Eszter Lakatos

@chalmers.se

Assistant Professor, Department of Mathematical Sciences
Chalmers University of Technology

I am a computational biologist passionate about applying quantitative techniques to understand the biological principles governing disease in order to improve clinical decision making. I am particularly interested in uncovering how cancers evolve using next-generation sequencing datasets.

EDUCATION

2017 - Ph.D. in Theoretical Systems Biology - Imperial College London
Supervisor: Prof Michael P.H. Stumpf
2013 - M.Sc. of Infobionics Engineer - Pázmány Péter Catholic University
Grade: honours, Average: 5.0/5.0

RESEARCH, TEACHING, or OTHER INTERESTS

Multidisciplinary, Cancer Research, Applied Mathematics

866

Scholar Citations

12

Scholar h-index

13

Scholar i10-index

RECENT SCHOLAR PUBLICATIONS

  • Genomic landscape of adult testicular germ cell tumours in the 100,000 Genomes Project
    M N Leathlobhair, A Frangou, B Kinnersley, AJ Cornish, D Chubb, ...
    Nature Communications 15 (1), 9247 2024

  • The genomic landscape of 2,023 colorectal cancers
    AJ Cornish, AJ Gruber, B Kinnersley, D Chubb, A Frangou, G Caravagna, ...
    Nature 633 (8028), 127-136 2024

  • Homopolymer switches mediate adaptive mutability in mismatch repair-deficient colorectal cancer
    H Kayhanian, W Cross, SEM van der Horst, P Barmpoutis, E Lakatos, ...
    Nature Genetics 56 (7), 1420-1433 2024

  • 416P Evolutionary and immune microenvironment dynamics determine response to neoadjuvant treatment of oesophageal adenocarcinoma
    M Barroux, J Househam, E Lakatos, T Ronel, AM Baker, H Sali, ...
    Annals of Oncology 35, S168-S169 2024

  • 153P Determinants of tumour-immune evolutionary trajectory in colorectal cancer
    E Lakatos, V Gunasri, L Zapata, J Househam, T Heide, N Trahearn, ...
    Annals of Oncology 35, S68 2024

  • Lower incidence of small intestinal adenocarcinomas may be due to constrained copy number karyotype and increased immune surveillance
    S Nowinski, V Balarajah, AM Baker, R Katainen, C Hughes, Q Guo, ...
    CANCER RESEARCH 84 (3) 2024

  • Long deletion signatures in repetitive genomic regions track somatic evolution and enable sensitive detection of microsatellite instability
    Q Guo, J Househam, E Lakatos, S Nowinski, I Al Bakir, H Grant, ...
    bioRxiv, 2024.10. 03.616572 2024

  • Epigenome and early selection determine the tumour-immune evolutionary trajectory of colorectal cancer
    E Lakatos, V Gunasri, L Zapata, J Househam, T Heide, N Trahearn, ...
    bioRxiv, 2024.02. 12.579956 2024

  • Spatially resolving the dynamics of immunoediting in advanced colorectal cancer
    V Gunasri, N Trahearn, E Lakatos, J Househam, T Heide, GD Cresswell, ...
    JOURNAL OF PATHOLOGY 261, S29-S29 2023

  • O44 Co-evolution of mismatch repair loss and the immune response in Lynch Syndrome
    O Swinyard, AM Baker, K Monahan, M Jansen, C Gabbutt, C Kimberley, ...
    Gut 72 (Suppl 2), A25-A26 2023

  • 253e IMMUNE EDITING IN THE INVASIVE MARGIN AND NODE DEPOSITS OF COLORECTAL CANCER SELECTS FOR CELLULAR NEIGHBOURHOODS ENRICHED IN PDL1+ CANCER CELLS
    V Gunasri, E Lakatos, N Trahearn, L Cisneros, J Househam, T Heide, ...
    Gastroenterology 164 (6), S-1569 2023

  • Evolutionary and immune microenvironment dynamics during neoadjuvant treatment of oesophagael adenocarcinoma
    M Barroux, J Househam, E Lakatos, T Ronel, AM Baker, H Sali, ...
    2023

  • Tumor evolution and immune microenvironment dynamics define response to neoadjuvant treatment of esophageal adenocarcinoma
    M Barroux, J Househam, E Lakatos, T Ronel, AM Baker, H Sali, ...
    Cancer Research 83 (7_Supplement), 4539-4539 2023

  • Immune selection determines tumor antigenicity and influences response to checkpoint inhibitors
    L Zapata, G Caravagna, MJ Williams, E Lakatos, K AbdulJabbar, ...
    Nature Genetics 55 (3), 451-460 2023

  • Adaptive therapy achieves long-term control of chemotherapy resistance in high grade ovarian cancer
    H Hockings, E Lakatos, W Huang, M Mossner, MA Khan, S Metcalf, ...
    bioRxiv, 2023.07. 21.549688 2023

  • Whole genome sequencing of 2,023 colorectal cancers reveals mutational landscapes, new driver genes and immune interactions
    AJ Cornish, AJ Gruber, B Kinnersley, D Chubb, A Frangou, G Caravagna, ...
    bioRxiv, 2022.11. 16.515599 2022

  • Phenotypic plasticity and genetic control in colorectal cancer evolution
    J Househam, T Heide, GD Cresswell, I Spiteri, C Kimberley, L Zapata, ...
    Nature, 1-10 2022

  • The co-evolution of the genome and epigenome in colorectal cancer
    T Heide, J Househam, GD Cresswell, I Spiteri, C Lynn, M Mossner, ...
    Nature, 1-11 2022

  • The mutational signatures of formalin fixation on the human genome
    Q Guo, E Lakatos, IA Bakir, K Curtius, TA Graham, V Mustonen
    Nature communications 13 (1), 1-14 2022

  • Abstract B001: Developing adaptive therapy to suppress the evolution of treatment resistance in high-grade serous ovarian cancer
    H Hockings, M Lockley, T Graham, E Lakatos, W Huang
    Cancer Research 82 (10_Supplement), B001-B001 2022

MOST CITED SCHOLAR PUBLICATIONS

  • Phenotypic plasticity and genetic control in colorectal cancer evolution
    J Househam, T Heide, GD Cresswell, I Spiteri, C Kimberley, L Zapata, ...
    Nature, 1-10 2022
    Citations: 114

  • NeoPredPipe: high-throughput neoantigen prediction and recognition potential pipeline
    RO Schenck, E Lakatos, C Gatenbee, TA Graham, ARA Anderson
    BMC bioinformatics 20 (1), 1-6 2019
    Citations: 114

  • Evolutionary dynamics of neoantigens in growing tumors
    E Lakatos, MJ Williams, RO Schenck, WCH Cross, J Househam, L Zapata, ...
    Nature genetics 52 (10), 1057-1066 2020
    Citations: 111

  • Multivariate moment closure techniques for stochastic kinetic models
    E Lakatos, A Ale, PDW Kirk, MPH Stumpf
    The Journal of chemical physics 143 (9), 094107 2015
    Citations: 87

  • The co-evolution of the genome and epigenome in colorectal cancer
    T Heide, J Househam, GD Cresswell, I Spiteri, C Lynn, M Mossner, ...
    Nature, 1-11 2022
    Citations: 83

  • The mutational signatures of formalin fixation on the human genome
    Q Guo, E Lakatos, IA Bakir, K Curtius, TA Graham, V Mustonen
    Nature communications 13 (1), 1-14 2022
    Citations: 64

  • Transition state characteristics during cell differentiation
    RD Brackston, E Lakatos, MPH Stumpf
    PLoS computational biology 14 (9), e1006405 2018
    Citations: 53

  • Immune selection determines tumor antigenicity and influences response to checkpoint inhibitors
    L Zapata, G Caravagna, MJ Williams, E Lakatos, K AbdulJabbar, ...
    Nature Genetics 55 (3), 451-460 2023
    Citations: 43

  • Fluctuating methylation clocks for cell lineage tracing at high temporal resolution in human tissues
    C Gabbutt, RO Schenck, DJ Weisenberger, C Kimberley, A Berner, ...
    Nature biotechnology 40 (5), 720-730 2022
    Citations: 42

  • Immunosuppressive niche engineering at the onset of human colorectal cancer
    CD Gatenbee, AM Baker, RO Schenck, M Strobl, J West, MP Neves, ...
    Nature Communications 13 (1), 1798 2022
    Citations: 35

  • The genomic landscape of 2,023 colorectal cancers
    AJ Cornish, AJ Gruber, B Kinnersley, D Chubb, A Frangou, G Caravagna, ...
    Nature 633 (8028), 127-136 2024
    Citations: 25

  • MEANS: python package for Moment Expansion Approximation, iNference and Simulation
    S Fan, Q Geissmann, E Lakatos, S Lukauskas, A Ale, AC Babtie, ...
    Bioinformatics 32 (18), 2863-2865 2016
    Citations: 19

  • Control mechanisms for stochastic biochemical systems via computation of reachable sets
    E Lakatos, MPH Stumpf
    Royal Society open science 4 (8), 160790 2017
    Citations: 10

  • Stochastic analysis and control methods for molecular cell biology
    E Lakatos
    Imperial College London 2017
    Citations: 9

  • Adaptive therapy achieves long-term control of chemotherapy resistance in high grade ovarian cancer
    H Hockings, E Lakatos, W Huang, M Mossner, MA Khan, S Metcalf, ...
    bioRxiv, 2023.07. 21.549688 2023
    Citations: 8

  • LiquidCNA: Tracking subclonal evolution from longitudinal liquid biopsies using somatic copy number alterations
    E Lakatos, H Hockings, M Mossner, W Huang, M Lockley, TA Graham
    Iscience 24 (8) 2021
    Citations: 8

  • Topology of interaction between titin and myosin thick filaments
    M Kellermayer, D Sziklai, Z Papp, B Decker, E Lakatos, Z Mrtonfalvi
    Journal of structural biology 203 (1), 46-53 2018
    Citations: 8

  • Whole genome sequencing of 2,023 colorectal cancers reveals mutational landscapes, new driver genes and immune interactions
    AJ Cornish, AJ Gruber, B Kinnersley, D Chubb, A Frangou, G Caravagna, ...
    bioRxiv, 2022.11. 16.515599 2022
    Citations: 6

  • Protein degradation rate is the dominant mechanism accounting for the differences in protein abundance of basal p53 in a human breast and colorectal cancer cell line
    E Lakatos, A Salehi-Reyhani, M Barclay, MPH Stumpf, DR Klug
    PloS one 12 (5), e0177336 2017
    Citations: 6

  • Mutation Rate Evolution Drives Immune Escape in Mismatch Repair-Deficient Cancer
    H Kayhanian, P Barmpoutis, E Lakatos, W Cross, G Caravagna, L Zapata, ...
    bioRxiv, 2022.03. 06.482973 2022
    Citations: 5