Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 44

1.

PyBioNetFit and the Biological Property Specification Language.

Mitra ED, Suderman R, Colvin J, Ionkov A, Hu A, Sauro HM, Posner RG, Hlavacek WS.

iScience. 2019 Sep 27;19:1012-1036. doi: 10.1016/j.isci.2019.08.045. Epub 2019 Aug 28.

2.

A Step-by-Step Guide to Using BioNetFit.

Hlavacek WS, Csicsery-Ronay JA, Baker LR, Ramos Álamo MDC, Ionkov A, Mitra ED, Suderman R, Erickson KE, Dias R, Colvin J, Thomas BR, Posner RG.

Methods Mol Biol. 2019;1945:391-419. doi: 10.1007/978-1-4939-9102-0_18.

PMID:
30945257
3.

Modeling cell line-specific recruitment of signaling proteins to the insulin-like growth factor 1 receptor.

Erickson KE, Rukhlenko OS, Shahinuzzaman M, Slavkova KP, Lin YT, Suderman R, Stites EC, Anghel M, Posner RG, Barua D, Kholodenko BN, Hlavacek WS.

PLoS Comput Biol. 2019 Jan 17;15(1):e1006706. doi: 10.1371/journal.pcbi.1006706. eCollection 2019 Jan.

4.

Using both qualitative and quantitative data in parameter identification for systems biology models.

Mitra ED, Dias R, Posner RG, Hlavacek WS.

Nat Commun. 2018 Sep 25;9(1):3901. doi: 10.1038/s41467-018-06439-z.

5.

Dissecting RAF Inhibitor Resistance by Structure-based Modeling Reveals Ways to Overcome Oncogenic RAS Signaling.

Rukhlenko OS, Khorsand F, Krstic A, Rozanc J, Alexopoulos LG, Rauch N, Erickson KE, Hlavacek WS, Posner RG, Gómez-Coca S, Rosta E, Fitzgibbon C, Matallanas D, Rauch J, Kolch W, Kholodenko BN.

Cell Syst. 2018 Aug 22;7(2):161-179.e14. doi: 10.1016/j.cels.2018.06.002. Epub 2018 Jul 11.

6.

New insights into RAS biology reinvigorate interest in mathematical modeling of RAS signaling.

Erickson KE, Rukhlenko OS, Posner RG, Hlavacek WS, Kholodenko BN.

Semin Cancer Biol. 2019 Feb;54:162-173. doi: 10.1016/j.semcancer.2018.02.008. Epub 2018 Mar 5. Review.

7.

A phase 2 trial of personalized cytotoxic therapy based on tumor immunohistochemistry in previously treated metastatic pancreatic cancer patients.

Ramanathan RK, Weiss GJ, Posner RG, Rajeshkumar NV, Jameson G, Aziz M, Hoering A, Bolejack V, Maitra A, Fulk M, Stites EC, Hlavacek WS, Gatalica Z, Xiu J, Hidalgo M, Von Hoff DD, Barrett MT.

J Gastrointest Oncol. 2017 Dec;8(6):925-935. doi: 10.21037/jgo.2017.09.05.

8.

Clinical study of genomic drivers in pancreatic ductal adenocarcinoma.

Barrett MT, Deiotte R, Lenkiewicz E, Malasi S, Holley T, Evers L, Posner RG, Jones T, Han H, Sausen M, Velculescu VE, Drebin J, O'Dwyer P, Jameson G, Ramanathan RK, Von Hoff DD.

Br J Cancer. 2017 Aug 8;117(4):572-582. doi: 10.1038/bjc.2017.209. Epub 2017 Jul 18.

9.

AutoDock VinaXB: implementation of XBSF, new empirical halogen bond scoring function, into AutoDock Vina.

Koebel MR, Schmadeke G, Posner RG, Sirimulla S.

J Cheminform. 2016 May 18;8:27. doi: 10.1186/s13321-016-0139-1. eCollection 2016.

10.

BioNetFit: a fitting tool compatible with BioNetGen, NFsim and distributed computing environments.

Thomas BR, Chylek LA, Colvin J, Sirimulla S, Clayton AH, Hlavacek WS, Posner RG.

Bioinformatics. 2016 Mar 1;32(5):798-800. doi: 10.1093/bioinformatics/btv655. Epub 2015 Nov 9.

11.

Use of mechanistic models to integrate and analyze multiple proteomic datasets.

Stites EC, Aziz M, Creamer MS, Von Hoff DD, Posner RG, Hlavacek WS.

Biophys J. 2015 Apr 7;108(7):1819-1829. doi: 10.1016/j.bpj.2015.02.030.

12.

Tumor-stromal interactions in pancreatic cancer.

Whatcott C, Han H, Posner RG, Von Hoff DD.

Crit Rev Oncog. 2013;18(1-2):135-51. Review.

13.

Computational model for autophagic vesicle dynamics in single cells.

Martin KR, Barua D, Kauffman AL, Westrate LM, Posner RG, Hlavacek WS, Mackeigan JP.

Autophagy. 2013 Jan;9(1):74-92. doi: 10.4161/auto.22532. Epub 2012 Nov 29.

14.

Specification, annotation, visualization and simulation of a large rule-based model for ERBB receptor signaling.

Creamer MS, Stites EC, Aziz M, Cahill JA, Tan CW, Berens ME, Han H, Bussey KJ, Von Hoff DD, Hlavacek WS, Posner RG.

BMC Syst Biol. 2012 Aug 22;6:107. doi: 10.1186/1752-0509-6-107.

15.

Desmoplasia and chemoresistance in pancreatic cancer.

Whatcott CJ, Posner RG, Von Hoff DD, Han H.

In: Grippo PJ, Munshi HG, editors. Pancreatic Cancer and Tumor Microenvironment. Trivandrum (India): Transworld Research Network; 2012. Chapter 8.

16.

Targeting the tumor microenvironment in cancer: why hyaluronidase deserves a second look.

Whatcott CJ, Han H, Posner RG, Hostetter G, Von Hoff DD.

Cancer Discov. 2011 Sep;1(4):291-6. doi: 10.1158/2159-8290.CD-11-0136.

17.

Guidelines for visualizing and annotating rule-based models.

Chylek LA, Hu B, Blinov ML, Emonet T, Faeder JR, Goldstein B, Gutenkunst RN, Haugh JM, Lipniacki T, Posner RG, Yang J, Hlavacek WS.

Mol Biosyst. 2011 Oct;7(10):2779-95. doi: 10.1039/c1mb05077j. Epub 2011 Jun 7.

18.

RuleMonkey: software for stochastic simulation of rule-based models.

Colvin J, Monine MI, Gutenkunst RN, Hlavacek WS, Von Hoff DD, Posner RG.

BMC Bioinformatics. 2010 Jul 30;11:404. doi: 10.1186/1471-2105-11-404.

19.

Modeling multivalent ligand-receptor interactions with steric constraints on configurations of cell-surface receptor aggregates.

Monine MI, Posner RG, Savage PB, Faeder JR, Hlavacek WS.

Biophys J. 2010 Jan 6;98(1):48-56. doi: 10.1016/j.bpj.2009.09.043.

20.

GetBonNie for building, analyzing and sharing rule-based models.

Hu B, Matthew Fricke G, Faeder JR, Posner RG, Hlavacek WS.

Bioinformatics. 2009 Jun 1;25(11):1457-60. doi: 10.1093/bioinformatics/btp173. Epub 2009 Mar 25.

21.

Simulation of large-scale rule-based models.

Colvin J, Monine MI, Faeder JR, Hlavacek WS, Von Hoff DD, Posner RG.

Bioinformatics. 2009 Apr 1;25(7):910-7. doi: 10.1093/bioinformatics/btp066. Epub 2009 Feb 11.

22.

Predominance of activated EGFR higher-order oligomers on the cell surface.

Clayton AH, Orchard SG, Nice EC, Posner RG, Burgess AW.

Growth Factors. 2008 Dec;26(6):316-24. doi: 10.1080/08977190802442187.

PMID:
18937111
23.

Trivalent antigens for degranulation of mast cells.

Posner RG, Geng D, Haymore S, Bogert J, Pecht I, Licht A, Savage PB.

Org Lett. 2007 Aug 30;9(18):3551-4. Epub 2007 Aug 11.

24.

Rules for modeling signal-transduction systems.

Hlavacek WS, Faeder JR, Blinov ML, Posner RG, Hucka M, Fontana W.

Sci STKE. 2006 Jul 18;2006(344):re6. Review.

PMID:
16849649
25.

Glutathione-S-transferase-green fluorescent protein fusion protein reveals slow dissociation from high site density beads and measures free GSH.

Tessema M, Simons PC, Cimino DF, Sanchez L, Waller A, Posner RG, Wandinger-Ness A, Prossnitz ER, Sklar LA.

Cytometry A. 2006 May;69(5):326-34.

26.

CO2 transduction mechanisms in avian intrapulmonary chemoreceptors: experiments and models.

Hempleman SC, Posner RG.

Respir Physiol Neurobiol. 2004 Dec 15;144(2-3):203-14. Review.

PMID:
15556103
27.

Interaction of a monoclonal IgE-specific antibody with cell-surface IgE-Fc epsilon RI: characterization of equilibrium binding and secretory response.

Posner RG, Paar JM, Licht A, Pecht I, Conrad DH, Hlavacek WS.

Biochemistry. 2004 Sep 7;43(35):11352-60.

PMID:
15366945
28.

A quantitative approach for studying IgE-FcepsilonRI aggregation.

Posner RG, Savage PB, Peters AS, Macias A, DelGado J, Zwartz G, Sklar LA, Hlavacek WS.

Mol Immunol. 2002 Sep;38(16-18):1221-8.

PMID:
12217387
29.
30.

Quantifying aggregation of IgE-FcepsilonRI by multivalent antigen.

Hlavacek WS, Perelson AS, Sulzer B, Bold J, Paar J, Gorman W, Posner RG.

Biophys J. 1999 May;76(5):2421-31.

31.
32.

A rapid mix flow cytometer with subsecond kinetic resolution.

Nolan JP, Posner RG, Martin JC, Habbersett R, Sklar LA.

Cytometry. 1995 Nov 1;21(3):223-9.

33.

Simultaneous cross-linking by two nontriggering bivalent ligands causes synergistic signaling of IgE Fc epsilon RI complexes.

Posner RG, Subramanian K, Goldstein B, Thomas J, Feder T, Holowka D, Baird B.

J Immunol. 1995 Oct 1;155(7):3601-9.

PMID:
7561059
34.
35.

Flow cytometric analysis of transmembrane phospholipid movement in bull sperm.

Nolan JP, Magargee SF, Posner RG, Hammerstedt RH.

Biochemistry. 1995 Mar 28;34(12):3907-15.

PMID:
7696254
36.

Binding of bivalent ligand to cell surface IgE: can one detect ring formation?

Posner RG, Dembo M.

Mol Immunol. 1994 Dec;31(18):1439-45.

PMID:
7823970
37.

Multiparameter flow cytometric analysis of a pH sensitive formyl peptide with application to receptor structure and processing kinetics.

Fay SP, Habbersett R, Domalewski MD, Posner RG, Houghton TG, Pierson E, Muthukumaraswamy N, Whitaker J, Haugland RP, Freer RJ, et al.

Cytometry. 1994 Feb 1;15(2):148-53.

38.

Continuous spectrofluorometric analysis of formyl peptide receptor ternary complex interactions.

Posner RG, Fay SP, Domalewski MD, Sklar LA.

Mol Pharmacol. 1994 Jan;45(1):65-73.

PMID:
8302282
39.
40.

Real-time analysis of the assembly of ligand, receptor, and G protein by quantitative fluorescence flow cytometry.

Fay SP, Posner RG, Swann WN, Sklar LA.

Biochemistry. 1991 May 21;30(20):5066-75.

PMID:
1645188
41.

Dissociation kinetics of bivalent ligand-immunoglobulin E aggregates in solution.

Posner RG, Erickson JW, Holowka D, Baird B, Goldstein B.

Biochemistry. 1991 Mar 5;30(9):2348-56.

PMID:
1900432
42.
43.
44.

Temperature dependence of anion transport inhibitor binding to human red cell membranes.

Posner RG, Dix JA.

Biophys Chem. 1985 Nov;23(1-2):139-45.

PMID:
4092079

Supplemental Content

Loading ...
Support Center