||
Min TL, Mears PJ, Chubiz LM, [[User:ChrisRao|Rao CV]], Golding I, Chemla YR <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19801991 PubMed] | |||
<br> | |||
'''The molecular basis of excitation and adaptation during chemotactic sensory transduction in bacteria''' <br> | |||
''Contributions to Microbiology'', 16:33-64, 2009 <br> | |||
[[User:ChrisRao|Rao CV]], Ordal GW <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19494578 PubMed] | |||
<br> | |||
'''Engineering transcription factors with novel DNA-binding specificity using comparative genomics''' <br> | |||
''Nucleic Acids Research'', 37(8):2493-503, 2009 <br> | |||
Desai TA, Rodionov DA, Gelfand MS, Alm EJ, [[User:ChrisRao|Rao CV]] <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19264798 PubMed] | |||
<br> | |||
'''Role of FimW, FimY, and FimZ in regulating the expression of type i fimbriae in ''Salmonella enterica'' serovar Typhimurium''' <br> | |||
''Journal of Bacteriology'', 191(9):3003-10, 2009 <br> | |||
Saini S, Pearl JA, [[User:ChrisRao|Rao CV]] <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19218381 PubMed] | |||
<br> | |||
'''Calling heads from tails: the role of mathematical modeling in understanding cell polarization''' <br> | |||
''Current Opinions in Cell Biology'', 21(1):74-81, 2009 <br> | |||
Onsum MD, [[User:ChrisRao|Rao CV]] <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/19167872 PubMed] | |||
<br> | |||
'''The rate of protein secretion dictates the temporal dynamics of flagellar gene expression''' <br> | |||
''Molecular Microbiology'', 70(4):924-37, 2008 <br> | |||
Brown JD, Saini S, Aldridge C, Herbert J, [[User:ChrisRao|Rao CV]], Aldridge PD <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/18811728 PubMed] | |||
<br> | |||
'''The three adaptation systems of ''Bacillus subtilis chemotaxis''''' <br> | |||
''Trends in Microbiology'', 16(10):480-7, 2008 <br> | |||
[[User:ChrisRao|Rao CV]], Glekas GD, Ordal GW <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/18774298 PubMed] | |||
<br> | |||
'''Computational design of orthogonal ribosomes''' <br> | |||
''Nucleic Acids Research'', 36(12):4038-46, 2008 <br> | |||
Chubiz LM, [[User:ChrisRao|Rao CV]] <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/18522973 PubMed] | |||
<br> | |||
'''FliZ Is a posttranslational activator of FlhD4C2-dependent flagellar gene expression''' <br> | |||
''Journal of Bacteriology'', 190(14):4979-88, 2008 <br> | |||
Saini S, Brown JD, Aldridge PD, [[User:ChrisRao|Rao CV]] <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/18469103 PubMed] | |||
<br> | |||
'''The Salmonella SPI1 type three secretion system responds to periplasmic disulfide bond status via the flagellar apparatus and the RcsCDB system''' <br> | |||
''Journal of Bacteriology'', 190(1):87-97, 2008 <br> | |||
Lin D, [[User:ChrisRao|Rao CV]], Slauch JM <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/17951383 PubMed] | |||
<br> | |||
'''A mathematical model for neutrophil gradient sensing and polarization''' <br> | |||
''PLoS Computational Biology'', 116;3(3):e36, 2007 <br> | |||
Onsum MD, [[User:ChrisRao|Rao CV]]<br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/17367201 PubMed] [http://toothbase.scs.uiuc.edu/~chris/onsum2007.pdf PDF] [http://toothbase.scs.uiuc.edu/~chris/Final_Modelv2.tar Matlab Code] | |||
<br> | |||
'''Phosphatase localization in bacterial chemotaxis: divergent mechanisms, convergent principles''' <br> | |||
''Physical Biology'', 14;2(3):148-58, 2005 <br> | |||
[[User:ChrisRao|Rao CV]], Kirby JR, Arkin AP <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/16224120 PubMed] | |||
[[ | <br> | ||
'''An allosteric model for transmembrane signaling in bacterial chemotaxis''' <br> | |||
''Journal of Molecular Biology'', 15;343(2):291-303, 2004 <br> | |||
[[User:ChrisRao|Rao CV]], Frenklach M, Arkin AP <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/15451661 PubMed] | |||
<br> | |||
'''Design and diversity in bacterial chemotaxis: a comparative study in ''Escherichia coli'' and ''Bacillus subtilis''''' <br> | |||
''PLoS Biology'', 2(2):E49, 2004 <br> | |||
[[User:ChrisRao|Rao CV]], Kirby JR, Arkin AP <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/14966542 PubMed] | |||
<br> | |||
'''Stochastic chemical kinetics and the quasi-steady-state assumption: Application to the Gillespie algorithm''' <br> | |||
''Journal of Chemical Physics'', 118(11):4999-5010, 2003 <br> | |||
[[User:ChrisRao|Rao CV]], Kirby JR, Arkin AP <br> | |||
[http://jcp.aip.org/resource/1/jcpsa6/v118/i11/p4999_s1 Url] | |||
<br> | |||
'''Constrained state estimation for nonlinear discrete-time systems: stability and moving horizon approximations''' <br> | |||
''IEEE Transactions on Automatic Control'', 48(2):246-258, 2003 <br> | |||
[[User:ChrisRao|Rao CV]], Rawlings JB, Mayne DQ <br> | |||
[http://toothbase.scs.uiuc.edu/~chris/rao_ieee2003.pdf PDF] | |||
<br> | |||
'''Control, exploitation and tolerance of intracellular noise''' <br> | |||
''Nature'', 14;420(6912):246 - 258, 2002 <br> | |||
[[User:ChrisRao|Rao CV]], Wolf DM, Arkin AP <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/12432408 PubMed] [http://toothbase.scs.uiuc.edu/~chris/rao2002.pdf PDF] | |||
<br> | |||
'''Control motifs for intracellular regulatory networks''' <br> | |||
''Annual Reviews in Biomedical Engineering'', 3:391-419, 2001 <br> | |||
[[User:ChrisRao|Rao CV]], Arkin AP <br> | |||
[http://www.ncbi.nlm.nih.gov/pubmed/11447069 PubMed] [http://toothbase.scs.uiuc.edu/~chris/rao_review2001.pdf PDF] | |||
<br> | |||
'''Constrained process monitoring: A moving horizon approach''' <br> | |||
''AIChE Journal'', 48:97–109, 2002. <br> | |||
Rao CV, Rawlings JB <br> | |||
[http://toothbase.scs.uiuc.edu/~chris/rao_aiche2002.pdf PDF] | |||
<br> | |||
'''Constrained linear state estimation - a moving horizon approach''' <br> | |||
''Automatica'', 37:1619–1628, 2001 <br> | |||
Rao CV, Rawlings JB, Lee JH <br> | |||
[http://toothbase.scs.uiuc.edu/~chris/rao_automatica2001.pdf PDF] | |||
<br> | |||
'''Constrained Model Predictive Control: Stability and optimality''' <br> | |||
''Automatica'', 36:789-814, 2000 <br> | |||
Mayne DQ, Rawlings JB, [[User:ChrisRao|Rao CV]], Scokaert POM<br> | |||
[http://genomics.lbl.gov/~chris/automatica2000.pdf PDF] | |||
<br> | |||
'''Linear Programming and Model Predictive Control'''<br> | |||
''Journal of Process Control'', 10:283–289, 2000 <br> | |||
[[User:ChrisRao|Rao CV]], Rawlings, JB <br> | |||
[http://toothbase.scs.uiuc.edu/~chris/rao_jpc2000.pdf PDF] | |||
<br> | |||
'''Steady states and constraints in model predictive control''' <br> | |||
''AIChE Journal'', 45:1266–1278, 1999 <br> | |||
[[User:ChrisRao|Rao CV]], Rawlings JB <br> | |||
[http://toothbase.scs.uiuc.edu/~chris/rao_aiche1999.pdf PDF] | |||
<br> | |||
'''Application of Interior-Point Methods to Model Predictive Control''' <br> | |||
''Journal of Optimization Theory and Applications'', 99(3):723-757, 1998 <br> | |||
[[User:ChrisRao|Rao CV]], Wright SJ, Rawlings JB<br> | |||
[http://toothbase.scs.uiuc.edu/~chris/Rao_JOTA1998.pdf PDF] |
Latest revision as of 19:48, 28 October 2011
Rao Lab
|
PublicationsPDF reprints are provided below within the context of fair use. Please obtain copies from the publisher if appropriate.
|