Aidan MacNamara

Aidan MacNamara

Postdoc fellow - Saez-Rodriguez research group

I studied zoology as the main component of a science degree (BA) in Trinity College, Dublin from 1998-2002. My thesis was a behavioral study of feeding preferences in domestic chickens. My postgraduate projects in the field of zoology included a study of cichlid speciation in the african great lakes and a turtle conservation program in the Dutch Antilles. I was awarded a 4-year Wellcome Trust scholarship in 2005, which encompassed an MSc in bioinformatics at Imperial College and a PhD in its Department of Immunology. For my PhD, I examined the host response to the retrovirus HTLV-I. Specifically, I used a variety of computational, modeling and statistical approaches to better understand why certain individuals remain asymptomatic during HTLV-I infection. My interests lie in the application of computational and mathematical techniques to biological questions, specifically in the subject of disease and drug discovery. I am currently researching the role of endocytosis in signal transduction pathways as part of an EIPOD fellowship in collaboration with the Schultz and Krijgsveld groups in EMBL-Heidelberg.

ORCID iD: 0000-0001-5958-2429

Tel:+ 44 (0) 1223 494 682 / Fax:+ 44 (0) 1223 48 46 96

Publications

2014

MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics.
Egea JA, Henriques D, Cokelaer T, Villaverde AF, MacNamara A, Danciu DP, Banga JR, Saez-Rodriguez J.
BMC Bioinformatics Volume 15 (2014) p.136
DOI: 10.1186/1471-2105-15-136

A rapidly reversible chemical dimerizer system to study lipid signaling in living cells.
Feng S, Laketa V, Stein F, Rutkowska A, MacNamara A, Depner S, Klingmüller U, Saez-Rodriguez J, Schultz C.
Angew Chem Int Ed Engl Volume 53 (2014) p.6720-6723
DOI: 10.1002/anie.201402294

PIP₃ induces the recycling of receptor tyrosine kinases.
Laketa V, Zarbakhsh S, Traynor-Kaplan A, Macnamara A, Subramanian D, Putyrski M, Mueller R, Nadler A, Mentel M, Saez-Rodriguez J, Pepperkok R, Schultz C.
Sci Signal Volume 7 (2014) p.ra5
DOI: 10.1126/scisignal.2004532

Frequency and function of KIR+ CD8+ T cells in HTLV-1 infection.
Twigger K, Rowan A, Seich al Basatena N, MacNamara A, Retiere C, Gould K, Taylor GP, Asquith B, Bangham CR.
Retrovirology Volume 11 (2014) p.p79-p79

2013

Modeling signaling networks with different formalisms: a preview.
MacNamara A, Henriques D, Saez-Rodriguez J.
Methods Mol Biol Volume 1021 (2013) p.89-105
DOI: 10.1007/978-1-62703-450-0_5

2012

CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms.
Terfve C, Cokelaer T, Henriques D, MacNamara A, Goncalves E, Morris MK, van Iersel M, Lauffenburger DA, Saez-Rodriguez J.
BMC Syst Biol Volume 6 (2012) p.133
DOI: 10.1186/1752-0509-6-133

State-time spectrum of signal transduction logic models.
MacNamara A, Terfve C, Henriques D, Bernabé BP, Saez-Rodriguez J.
Phys Biol Volume 9 (2012) p.045003
DOI: 10.1088/1478-3975/9/4/045003

In contrast to HIV, KIR3DS1 does not influence outcome in HTLV-1 retroviral infection.
O'Connor GM, Seich Al Basatena NK, Olavarria V, MacNamara A, Vine A, Ying Q, Hisada M, Galvão-Castro B, Asquith B, McVicar DW.
Hum Immunol Volume 73 (2012) p.783-787
DOI: 10.1016/j.humimm.2012.05.006

2011

In vivo expression of human T-lymphotropic virus type 1 basic leucine-zipper protein generates specific CD8+ and CD4+ T-lymphocyte responses that correlate with clinical outcome.
Hilburn S, Rowan A, Demontis MA, MacNamara A, Asquith B, Bangham CR, Taylor GP.
J Infect Dis Volume 203 (2011) p.529-536
DOI: 10.1093/infdis/jiq078

Short communication an interferon-γ ELISPOT assay with two cytotoxic T cell epitopes derived from HTLV-1 tax region 161-233 discriminates HTLV-1-associated myelopathy/tropical spastic paraparesis patients from asymptomatic HTLV-1 carriers in a Peruvian population.
Best I, López G, Talledo M, MacNamara A, Verdonck K, González E, Tipismana M, Asquith B, Gotuzzo E, Vanham G, Clark D.
AIDS Res Hum Retroviruses Volume 27 (2011) p.1207-1212
DOI: 10.1089/aid.2011.0029

KIR2DL2 enhances protective and detrimental HLA class I-mediated immunity in chronic viral infection.
Seich Al Basatena NK, Macnamara A, Vine AM, Thio CL, Astemborski J, Usuku K, Osame M, Kirk GD, Donfield SM, Goedert JJ, Bangham CR, Carrington M, Khakoo SI, Asquith B.
PLoS Pathog Volume 7 (2011) p.e1002270
DOI: 10.1371/journal.ppat.1002270

2010

HLA class I binding of HBZ determines outcome in HTLV-1 infection.
Macnamara A, Rowan A, Hilburn S, Kadolsky U, Fujiwara H, Suemori K, Yasukawa M, Taylor G, Bangham CR, Asquith B.
PLoS Pathog Volume 6 (2010) p.e1001117
DOI: 10.1371/journal.ppat.1001117

2009

The avidity and lytic efficiency of the CTL response to HTLV-1.
Kattan T, MacNamara A, Rowan AG, Nose H, Mosley AJ, Tanaka Y, Taylor GP, Asquith B, Bangham CR.
J Immunol Volume 182 (2009) p.5723-5729
DOI: 10.4049/jimmunol.0900069

T-cell epitope prediction: rescaling can mask biological variation between MHC molecules.
MacNamara A, Kadolsky U, Bangham CR, Asquith B.
PLoS Comput Biol Volume 5 (2009) p.e1000327
DOI: 10.1371/journal.pcbi.1000327