About
Editors and people

Editors for Computational and Systems Biology

We aim to review studies that use computational methods, models and software to provide important biological insights in all areas of the life sciences. Read the latest research in this subject area.

Type

Senior editors

Alan Moses

University of Toronto, Canada

Alan M Moses is currently Professor and Canada Research Chair in Computational Biology in the Departments of Cell & Systems Biology and Computer Science at the University of Toronto. His research touches on many of the major areas in computational biology, including DNA and protein sequence analysis, phylogenetic models, population genetics, expression profiles, regulatory network simulations and image analysis. Recent areas of focus include machine learning applied to microscope images, protein and genome sequences, to better understand subcellular localization, intrinsically disordered regions and regulatory sequences in non-coding DNA.

Expertise
Computational and Systems Biology
Evolutionary Biology
Genetics and Genomics

Research focus
data analysis
bioinformatics
molecular evolution
intrinsically disordered proteins
signaling pathways
regulatory networks

Experimental organism
S. cerevisiae

Competing interests statement
- Current research funding: Canadian Institutes of Health Research (CIHR), National Science and Engineering Research Council (NSERC), Canada Research Chairs (CRC)- Other editorial roles: Associate Editor, Genetics
Aleksandra Walczak

Ecole Normale Superieure, France

Aleksandra Walczak received her PhD in physics at UCSD working on models of stochastic gene expression. After a graduate fellowship at KITP, she was a Princeton Center for Theoretical Science Fellow, focusing on applying information theory to signal processing in small gene regulatory networks. Currently she is a CNRS researcher at the Ecole Normale Superieure in Paris, interested in a variety of problems in the physics of living systems.

She actively works on development, collective behavior of bird flocks and statistical descriptions of the immune system.

Expertise
Computational and Systems Biology
Immunology and Inflammation
Physics of Living Systems

Research focus
biophysics
quantitative immunology
probabilistic data analysis
theoretical models
development
collective behaviour

Competing interests statement
Aleksandra Walczak is the recipient of a CNRS-Chicago Cooperation Grant, a FACCTS CNRS-Chicago Cooperation Grant, an IRN CNRS Predictability, Adaptability Evolution network collaboration grant, a CNRS-MIT Cooperation Grant, a q-Life Grant "The physics of repair and silencing foci?, an ERC Proof of Concept Grant "Automated evaluation and correction of generation bias in immune receptor repertoires", a DFG CRC "Predictability in evolution", an ERC International Training Network QuanTII grant, and an ERC Consolidator Grant "Statistical physics of immune-viral co-evolution”.

Reviewing editors

Bree Aldridge

Tufts University School of Medicine, United States

Expertise
Microbiology and Infectious Disease
Cell Biology
Computational and Systems Biology

Research focus
mycobacterium tuberculosis
computational modeling
single-cell measurements
quantitative cell biology
drug combinations
heterogeneity
Nicolas Altemose

Stanford University, United States

Expertise
Chromosomes and Gene Expression
Genetics and Genomics
Computational and Systems Biology

Research focus
chromatin
centromeres
heterochromatin
epigenomics
microfluidics
meiotic recombination
Long-read sequencing
Repetitive DNA

Experimental organism
human
mouse
Joon-Yong An

Korea University, South Korea

Expertise
Medicine
Computational and Systems Biology
Genetics and Genomics
Neuroscience

Research focus
whole genome sequencing
noncoding mutation
neurodevelopment
autism spectrum disorders
multi-omics
Gordon Berman

Emory University, United States

Expertise
Computational and Systems Biology
Neuroscience
Physics of Living Systems

Research focus
animal behavior
theoretical biophysics
computational neuroscience
computational ethology

Experimental organism
D. melanogaster
mouse
rat
Anne-Florence Bitbol

Ecole Polytechnique Federale de Lausanne , Switzerland

Expertise
Physics of Living Systems
Computational and Systems Biology

Research focus
biophysics
theory and modeling
protein sequence data
models of evolution
Hayriye Cagnan

University of Oxford, United Kingdom

Expertise
Neuroscience
Medicine
Computational and Systems Biology

Research focus
brain stimulation
brain computer interfacing
computational neuroscience
motor control
Parkinson's disease
tremor
close-loop neuromodulation
Shaon Chakrabarti

National Centre for Biological Sciences, India

Expertise
Computational and Systems Biology
Physics of Living Systems

Research focus
mathematical oncology
circadian rhythms
cell fate decisions
machine learning
biophysical modelling
quantitative imaging
single-cell methods
high-throughput technologies
Jungmin Choi

Korea University College of Medicine, South Korea

Expertise
Cancer Biology
Computational and Systems Biology
Genetics and Genomics
Medicine

Research focus
rare disorders
single cell genomics
computational biology
human genomics
Ben Cooper

Mahidol Oxford Tropical Medicine Research Unit, Thailand

Expertise
Computational and Systems Biology
Epidemiology and Global Health

Research focus
population biology of communicable diseases
antimicrobial resistance
epidemiological methods
Rui Ponte Costa

University of Oxford, United Kingdom

Expertise
Neuroscience
Computational and Systems Biology

Research focus
computational neuroscience
systems neuroscience
learning
machine learning
cortical circuits
synaptic plasticity
credit assignment
Noah J Cowan

The Johns Hopkins University, United States

Expertise
Neuroscience
Evolutionary Biology
Computational and Systems Biology

Research focus
sensorimotor control
active sensing
navigation
biomechanics
robotics
control theory
motor learning
H Melike Dönertaş

Leibniz Institute on Aging - Fritz Lipmann Institute, Germany

Expertise
Computational and Systems Biology
Genetics and Genomics

Research focus
aging
multi-omics
microbiome
computational drug repurposing
human cohort analysis
Leonardo A Elias

University of Campinas, Brazil

Expertise
Computational and Systems Biology
Neuroscience

Research focus
computational neuroscience
sensorimotor systems
proprioception
motor unit physiology
motor neurons
electromyography
neurodegenerative diseases
Thomas Gingeras

Cold Spring Harbor Laboratory, United States

Expertise
Chromosomes and Gene Expression
Computational and Systems Biology
Genetics and Genomics
Microbiology and Infectious Disease

Research focus
genomics
gene expression
regulatory networks
chromosomal modification

Experimental organism
D. melanogaster
human
mouse
Julijana Gjorgjieva

Technical University of Munich, Germany

Expertise
Computational and Systems Biology
Neuroscience

Research focus
computational neuroscience
systems modeling
synaptic plasticity
cortical development
Mariana Gómez-Schiavon

Universidad Nacional Autónoma de México, Mexico

Expertise
Computational and Systems Biology
Evolutionary Biology

Research focus
systems biology
evolution dynamics
gene regulatory circuits
mathematical modeling
nonlinear dynamics
epigenetics
bistability
circadian rhythms
oscillations
homeostasis
feedback control
Martin Graña

Institut Pasteur de Montevideo, Uruguay

Expertise
Biochemistry and Chemical Biology
Computational and Systems Biology
Evolutionary Biology
Physics of Living Systems
Structural Biology and Molecular Biophysics

Research focus
protein 3D structure
structural bioinformatics
structure/function relationships
evolution
Frederik Graw

Heidelberg University, Germany

Expertise
Immunology and Inflammation
Computational and Systems Biology
Microbiology and Infectious Disease

Research focus
mathematical modelling
theoretical immunology
host-pathogen interactions
viral spread
infection dynamics

Experimental organism
mouse
viruses
Shozeb Haider

University College London, United Kingdom

Expertise
Medicine
Structural Biology and Molecular Biophysics
Computational and Systems Biology
Microbiology and Infectious Disease

Research focus
X-ray crystallography
molecular dynamics simulations
allostery
structure-based drug design
structural bioinformatics
computational chemistry
nucleic acids
rare diseases
Ricardo Henriques

Instituto Gulbenkian de Ciência, Portugal

Expertise
Cell Biology
Computational and Systems Biology
Microbiology and Infectious Disease
Physics of Living Systems

Research focus
super resolution microscopy
image analysis
machine learning
cell signalling
viral infection
single-molecule imaging
computational biology
open source software

Experimental organism
mouse
human
P Robin Hiesinger

Institute for Biology Free University Berlin, Germany

Expertise
Cell Biology
Computational and Systems Biology
Developmental Biology
Genetics and Genomics
Neuroscience

Research focus
brain development
synapse
neurogenetics
membrane trafficking
Drosophila
neurodegeneration
computational modelling
live-cell imaging

Experimental organism
D. melanogaster
organoids
Seunghee Hong

Yonsei University, South Korea

Expertise
Computational and Systems Biology
Immunology and Inflammation

Research focus
immunology
autoimmune disease
cancer
transcriptomics
single cell RNA sequencing
Yaroslav Ispolatov

Universidad de Santiago de Chile, Chile

Expertise
Computational and Systems Biology
Ecology
Evolutionary Biology
Physics of Living Systems

Research focus
evolution
diversification
adaptive dynamics
ecology
systems biology
CRISPR
Mohammad M Karimi

Kings College London, United Kingdom

Expertise
Medicine
Computational and Systems Biology

Research focus
bioinformatics
genomics
epigenomics
transposable elements
single-cell sequencing
visual analytics
epigenetic therapy
Caleb Kemere

Rice University, United States

Expertise
Neuroscience
Computational and Systems Biology

Research focus
computational tools for hippocampal electrophysiological signals
place cells
replay
hippocampal rhythms
Ahmad S Khalil

Boston University, United States

Expertise
Chromosomes and Gene Expression
Computational and Systems Biology

Research focus
synthetic biology
systems biology
gene regulation
epigenetics
molecular evolution
technology development
Peter Koo

Cold Spring Harbor Laboratory, United States

Expertise
Computational and Systems Biology

Research focus
deep learning
machine learning
regulatory genomics
model interpretability
explainable AI
representation learning
David M Kramer

Michigan State University, United States

Expertise
Biochemistry and Chemical Biology
Plant Biology
Physics of Living Systems
Computational and Systems Biology

Research focus
photosynthesis
bioenergetics
electron and proton transfer
computation
phenotyping
phenomics
Vira Kravets

University of California, San Diego, United States

Expertise
Computational and Systems Biology
Developmental Biology

Research focus
computational modeling
network theory
quantitative microscopy
Angela Langdon

National Institute of Mental Health, United States

Expertise
Computational and Systems Biology
Neuroscience

Research focus
reward learning
decision making
dopamine
Peter Latham

University College London, United Kingdom

Expertise
Computational and Systems Biology
Neuroscience

Research focus
computational neuroscience
bayesian inference
network dynamics
neural coding
synaptic plasticity
Katherine Lawler

University of Cambridge, United Kingdom

Expertise
Computational and Systems Biology
Genetics and Genomics

Research focus
DNA sequencing
RNA sequencing
metabolomics
Andrea E Martin

Max Planck Institute for Psycholinguistics, Netherlands
Donders Centre for Cognitive Neuroimaging, Netherlands

Expertise
Neuroscience
Computational and Systems Biology

Research focus
language
speech
cognition
computational modeling
oscillations
structured representations in neural systems
magnetoencephalography (MEG)
electroencephalography (EEG)
neuroimaging

Experimental organism
human
Markus Meister

California Institute of Technology, United States

Expertise
Neuroscience
Computational and Systems Biology

Research focus
computational neuroscience
theoretical neuroscience
systems neuroscience
vision
retina
superior colliculus
electrophysiology
magnetoreception
Babak Momeni

Boston College, United States

Expertise
Computational and Systems Biology
Microbiology and Infectious Disease
Physics of Living Systems

Research focus
microbial communities
community ecology
mathematical modelling
computational biology
applied microbiology
bioremediation
mycotoxins
nasal microbiota
Marcos Nahmad

Centre for Research and Advanced Studies, Mexico

Expertise
Computational and Systems Biology
Developmental Biology
Genetics and Genomics
Physics of Living Systems

Research focus
growth control
drosophila genetics
developmental patterning
mathematical modelling
Richard A Neher

University of Basel, Switzerland

Expertise
Computational and Systems Biology
Physics of Living Systems
Evolutionary Biology

Research focus
population genetics
evolution of RNA viruses
bioinformatics
Marisa Nicolás

Laboratório Nacional de Computação Científica, Brazil

Expertise
Chromosomes and Gene Expression
Computational and Systems Biology
Genetics and Genomics
Microbiology and Infectious Disease

Research focus
molecular biology
bioinformatics
genomics
transcriptomics
multi-omics approaches
clinical pathogens
antimicrobial resistance
metabolic regulatory networks
transcriptional regulatory networks
Armita Nourmohammad

University of Washington, United States

Expertise
Computational and Systems Biology
Evolutionary Biology
Physics of Living Systems
Immunology and Inflammation

Research focus
population genetics
computational immunology
adaptive immunity
statistical physics
deep mutational scanning
information theory
statistical inference
gene expression evolution

Experimental organism
D. melanogaster
human
viruses
Srdjan Ostojic

École Normale Supérieure, France

Expertise
Neuroscience
Computational and Systems Biology

Research focus
computational neuroscience
network dynamics
neural computations
population coding
neural circuits
plasticity
Anna Panchenko

Queen's University, Canada

Expertise
Chromosomes and Gene Expression
Computational and Systems Biology
Cancer Biology

Research focus
molecular modeling
bioinformatics
machine learning
molecular dynamics simulations
cancer mutations
chromosome and nucleosome dynamics
Jihwan Park

Gwangju Institute of Science and Technology, South Korea

Expertise
Computational and Systems Biology
Medicine

Research focus
single cell analysis
kidney disease
Benjamin L Parker

University of Melbourne, Australia

Expertise
Cell Biology
Computational and Systems Biology
Biochemistry and Chemical Biology

Research focus
proteomics
signal transduction
metabolism
skeletal muscle
exercise
insulin resistance
phosphorylation
protein post-translational modifications
Stephen Parker

University of Michigan, United States

Expertise
Genetics and Genomics
Chromosomes and Gene Expression
Computational and Systems Biology

Research focus
diabetes
disease susceptibility
functional genomics
comparative genomics
population genomics

Experimental organism
human
mouse
rat
David A Paz-Garcia

Centro de Investigaciones Biológicas del Noroeste (CIBNOR), Mexico

Expertise
Chromosomes and Gene Expression
Computational and Systems Biology
Ecology
Evolutionary Biology
Genetics and Genomics
Microbiology and Infectious Disease
Plant Biology

Research focus
marine life
coral reefs
phylogenomics
population genomics
morphometrics
gene expression
statistics
coding
Gang Peng

Indiana University, United States

Expertise
Medicine
Computational and Systems Biology
Chromosomes and Gene Expression

Research focus
bioinformatics
epigenetics
sequencing
DNA methylation
Newborn Screening
Luca Pinello

Massachusetts General Hospital, United States

Expertise
Medicine
Computational and Systems Biology
Genetics and Genomics

Research focus
bioinformatics
computational biology
CRISPR genome editing
single-cell genomics
Nicolás Pírez

Universidad de Buenos Aires - CONICET, Argentina

Expertise
Computational and Systems Biology
Neuroscience

Research focus
sensory physiology
olfactory system
neural circuits
circadian rhythms
learning and memory
behavior and genetics
in vivo imaging

Experimental organism
Drosophila melanogaster
mouse
Audrey Sederberg

Georgia Institute of Technology, United States

Expertise
Neuroscience
Physics of Living Systems
Computational and Systems Biology

Research focus
theoretical biophysics
computational neuroscience
neural dynamics
neural decoding
criticality
Marcus M Seldin

University of California, Irvine, United States

Expertise
Biochemistry and Chemical Biology
Computational and Systems Biology
Genetics and Genomics

Research focus
systems genetics
endocrine physiology
metabolism
cell-cell communication
Agnese Seminara

Université Côte d'Azur, France

Expertise
Computational and Systems Biology
Physics of Living Systems

Research focus
biomechanics of bacterial biofilm growth
violent discharge
atmospheric dispersal of fungal spores
computational navigation

Experimental organism
B. subtilis
mouse
Reut Shalgi

Technion - Israel Institute of Technology, Israel

Expertise
Cell Biology
Genetics and Genomics
Computational and Systems Biology
Chromosomes and Gene Expression

Research focus
stress response
ER stress
UPR
heat shock response
chaperones
protein aggregation
Wenying Shou

University College London, United Kingdom

Expertise
Computational and Systems Biology
Ecology
Evolutionary Biology
Genetics and Genomics

Research focus
quantitative biology
mathematical biology
evolutionary biology
synthetic biology
molecular genetics
evolution of cooperation
computer simulations

Experimental organism
S. cerevisiae
Myong-Hee Sung

National Institute on Aging, United States

Expertise
Computational and Systems Biology
Immunology and Inflammation

Research focus
aging
gene expression
Daniel Y Takahashi

Universidade Federal do Rio Grande do Norte, Brazil

Expertise
Computational and Systems Biology
Ecology
Neuroscience
Physics of Living Systems

Research focus
social interaction
vocal learning
neurophysiology
computational modeling
ontogeny of behavior
Alan Talevi

National University of La Plata, Argentina

Expertise
Biochemistry and Chemical Biology
Computational and Systems Biology
Microbiology and Infectious Disease
Structural Biology and Molecular Biophysics

Research focus
bioinformatics
drug discovery
cheminformatics
pharmacy
Alyssa M Wilson

Icahn School of Medicine at Mount Sinai, United Kingdom

Expertise
Neuroscience
Cell Biology
Genetics and Genomics
Chromosomes and Gene Expression
Computational and Systems Biology

Research focus
single cell biology
multi-omics
neuroinformatics
cellular neuroanatomy
disease-related neurodegeneration
bioinformatics methods development

Experimental organism
human
mouse
Yongliang Yang

Dalian University of Technology, China

Expertise
Medicine
Cancer Biology
Computational and Systems Biology

Research focus
bioinformatics
computational biology
drug discovery
artificial intelligence
Samir Zaidi

Yale School of Medicine, United States

Expertise
Cancer Biology
Computational and Systems Biology
Medicine

Research focus
genetically engineered mouse models
computational genomics
single cell genomics
organoids
drug resistance
cancer cell plasticity
Hang Zhang

Peking University, China

Expertise
Neuroscience
Computational and Systems Biology

Research focus
computational modeling
decision making
cognition
learning
probabilistic structure
inductive bias
rational analysis
EEG/MEG

Experimental organism
human
Siming Zhao

Dartmouth College, United States

Expertise
Medicine
Computational and Systems Biology
Genetics and Genomics

Research focus
statistical genetics
genomics
human genetics
sequencing data
Moussa Zouache

University of Utah, United States

Expertise
Computational and Systems Biology
Medicine
Epidemiology and Global Health
Genetics and Genomics
Neuroscience
Physics of Living Systems

Research focus
visual neuroscience
population genetics
transcriptomics
proteomics
biology of aging
mathematical modelling
clinical research