Our Research

The Systems Immunology Group investigates regulation of immune responses by human tissue resident dendritic cells using a comprehensive systems immunology approach: in silico modelling of transcriptomic networks leading to identification and perturbation of molecular switches.


Integrated analysis of human tuberculosis granulomas and a biomimetic model identifies sphingosine kinase 1 as a novel therapeutic target (2021)
Journal of Clinical Investigation
Reichmann M, Tezera LB, Vallejo AF, Vukmirovic M, Xiao R, Jogai S, Wilson S, Marshall B, Jones M, Leslie A, D’Armiento J, Kaminski N, Polak ME, Elkington P

Doxycycline as host-directed therapy in pulmonary tuberculosis: a Phase 2 randomized double-blind, placebo-controlled trial (2021)
Journal of Clinical Investigation
Miow QH, Vallejo AF, Wang Y, Hong JM, Teo FSW, Wang ADY, Loh HR, Tan TZ, Ding Y, She HW, Gan SH, Paton NI, Lum J, Chee C, Tambyah PA, Singhal A, Polak ME, Wang YT, Elkington PT, Friedland JS, Ong CWM

Peptide: MHC-based DNA vaccination strategy to activate natural killer cells by targeting killer cell immunoglobulin-like receptors (2021)
Journal for ImmunoTherapy of Cancer
Rettman P, Blunt MD, Mbiribindi B, Fulton R, Schittenhelm RB, Vallejo AF, Bastidas-Legarda L, Polak ME, Purcell AW, Al-Shamkhani A, Retiere C, KhakooSI

An IRF1-IRF4 toggle-switch controls tolerogenic and immunogenic transcriptional programming in human Langerhans cells (2021)
Frontiers in Immunology
Davies J, Vallejo AF, Sirvent S, Porter G, Clayton K, Qumbelo Y, Chigorimbo-Tsikiwa N, MacArthur B, Polak ME

Dual Dean entrainment with volume ratio modulation for efficient coencapsulation: Extreme single-cell indexing (2021)
Lab on a Chip
Harrington J, Esteban LB, Butement J, Vallejo AF, Lane SIR, Sheth B, Jongen MSA, Parker R, Stumpf PS, Smith RCG, MacArthur BD, Rose-Zerilli MJ, Polak ME, Underwood TJ, West J

Tolerogenic and immunogenic states of Langerhans cells are orchestrated by epidermal signals acting on a core maturation gene module (2021)
Polak ME, Singh H

Resolving cellular systems by ultra-sensitive and economical single-cell transcriptome filtering (2021)
Vallejo AF, Davies J, Grover A, Tsai CH, Jepras R, Polak ME, West, J

Ileal transcriptomic analysis in paediatric Crohn’s disease reveals IL17- and NOD- signallingexpression signatures in treatment-naïve patients and single-cell sequencing identifies cell populations driving differentially expressed genes (2020)
Journal of Crohn’s and Colitis
Ashton JJ, Boukas K, Davies J, Stafford IS, Vallejo AF, Haggarty R, Coelho TAF, BatraA, Afzal NA, Beattie MR, Polak ME, and Ennis S

Machine learning applied to atopic dermatitis transcriptome reveals distinct therapy-dependent modification of the keratinocyte immunophenotype (2020)
British Journal of Dermatology
Clayton K, Vallejo AF, Sirvent S, Davies J, Porter G, Lim F-L, Ardern-Jones MR, Polak ME

Genomic programming of IRF4-expressing human Langerhans cells (2020)
Nature Communications
Sirvent S, Vallejo AF, Davies JD, Clayton K, Wu Z, Riddell J,Woo J, Chaudhri VK, Stump PS, Nazlamova L, Wheway G, Rose-Zerilli M, West J, Pujato M, Chen X, Woelk CH, MacArthur BD, Ardern-Jones MR, Friedmann PS, Weirauch M, Singh H, Polak ME

Constitutive activation of natural killer cells in primary biliary cholangitis (2019)
Frontiers of Immunology
Fleming T, Matthew D Blunt, Jennifer Naftel, Andres F Vallejo, Gregory Seumois, Alice Wang, Pandurangan Vijayanand, Polak ME, Khakoo SI

Malaria Systems Immunology: Plasmodium vivax induces tolerance during primary infection through dysregulation of neutrophils and dendritic cells (2018)
Journal of Infection
Vallejo AF, Read RC, Arevalo-Herrera M, Herrera S, Elliott TJ, Polak ME

A graphical and computational modeling platform for biological pathways (2018)
Nature Protocols
Livigni A, O’Hara L, Polak ME, Angus T, Wright D, Smith LB, Freeman TC

Langerhans cells-programmed by the epidermis (2017)
Frontiers in Immunology
Clayton K, Vallejo AF, Davies J, Sirvent S. Polak ME

Gene expression signatures in tuberculosis have greater overlap with autoimmune than infectious diseases (2017)
Clayton K, Polak ME, Woelk C, Elkington P

Petri Net computational modelling of Langerhans cell Interferon Regulatory Factor Network predicts their role in T cell activation (2017)
Scientific Reports
Polak ME, Ung CY, Masapust J, Freeman TC, Ardern-Jones MR

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