Is Disentanglement all you need? Comparing Concept-based & Disentanglement Approaches

Dmitry Kazhdan, Botty Dimanov, Helena Andres Terre, Mateja Jamnik, Pietro Lio, Adrian Weller
RAI ICLR

2021

REM: An Integrative Rule Extraction Methodology for Explainable Data Analysis in Healthcare

Zohreh Shams, Botty Dimanov, Sumaiyah Kola, Nikola Simidjievski, Helena Andres Terre, Paul Scherer, Urska Matjasec, Jean Abraham, Pietro Liò, Mateja Jamnik
medRxiv, preprint doi: 2021.01.25.21250459 (under revision)

2021

Adversarial generation of gene expression data

Ramon Viñas, Helena Andres-Terre, Pietro Lio, and Kevin Bryson
Bioinformatics

2021

Using ontology embeddings for structural inductive bias in gene expression data analysis

Maja Trębacz, Zohreh Shams, Mateja Jamnik, Paul Scherer, Nikola Simidjievski, Helena Andres Terre, Pietro Lio
MLCB

2020

Incorporating network based protein complex discovery into automated model construction

Paul Scherer, Maja Trȩbacz, Nikola Simidjievski, Zohreh Shams, Helena Andres Terre, Pietro Lio, Mateja Jamnik
MLCB

2020

CellVGAE: An unsupervised scRNA-seq analysis workflow with graph attention networks

David Buterez, Ioana Bica, Ifrah Tariq, Helena Andres-Terre, Pietro Lio
bioRxiv doi: 12.20.423645

2020

Unsupervised generative and graph representation learning for modelling cell differentiation.

Bica *, I. , Andres-Terre *, H. , Cvejic, A., Lio, P.
Scientic Reports

2019

Variational Autoencoders for Cancer Data Integration: Design Principles and Computational Practice.

Simifjievski, N. , Bodnar, C. , Tariq, I. , Scherer, P. , Andres-Terre, H., Shams, Z., Jamnik, M. , Lio, P.
Frontiers in Genetics.

2019

Decoupling feature propagation from the design of graph auto-encoders

Scherer, P., Andres-Terre, H., Lio, P., Jamnik, M.
arXiv:1910.08589

2019

Adversarial generation of gene expression data

Viñas, R., Andrés-Terré, H., Liò, P., Bryson, K.
bioRxiv, 836254.

2019

Factorised Neural Relational Inference for Multi-Interaction Systems.

Webb, E., Day, B., Andres-Terre, H., Li, P.
ICML 2019 Workshop on Learning and Reasoning with Graph-Structured Representations.
arXiv, preprint arXiv:1905.08721.

2019

Single-cell RNA-sequencing uncovers transcriptional states and fate decisions in haematopoiesis.

Athanasiadis, E. I., Botthof, J. G., Andres, H., Ferreira, L., Lio, P., Cvejic, A.
Nature communications, 8(1), 2045.

2017

Perturbation theory approach to study the latent space degeneracy of Variational Autoencoders.

Andres-Terre, H. Lio, P.
arXiv, preprint arXiv:1907.05267

2019

GEESE: Metabolically driven latent space learning for gene expression data.

Barsacchi, M., Andres-Terre, H., Li, P.
bioRxiv, 365643.

2018

Cloud Computing and DataBases

2 day course @Cambridge Spark

April 2020

Introduction to Variational Autoencoders

talk @Cambridge Spark

March 2020

AI for Medical Data

1 day course @CamBioScience

March 2020

Multi-modal cancer data integration

talk @the Mark Foundation

January 2020

AI for cancer Data Integration

talk @the Mark Foundation

September 2019

AI and Deep Learning, the basics

talk @Newnham College

March 2019

Variational Autoencoders to decipher Stem Cell differentiation

poster @NIPS2018 - Workshop for Women in Machine Learning.

December 2018

Single Cell RNA-Seq analysis through VAEs

talk @Big Data Symposium, Cambridge Data Science

November 2018

Unsupervised learning and cell differentiation

talk @BenevolentAI

September 2018

Decoding biology through variational autoencoders

talk @International Conference on Complex Systems 2018

July 2018

Unsupervised learning and Stem Cell Differentiation; Autoencoders and Single Cell data

talk @Oxbridge Women in CS Conference

March 2018

gRE:MLIN, multilayer extension of the Reasoning Engine for Interaction Networks

talk @Microsoft Research

September 2016

Explosive Synchronisation within the Kuramoto model

talk @Mediterranean School of Complex Networks

June 2014

The Electrophysiology of Stem Cells Using Conductive Atomic Force Microscopy

poster @Rensselaer Polytechnic Institute Research Forum

June 2013