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Results: 1 to 20 of 34

1.

Multistate Model Builder (MSMB): a flexible editor for compact biochemical models.

Palmisano A, Hoops S, Watson LT, Jones TC Jr, Tyson JJ, Shaffer CA.

BMC Syst Biol. 2014 Apr 4;8:42. doi: 10.1186/1752-0509-8-42.

PMID:
24708852
[PubMed - in process]
Free Article
2.

Predictive computational modeling of the mucosal immune responses during Helicobacter pylori infection.

Carbo A, Bassaganya-Riera J, Pedragosa M, Viladomiu M, Marathe M, Eubank S, Wendelsdorf K, Bisset K, Hoops S, Deng X, Alam M, Kronsteiner B, Mei Y, Hontecillas R.

PLoS One. 2013 Sep 5;8(9):e73365. doi: 10.1371/journal.pone.0073365. eCollection 2013.

PMID:
24039925
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Systems modeling of molecular mechanisms controlling cytokine-driven CD4+ T cell differentiation and phenotype plasticity.

Carbo A, Hontecillas R, Kronsteiner B, Viladomiu M, Pedragosa M, Lu P, Philipson CW, Hoops S, Marathe M, Eubank S, Bisset K, Wendelsdorf K, Jarrah A, Mei Y, Bassaganya-Riera J.

PLoS Comput Biol. 2013 Apr;9(4):e1003027. doi: 10.1371/journal.pcbi.1003027. Epub 2013 Apr 4.

PMID:
23592971
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Modeling the role of peroxisome proliferator-activated receptor γ and microRNA-146 in mucosal immune responses to Clostridium difficile.

Viladomiu M, Hontecillas R, Pedragosa M, Carbo A, Hoops S, Michalak P, Michalak K, Guerrant RL, Roche JK, Warren CA, Bassaganya-Riera J.

PLoS One. 2012;7(10):e47525. doi: 10.1371/journal.pone.0047525. Epub 2012 Oct 11.

PMID:
23071818
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

ENteric Immunity SImulator: a tool for in silico study of gastroenteric infections.

Wendelsdorf KV, Alam M, Bassaganya-Riera J, Bisset K, Eubank S, Hontecillas R, Hoops S, Marathe M.

IEEE Trans Nanobioscience. 2012 Sep;11(3):273-88. doi: 10.1109/TNB.2012.2211891.

PMID:
22987134
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Condor-COPASI: high-throughput computing for biochemical networks.

Kent E, Hoops S, Mendes P.

BMC Syst Biol. 2012 Jul 26;6:91. doi: 10.1186/1752-0509-6-91.

PMID:
22834945
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Hybrid modeling and simulation of stochastic effects on progression through the eukaryotic cell cycle.

Liu Z, Pu Y, Li F, Shaffer CA, Hoops S, Tyson JJ, Cao Y.

J Chem Phys. 2012 Jan 21;136(3):034105. doi: 10.1063/1.3677190.

PMID:
22280742
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Controlled vocabularies and semantics in systems biology.

Courtot M, Juty N, Knüpfer C, Waltemath D, Zhukova A, Dräger A, Dumontier M, Finney A, Golebiewski M, Hastings J, Hoops S, Keating S, Kell DB, Kerrien S, Lawson J, Lister A, Lu J, Machne R, Mendes P, Pocock M, Rodriguez N, Villeger A, Wilkinson DJ, Wimalaratne S, Laibe C, Hucka M, Le Novère N.

Mol Syst Biol. 2011 Oct 25;7:543. doi: 10.1038/msb.2011.77.

PMID:
22027554
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Minimum Information About a Simulation Experiment (MIASE).

Waltemath D, Adams R, Beard DA, Bergmann FT, Bhalla US, Britten R, Chelliah V, Cooling MT, Cooper J, Crampin EJ, Garny A, Hoops S, Hucka M, Hunter P, Klipp E, Laibe C, Miller AK, Moraru I, Nickerson D, Nielsen P, Nikolski M, Sahle S, Sauro HM, Schmidt H, Snoep JL, Tolle D, Wolkenhauer O, Le Novère N.

PLoS Comput Biol. 2011 Apr;7(4):e1001122. doi: 10.1371/journal.pcbi.1001122. Epub 2011 Apr 28. No abstract available.

PMID:
21552546
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Validity of the MoCA and MMSE in the detection of MCI and dementia in Parkinson disease.

Hoops S, Nazem S, Siderowf AD, Duda JE, Xie SX, Stern MB, Weintraub D.

Neurology. 2009 Nov 24;73(21):1738-45. doi: 10.1212/WNL.0b013e3181c34b47.

PMID:
19933974
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Enzyme kinetics and computational modeling for systems biology.

Mendes P, Messiha H, Malys N, Hoops S.

Methods Enzymol. 2009;467:583-99. doi: 10.1016/S0076-6879(09)67022-1.

PMID:
19897108
[PubMed - indexed for MEDLINE]
12.

Validation of the questionnaire for impulsive-compulsive disorders in Parkinson's disease.

Weintraub D, Hoops S, Shea JA, Lyons KE, Pahwa R, Driver-Dunckley ED, Adler CH, Potenza MN, Miyasaki J, Siderowf AD, Duda JE, Hurtig HI, Colcher A, Horn SS, Stern MB, Voon V.

Mov Disord. 2009 Jul 30;24(10):1461-7. doi: 10.1002/mds.22571.

PMID:
19452562
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Computational modeling of biochemical networks using COPASI.

Mendes P, Hoops S, Sahle S, Gauges R, Dada J, Kummer U.

Methods Mol Biol. 2009;500:17-59. doi: 10.1007/978-1-59745-525-1_2.

PMID:
19399433
[PubMed - indexed for MEDLINE]
14.

A new strategy for assessing sensitivities in biochemical models.

Sahle S, Mendes P, Hoops S, Kummer U.

Philos Trans A Math Phys Eng Sci. 2008 Oct 13;366(1880):3619-31. doi: 10.1098/rsta.2008.0108.

PMID:
18632455
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

ModelMage: a tool for automatic model generation, selection and management.

Flöttmann M, Schaber J, Hoops S, Klipp E, Mendes P.

Genome Inform. 2008;20:52-63.

PMID:
19425122
[PubMed - indexed for MEDLINE]
16.

COPASI--a COmplex PAthway SImulator.

Hoops S, Sahle S, Gauges R, Lee C, Pahle J, Simus N, Singhal M, Xu L, Mendes P, Kummer U.

Bioinformatics. 2006 Dec 15;22(24):3067-74. Epub 2006 Oct 10.

PMID:
17032683
[PubMed - indexed for MEDLINE]
Free Article
17.

Apoptotic vesicles crossprime CD8 T cells and protect against tuberculosis.

Winau F, Weber S, Sad S, de Diego J, Hoops SL, Breiden B, Sandhoff K, Brinkmann V, Kaufmann SH, Schaible UE.

Immunity. 2006 Jan;24(1):105-17.

PMID:
16413927
[PubMed - indexed for MEDLINE]
Free Article
18.

Functional characterization of the postulated intramolecular sphingolipid activator protein domain of human acid sphingomyelinase.

Kölzer M, Ferlinz K, Bartelsen O, Hoops SL, Lang F, Sandhoff K.

Biol Chem. 2004 Dec;385(12):1193-5.

PMID:
15653433
[PubMed - indexed for MEDLINE]
19.

Pulmonary edema associated with the treatment of preterm labor: what critical care nurses need to know.

Dabbs AD, Kraemer KL, Hoops S.

Crit Care Nurse. 1996 Jun;16(3):44-51. Review.

PMID:
8852260
[PubMed - indexed for MEDLINE]
20.

Oral contraceptives and renal and retinal complications in young women with insulin-dependent diabetes mellitus.

Garg SK, Chase HP, Marshall G, Hoops SL, Holmes DL, Jackson WE.

JAMA. 1994 Apr 13;271(14):1099-102.

PMID:
8151852
[PubMed - indexed for MEDLINE]

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