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Myeloid and CD4 T Cells Comprise the Latent Reservoir in Antiretroviral Therapy-Suppressed SIVmac251-Infected Macaques.

Abreu CM, Veenhuis RT, Avalos CR, Graham S, Parrilla DR, Ferreira EA, Queen SE, Shirk EN, Bullock BT, Li M, Metcalf Pate KA, Beck SE, Mangus LM, Mankowski JL, Mac Gabhann F, O'Connor SL, Gama L, Clements JE.

mBio. 2019 Aug 20;10(4). pii: e01659-19. doi: 10.1128/mBio.01659-19.


Wisdom of crowds in computational biology.

Papin JA, Mac Gabhann F.

PLoS Comput Biol. 2019 May 23;15(5):e1007032. doi: 10.1371/journal.pcbi.1007032. eCollection 2019 May. No abstract available.


Tumor and endothelial cells collaborate via transcellular receptor complexes.

Sarabipour S, Mac Gabhann F.

J Pathol. 2019 Feb;247(2):155-157. doi: 10.1002/path.5185. Epub 2018 Nov 29.


Context-dependent regulation of receptor tyrosine kinases: Insights from systems biology approaches.

Lam I, Pickering CM, Mac Gabhann F.

Wiley Interdiscip Rev Syst Biol Med. 2019 Mar;11(2):e1437. doi: 10.1002/wsbm.1437. Epub 2018 Sep 26. Review.


TILRR Steers Interleukin-1 Signaling: Co-Receptor Provides Context and a Therapeutic Target.

Mac Gabhann F.

JACC Basic Transl Sci. 2017 Aug 28;2(4):415-417. doi: 10.1016/j.jacbts.2017.06.001. eCollection 2017 Aug. No abstract available.


A computational analysis of pro-angiogenic therapies for peripheral artery disease.

Clegg LE, Mac Gabhann F.

Integr Biol (Camb). 2018 Jan 22;10(1):18-33. doi: 10.1039/c7ib00218a.


Arterialized collateral capillaries progress from nonreactive to capable of increasing perfusion in an ischemic arteriolar tree.

Gouin KH 3rd, Hellstrom SK, Clegg LE, Cutts J, Mac Gabhann F, Cardinal TR.

Microcirculation. 2018 Apr;25(3):e12438. doi: 10.1111/micc.12438.


Computational Systems Biochemistry: Beyond the Static Interactome.

Sarabipour S, Mac Gabhann F.

Biochemistry. 2018 Jan 9;57(1):9-10. doi: 10.1021/acs.biochem.7b01133. Epub 2017 Dec 8. No abstract available.


Systems Pharmacology of VEGF165b in Peripheral Artery Disease.

Clegg LE, Ganta VC, Annex BH, Mac Gabhann F.

CPT Pharmacometrics Syst Pharmacol. 2017 Dec;6(12):833-844. doi: 10.1002/psp4.12261. Epub 2017 Nov 28.


VEGF-A121a binding to Neuropilins - A concept revisited.

Sarabipour S, Mac Gabhann F.

Cell Adh Migr. 2018 May 4;12(3):204-214. doi: 10.1080/19336918.2017.1372878. Epub 2017 Nov 2. Review.


Brain Macrophages in Simian Immunodeficiency Virus-Infected, Antiretroviral-Suppressed Macaques: a Functional Latent Reservoir.

Avalos CR, Abreu CM, Queen SE, Li M, Price S, Shirk EN, Engle EL, Forsyth E, Bullock BT, Mac Gabhann F, Wietgrefe SW, Haase AT, Zink MC, Mankowski JL, Clements JE, Gama L.

mBio. 2017 Aug 15;8(4). pii: e01186-17. doi: 10.1128/mBio.01186-17.


Agent-based computational model of retinal angiogenesis simulates microvascular network morphology as a function of pericyte coverage.

Walpole J, Mac Gabhann F, Peirce SM, Chappell JC.

Microcirculation. 2017 Nov;24(8). doi: 10.1111/micc.12393.


A computational analysis of in vivo VEGFR activation by multiple co-expressed ligands.

Clegg LE, Mac Gabhann F.

PLoS Comput Biol. 2017 Mar 20;13(3):e1005445. doi: 10.1371/journal.pcbi.1005445. eCollection 2017 Mar.


Further Support for ECM Control of Receptor Trafficking and Signaling.

Clegg L, Mac Gabhann F.

J Cell Physiol. 2017 Jan;232(1):36-7. doi: 10.1002/jcp.25464.


Flt-1 (VEGFR-1) coordinates discrete stages of blood vessel formation.

Chappell JC, Cluceru JG, Nesmith JE, Mouillesseaux KP, Bradley VB, Hartland CM, Hashambhoy-Ramsay YL, Walpole J, Peirce SM, Mac Gabhann F, Bautch VL.

Cardiovasc Res. 2016 Jul 1;111(1):84-93. doi: 10.1093/cvr/cvw091. Epub 2016 May 3.


Agent-based model of angiogenesis simulates capillary sprout initiation in multicellular networks.

Walpole J, Chappell JC, Cluceru JG, Mac Gabhann F, Bautch VL, Peirce SM.

Integr Biol (Camb). 2015 Sep;7(9):987-97. doi: 10.1039/c5ib00024f. Epub 2015 Jul 9.


Molecular mechanism matters: Benefits of mechanistic computational models for drug development.

Clegg LE, Mac Gabhann F.

Pharmacol Res. 2015 Sep;99:149-54. doi: 10.1016/j.phrs.2015.06.002. Epub 2015 Jun 18. Review.


Site-Specific Phosphorylation of VEGFR2 Is Mediated by Receptor Trafficking: Insights from a Computational Model.

Clegg LW, Mac Gabhann F.

PLoS Comput Biol. 2015 Jun 12;11(6):e1004158. doi: 10.1371/journal.pcbi.1004158. eCollection 2015 Jun.


Multiplexed Component Analysis to Identify Genes Contributing to the Immune Response during Acute SIV Infection.

Hosseini I, Gama L, Mac Gabhann F.

PLoS One. 2015 May 18;10(5):e0126843. doi: 10.1371/journal.pone.0126843. eCollection 2015.


Applications of computational models to better understand microvascular remodelling: a focus on biomechanical integration across scales.

Murfee WL, Sweat RS, Tsubota K, Mac Gabhann F, Khismatullin D, Peirce SM.

Interface Focus. 2015 Apr 6;5(2):20140077. doi: 10.1098/rsfs.2014.0077. Review.


Systems biology of the microvasculature.

Clegg LE, Mac Gabhann F.

Integr Biol (Camb). 2015 May;7(5):498-512. doi: 10.1039/c4ib00296b. Epub 2015 Apr 2. Review.


Divide and conquer, faster: speeding up molecular simulations.

Mac Gabhann F.

Biophys J. 2015 Feb 3;108(3):455-6. doi: 10.1016/j.bpj.2014.12.026. No abstract available.


Signaling Network Map of Endothelial TEK Tyrosine Kinase.

Khan AA, Sandhya VK, Singh P, Parthasarathy D, Kumar A, Advani J, Gattu R, Ranjit DV, Vaidyanathan R, Mathur PP, Prasad TS, Mac Gabhann F, Pandey A, Raju R, Gowda H.

J Signal Transduct. 2014;2014:173026. doi: 10.1155/2014/173026. Epub 2014 Oct 13.


Extracellular regulation of VEGF: isoforms, proteolysis, and vascular patterning.

Vempati P, Popel AS, Mac Gabhann F.

Cytokine Growth Factor Rev. 2014 Feb;25(1):1-19. doi: 10.1016/j.cytogfr.2013.11.002. Epub 2013 Nov 27. Review.


A systems biology view of blood vessel growth and remodelling.

Logsdon EA, Finley SD, Popel AS, Mac Gabhann F.

J Cell Mol Med. 2014 Aug;18(8):1491-508. doi: 10.1111/jcmm.12164. Epub 2013 Nov 17. Review.


Computational model of VEGFR2 pathway to ERK activation and modulation through receptor trafficking.

Tan WH, Popel AS, Mac Gabhann F.

Cell Signal. 2013 Dec;25(12):2496-510. doi: 10.1016/j.cellsig.2013.08.015. Epub 2013 Aug 29.


Endothelial cell-dependent regulation of arteriogenesis.

Moraes F, Paye J, Mac Gabhann F, Zhuang ZW, Zhang J, Lanahan AA, Simons M.

Circ Res. 2013 Oct 12;113(9):1076-86. doi: 10.1161/CIRCRESAHA.113.301340. Epub 2013 Jul 29.


Computational Model of Gab1/2-Dependent VEGFR2 Pathway to Akt Activation.

Tan WH, Popel AS, Mac Gabhann F.

PLoS One. 2013 Jun 21;8(6):e67438. doi: 10.1371/journal.pone.0067438. Print 2013.


APOBEC3G-Augmented Stem Cell Therapy to Modulate HIV Replication: A Computational Study.

Hosseini I, Mac Gabhann F.

PLoS One. 2013 May 22;8(5):e63984. doi: 10.1371/journal.pone.0063984. Print 2013.


Expression of VEGF and semaphorin genes define subgroups of triple negative breast cancer.

Bender RJ, Mac Gabhann F.

PLoS One. 2013 May 8;8(5):e61788. doi: 10.1371/journal.pone.0061788. Print 2013.


Murine spinotrapezius model to assess the impact of arteriolar ligation on microvascular function and remodeling.

Guendel AM, Martin KS, Cutts J, Foley PL, Bailey AM, Mac Gabhann F, Cardinal TR, Peirce SM.

J Vis Exp. 2013 Mar 3;(73):e50218. doi: 10.3791/50218.


Effects of fiber type and size on the heterogeneity of oxygen distribution in exercising skeletal muscle.

Liu G, Mac Gabhann F, Popel AS.

PLoS One. 2012;7(9):e44375. doi: 10.1371/journal.pone.0044375. Epub 2012 Sep 18.


Vascular morphogenesis of adipose-derived stem cells is mediated by heterotypic cell-cell interactions.

Hutton DL, Logsdon EA, Moore EM, Mac Gabhann F, Gimble JM, Grayson WL.

Tissue Eng Part A. 2012 Aug;18(15-16):1729-40. doi: 10.1089/ten.TEA.2011.0599. Epub 2012 May 9.


Integration of experimental and computational approaches to sprouting angiogenesis.

Peirce SM, Mac Gabhann F, Bautch VL.

Curr Opin Hematol. 2012 May;19(3):184-91. doi: 10.1097/MOH.0b013e3283523ea6. Review.


Multi-scale modeling of HIV infection in vitro and APOBEC3G-based anti-retroviral therapy.

Hosseini I, Mac Gabhann F.

PLoS Comput Biol. 2012 Feb;8(2):e1002371. doi: 10.1371/journal.pcbi.1002371. Epub 2012 Feb 9.


Computational modeling of interacting VEGF and soluble VEGF receptor concentration gradients.

Hashambhoy YL, Chappell JC, Peirce SM, Bautch VL, Mac Gabhann F.

Front Physiol. 2011 Oct 4;2:62. doi: 10.3389/fphys.2011.00062. eCollection 2011.


Formation of VEGF isoform-specific spatial distributions governing angiogenesis: computational analysis.

Vempati P, Popel AS, Mac Gabhann F.

BMC Syst Biol. 2011 May 2;5:59. doi: 10.1186/1752-0509-5-59.


Module-based multiscale simulation of angiogenesis in skeletal muscle.

Liu G, Qutub AA, Vempati P, Mac Gabhann F, Popel AS.

Theor Biol Med Model. 2011 Apr 4;8:6. doi: 10.1186/1742-4682-8-6.


Computational models of VEGF-associated angiogenic processes in cancer.

Stefanini MO, Qutub AA, Mac Gabhann F, Popel AS.

Math Med Biol. 2012 Mar;29(1):85-94. doi: 10.1093/imammb/dqq025. Epub 2011 Jan 25.


Systems analysis of small signaling modules relevant to eight human diseases.

Benedict KF, Mac Gabhann F, Amanfu RK, Chavali AK, Gianchandani EP, Glaw LS, Oberhardt MA, Thorne BC, Yang JH, Papin JA, Peirce SM, Saucerman JJ, Skalak TC.

Ann Biomed Eng. 2011 Feb;39(2):621-35. doi: 10.1007/s10439-010-0208-y. Epub 2010 Dec 4.


Increase of plasma VEGF after intravenous administration of bevacizumab is predicted by a pharmacokinetic model.

Stefanini MO, Wu FT, Mac Gabhann F, Popel AS.

Cancer Res. 2010 Dec 1;70(23):9886-94. doi: 10.1158/0008-5472.CAN-10-1419. Epub 2010 Nov 30.


Systems biology of pro-angiogenic therapies targeting the VEGF system.

Mac Gabhann F, Qutub AA, Annex BH, Popel AS.

Wiley Interdiscip Rev Syst Biol Med. 2010 Nov-Dec;2(6):694-707. doi: 10.1002/wsbm.92. Review.


Gene therapy from the perspective of systems biology.

Mac Gabhann F, Annex BH, Popel AS.

Curr Opin Mol Ther. 2010 Oct;12(5):570-7. Review.


Selective activation of sphingosine 1-phosphate receptors 1 and 3 promotes local microvascular network growth.

Sefcik LS, Aronin CE, Awojoodu AO, Shin SJ, Mac Gabhann F, MacDonald TL, Wamhoff BR, Lynch KR, Peirce SM, Botchwey EA.

Tissue Eng Part A. 2011 Mar;17(5-6):617-29. doi: 10.1089/ten.TEA.2010.0404. Epub 2010 Nov 9.


Quantifying the proteolytic release of extracellular matrix-sequestered VEGF with a computational model.

Vempati P, Mac Gabhann F, Popel AS.

PLoS One. 2010 Jul 29;5(7):e11860. doi: 10.1371/journal.pone.0011860.


Collateral capillary arterialization following arteriolar ligation in murine skeletal muscle.

Mac Gabhann F, Peirce SM.

Microcirculation. 2010 Jul;17(5):333-47. doi: 10.1111/j.1549-8719.2010.00034.x.


VEGF and soluble VEGF receptor-1 (sFlt-1) distributions in peripheral arterial disease: an in silico model.

Wu FT, Stefanini MO, Mac Gabhann F, Kontos CD, Annex BH, Popel AS.

Am J Physiol Heart Circ Physiol. 2010 Jun;298(6):H2174-91. doi: 10.1152/ajpheart.00365.2009. Epub 2010 Apr 9.


The presence of VEGF receptors on the luminal surface of endothelial cells affects VEGF distribution and VEGF signaling.

Stefanini MO, Wu FT, Mac Gabhann F, Popel AS.

PLoS Comput Biol. 2009 Dec;5(12):e1000622. doi: 10.1371/journal.pcbi.1000622. Epub 2009 Dec 24.


A systems biology perspective on sVEGFR1: its biological function, pathogenic role and therapeutic use.

Wu FT, Stefanini MO, Mac Gabhann F, Kontos CD, Annex BH, Popel AS.

J Cell Mol Med. 2010 Mar;14(3):528-52. doi: 10.1111/j.1582-4934.2009.00941.x. Epub 2009 Oct 16. Review.

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