Department of Computer Science and Technology

Computational Biology Group Members

This page contains a list of the current and past members of the Computational Biology Group, which is itself part of the Artificial Intelligence Group of the Computer Laboratory.

Each person's name is followed by their CRSid (if they have one) and their office number in the William Gates Building.

The easiest way to contact someone is by e-mail. Computer Laboratory e-mail addresses are of the form crsid@cam.ac.uk or Firstname.Lastname@cl.cam.ac.uk.

Current Members

Academic Staff

Prof Pietro Liò pl219 FC20 Professor in Computational Biology Machine learning and computational models in health Predictive models in personalised medicine Combining multi-scale, multi-omics and multi-physics modelling of molecules-cell-tissue-organ interactions Developing and testing methodologies for modelling biomedical systems Super meta: Meta analysis and omics integration informatics

Research Associates

Helena Andrés Terre ha376 FE10 Research Associate (2019-) PhD Student (2019)
Nikola Simidjievski ns779 FC05 Research Associate (2019-)

Research Students

Ben Day bjd39 FC03 PhD Student Graph representation learning
Arian Rokkum Jamasb arj39 FC03 PhD Student Deep learning for structural biology and drug discovery
Emma Rocheteau ecr38 FC03 PhD Student Predicting outcomes in psychiatric disorders using reinforcement learning
Cristian Bodnar cb2015 FE14 PhD Student Evolution guided learning
Alexander Campbell ajrc4 FC03 PhD Student Machine learning for healthcare
Paul Scherer pms69 FE10 PhD Student Graph representation learning theory and practice for systems biology
Jacob Deasy jd645 FE10 PhD Student Deep Learning for electronic health records
Junwei Yang jy406 FE07 PhD Student Multi-task learning for medical image reconstruction and analysis
Paris Flood pdlf3 FE14 PhD Student Machine Learning for personalized healthcare
Felix Lukas Opolka flo23 FE14 PhD Student Bayesian modelling and deep learning for static and dynamic graphs.
Dobrik Georgiev dgg30 PhD Student Neural algorithmic reasoning for computer science and biomedicine
Ramon Viñas Torné rv340 FE07 PhD Student Learning the generating mechanisms of multi-omics data
Pietro Barbiero pb737 FE12 PhD Student
Jacob Moss jm2311 FC03 PhD Student Machine learning models of genetic regulation
David Buterez db804 FC03 PhD Student Machine learning for high-throughput screening
Iulia Duta id366 SE04 PhD Student Learning to infer structure for graph representation learning
Simon Mathis svm34 SE04 PhD Student Machine learning and bioinformatics methods to detect climate change signatures on a molecular biology level
Lucie Charlotte Magister lcm67 SE04 PhD Student Explainability and Interpretability for Deep Learning
Chaitanya K. Joshi ckj24 SE12 PhD Student Geometric Deep Learning
Charles Harris cch57 SE04 PhD Student AI for structural biology and drug design
Alexander Norcliffe alin2 SE04 PhD Student Deep learning and neural ODEs for prognosis

Visitors

Olivier Dietrich Visiting from ETH Zürich (10.2021 to 04.2022) Using deep learning on genetics data to assess impact of climate change on cold-adapted fish

Past Members

Research Associates

Giovanna Maria Dimitri gmd43 FC14 Research Associate (2019-), PhD, MPhil in Advanced Computer Science (2014-2015)
Dr Gianluca Ascolani Research Associate in Computational Biology Physics of cancer, Modelling tumour growth Collective behaviour of migrating cells Bone remodelling Crowding and exclusion processes, Complex renewal processes
Viet Anh Nguyen Research Associate, PhD Student (2007-2011) Bayesian approaches to biological network predictions
Julien Mozziconacci Research Associate
Elizabeth van der Wath Research Associate

Research Students

Cătălina Cangea ccc53 FE14 PhD Student Exploiting multimodality and structure in world representations
Duo Wang wd263 FC03 PhD Student Bridging computer science with neuroscience towards a new understanding of reasoning
Jin Zhu jz426 FE12 PhD Student Medical image processing and clinical decision support system
Tiago Azevedo tmla2 FE12 PhD Student Machine learning and connectomics in brain informatics
Simeon Spasov ses88 FE21 PhD Student
Petar Veličković pv273 FE14 Research Assistant in Computational Biology, PhD Student (Completed 2019), Computer Science Tripos, Part II (2014-2015) The resurgence of structure in deep neural networks
Max Conway mjc233 FE10 PhD Student (4th Year) Machine learning methods for detecting structure in metabolic flow networks
Pablo Spivakovsky-González ps713 FC03 PhD Student
Hui Xiao PhD Student (2014-2018) Network-based approaches for multi-omic data integration
Thomas Brouwer PhD Student (2014-2018) Bayesian matrix factorisation: inference, priors and data integration
Annalisa Occhipinti PhD Student (2013-2017) Computational models of cancer for survival prediction
Naruemon Pratanwanich PhD Student (2012-2016) Probabilistic latent variable modelling for integrated biological data
Yoli Shavit PhD Student (2012-2015) Algorithms for reconstructing the 3D genome architecture
Claudio Angione PhD Student (2011-2015) Computational methods for multi-omic models of cell metabolism and their importance for theoretical computer science
Mohammad Ali Moni PhD Student (2011-2015) Clinical bioinformatics and computational modelling for disease comorbidities diagnosis
Yuedong Song PhD Student (2008-2015) Electroencephalogram machine learning to assist diagnosis and treatment of epilepsy
Azree Nazri PhD Student (Graduated in 2012; co-supervised)
Syed Haider PhD Student (2009-2012) Computational systems biology-based feature selection for cancer prognosis
Stephan Kitchovich PhD Student (2008-2012) Computational modelling and analysis of seasonal influenza transmission and evolution
Anilkumar Sorathiya PhD Student (2007-2011) Computational modelling approaches to HIV-1 dynamics
Ian Leung PhD Student (2008-2011) Fast network analysis and applications in real-world networks
Richard van der Wath PhD Student (2005-2010) Computational modelling of hematopoietic stem cell division and regulation dynamics

Master's Students

Carlos Purves cp614 Computer Science Tripos, Part III (2019-2020) Goal-conditioned Reinforcement Learning in the Presence of an Adversary
Razvan Kusztos rek43 Computer Science Tripos, Part III Neural architectures for brain network connectivity modelling
Nathaniel McAleese-Park nm583 Computer Science Tripos, Part III Cross-modal learning for the joint understanding of 2D and 3D data
Miloš Stanojević ms2239 Computer Science Tripos, Part III Neural network hyperparameter optimisation on small validation sets
Ioana Bica ib354 MPhil in Advanced Computer Science, Computer Science Tripos, Part II (2016-2017)
Michelle Zheng mz395 MPhil in Advanced Computer Science Deep learning for image analysis of super-resolution microscopy
Zhenyu Cai Natural Sciences Tripos, Part III (2016-2017) Clustering and energy-based approaches to sparsifying neural networks
Robert Nagy Natural Sciences Tripos, Part III (2016-2017)
Laurynas Karazija Computer Science Tripos, Part III (2016-2017) Automatic inference of cross-modal connection topologies for X-CNNs
Edgaras Liberis Computer Science Tripos, Part III (2016-2017) Antibody binding residue prediction
Alexander Rakowski Computer Science Tripos, Part III (2016-2017) Chronomid: Cross-modal neural nets for 3-D temporal medical imaging data
Sivo Daskalov MPhil in Advanced Computer Science (2016-2017) Machine learning network-constrained regression of epigenetic data
Joshua Greenwood MPhil in Advanced Computer Science (2016-2017) Clinical diagnosis support system: creating a logically connected multi layer network for the diagnosis of metabolic syndrome
Victor Prokhorov MPhil in Advanced Computer Science (2016-2017) Learning rare word representations using semantic bridging
Rui Zhang MPhil in Advanced Computer Science (2016-2017) A fusion model on feature extraction of bio-medical images with deep learning techniques
Wing Cheung Kenneth Lui MPhil in Advanced Computer Science (2015-2016) Towards reproducible and intelligible data anlytic workflow on interoperable electronic health records (EHR) data
Shuo Zhang MPhil in Advanced Computer Science (2015-2016) Mining drug-target interactions by Bayesian matrix factorisation
William Jones MPhil in Advanced Computer Science (2014-2015) In silico prediction of anti-cancer drug sensitivity
Yiding Lu MPhil in Advanced Computer Science (2014-2015) Link prediction in drug-target interactions network using similarity indices
Otilia Stretcu MPhil in Advanced Computer Science (2014-2015) Machine learning approaches for microscopic image mining
Haoming Xu MPhil in Advanced Computer Science (2013-2014) Machine learning approach for integrating molecular and clinical data to predict human disease network

Undergraduate Students

Alexandru-Catalin Filip acf61 Computer Science Tripos, Part II Regression model using GAT architecture on brain-graph data
Roxana Elena Dumitriu red43 Computer Science Tripos, Part II Prediction of Parkinson’s Disease Progression using Supervised Machine Learning Methods
Benedict Aaron Tjandra bat34 Computer Science Tripos, Part II (2019-2020) Multimodal Relational Reasoning for Visual Question Answering
Péter Mernyei pm632 Computer Science Tripos, Part II (2019-2020) Wiki-CS: A Wikipedia-Based Benchmark for Graph Neural Networks
Carlos Purves cp614 Computer Science Tripos, Part II (2018-2019) The PlayStation Reinforcement Learning Environment
Andreea-Ioana Deac aid25 Computer Science Tripos, Part II Neural architectures for end-to-end paratope prediction
Marko Stanković ms2309 Computer Science Tripos, Part II
Andrew Wells aw684 Computer Science Tripos, Part II Deep Learning for Music Recommendation
Sebastian Borgeaud dit Avocat Computer Science Tripos, Part II (2016-2017) Brain tumour segmentation using convolutional neural networks
Matthew Coley Computer Science Tripos, Part II (2016-2017) A stochastic model of the comorbidity of type 2 diabetes and rheumatoid arthritis
Momchil Peychev Computer Science Tripos, Part II (2016-2017) Experimental study on the properties of disentangled autoencoders
Tudor Petru Ţiplea Computer Science Tripos, Part II (2016-2017) An end-to-end control policy system for the GameBoy platform
George Wort Computer Science Tripos, Part II (2016-2017) Modelling epidermis homeostasis and psoriasis pathogenesis using an agent-based model
Michael Painter Computer Science Tripos, Part II (2015-2016) Spectral image analysis for medical imaging
Artjoms Iškovs Computer Science Tripos, Part II (2014-2015) Predicting drug-pathway interactions using the correlated topic model
Kittinun Phatpanichot Computer Science Tripos, Part II (2013-2014) Inferring drug's pathway-based groups from differential gene expression data using a topic model
Stefan Stojanović Computer Science Tripos, Part II (2013-2014) Computational modelling of diabetes
Rolandas Glotnis Computer Science Tripos, Part II (2012-2013) Optimising a multi-objective problem solving algorithm through improvements in search functions

Visitors

Marco Botta Sabbatical
Xiaofeng Lu Visitor
Eric Yu-En Lu Visitor (HKU)
Kuang Xu Visitor (HKU)
Cyrus Chan Visitor (CUHK)
Francesco Piazza Visitor (U. Orleans)