Forskning
I have a broad range of research interests in bioinformatics, computational biology and machine learning, and welcome applications from students in any of these areas. In biology, my main interest is to understand gene regulation and how it is affected by genetic variation. In other words, how does the genome determine which genes are expressed (active) in different cell types, and how do genetic differences between individuals lead to differences in gene expression and ultimately to differences in health and disease traits? My group uses machine learning approaches and large sets of genetic and molecular data to answer these questions. Machine learning is a field at the interface of computer science and statistics that aims to identify correlations and other meaningful patterns in large data sets. Biology is an ideal field for testing and developing new machine learning algorithms, because in biology correlations alone are never enough. For instance, to know that high cholesterol and high blood pressure are often seen together in people with diabetes or heart disease is not very useful, until we establish that in fact, high cholesterol causes high blood pressure, and should therefore be the therapeutic target. To establish similar causal relations at the level of genes, where thousands of genes are expressed in every cell of the human body, influencing each other in untold ways through complex, unknown networks of genetic interactions, is the challenge that my group and I aim to address. In short, to paraphrase a well-known saying: nothing in biology makes sense, except in the light of causal inference.
Undervisning
Publikasjoner
Vitenskapelig artikkel
- Hasibi, Ramin; Michoel, Tom Luk R; Oyarzún, Diego A. (2024). Integration of graph neural networks and genome-scale metabolic models for predicting gene essentiality. (ekstern lenke)
- Mocci, Giuseppe; Sukhavasi, Katyayani; Örd, Tiit et al. (2024). Single-Cell Gene-Regulatory Networks of Advanced Symptomatic Atherosclerosis. (ekstern lenke)
- Salami, Dariush; Hasibi, Ramin; Savazzi, Stefano et al. (2024). Angle-Agnostic Radio Frequency Sensing Integrated into 5G-NR. (ekstern lenke)
- Khan, Mariyam; Ludl, Adriaan-Alexander; Bankier, Sean et al. (2024). Prediction of causal genes at GWAS loci with pleiotropic gene regulatory effects using sets of correlated instrumental variables. (ekstern lenke)
- Mohammad, Gutama Ibrahim; Michoel, Tom (2024). Predicting the genetic component of gene expression using gene regulatory networks. (ekstern lenke)
- Bankier, Sean Alexander; Wang, Lingfei; Crawford, Andrew et al. (2023). Plasma cortisol-linked gene networks in hepatic and adipose tissues implicate corticosteroid-binding globulin in modulating tissue glucocorticoid action and cardiovascular risk. (ekstern lenke)
- Koplev, Simon; Seldin, Marcus; Sukhavasi, Katyayani et al. (2022). A mechanistic framework for cardiometabolic and coronary artery diseases. (ekstern lenke)
- Malik, Muhammad Ammar; Michoel, Tom (2022). Restricted maximum-likelihood method for learning latent variance components in gene expression data with known and unknown confounders. (ekstern lenke)
- Bankier, Sean Alexander; Michoel, Tom (2022). eQTLs as causal instruments for the reconstruction of hormone linked gene networks. (ekstern lenke)
- Salami, Dariush; Hasibi, Ramin; Palipana, Sameera et al. (2022). Tesla-Rapture: A Lightweight Gesture Recognition System From mmWave Radar Sparse Point Clouds. (ekstern lenke)
- Crawford, Andrew A.; Bankier, Sean; Altmaier, Elisabeth et al. (2021). Variation in the SERPINA6/SERPINA1 locus alters morning plasma cortisol, hepatic corticosteroid binding globulin expression, gene expression in peripheral tissues, and risk of cardiovascular disease. (ekstern lenke)
- Hasibi, Ramin; Michoel, Tom (2021). A Graph Feature Auto-Encoder for the Prediction of Unobserved Node Features on Biological Networks. (ekstern lenke)
- Kogelman, Lisette J.A.; Falkenberg, Katrine; Buil, Alfonso et al. (2021). Changes in the gene expression profile during spontaneous migraine attacks. (ekstern lenke)
- Erola, Pau; Björkegren, Johan L.M.; Michoel, Tom Luk Robert (2020). Model-based clustering of multi-tissue gene expression data. (ekstern lenke)
- Ludl, Adriaan-Alexander; Michoel, Tom Luk Robert (2020). Comparison between instrumental variable and mediation-based methods for reconstructing causal gene networks in yeast. (ekstern lenke)
- Wang, Lingfei; Audenaert, Pieter; Michoel, Tom Luk Robert (2019). High-Dimensional Bayesian Network Inference From Systems Genetics Data Using Genetic Node Ordering. (ekstern lenke)
- Vipin, Deepti; Wang, Lingfei; Devailly, Guillaume et al. (2018). Causal Transcription Regulatory Network Inference Using Enhancer Activity as a Causal Anchor.. (ekstern lenke)
Vitenskapelig oversiktsartikkel/review
- Malik, Muhammad Ammar; Faraone, Stephen; Michoel, Tom et al. (2023). Use of big data and machine learning algorithms to extract possible treatment targets in neurodevelopmental disorders. (ekstern lenke)
- Michoel, Tom; Zhang, Jitao David (2023). Causal inference in drug discovery and development. (ekstern lenke)
Se en full oversikt over publikasjoner i Cristin
See http://lab.michoel.info/publications