Organisation
Laboratory of Computational Biology (VIB-KU Leuven)
Division
Research in the Laboratory of Computational Biology is focusing on gene and genome regulation, with applications in Drosophila and cancer, and on integrative genomics, developing computational methods for genomic data integration and analysis of next-generation sequence data.
Current researchers
1 - 10 of 21 results
- Stein Aerts (Responsible)
- Darina Abaffyová (Member)
- Stein Aerts (Member)
- Sara Aibar Santos (Member)
- Cas Blaauw (Member)
- Carmen Bravo González-Blas (Member)
- Florian De Rop (Member)
- Seppe De Winter (Member)
- Hannah Dickmänken (Member)
- Sam Dieltiens (Member)
Projects
1 - 10 of 64
- Understanding gene regulation in a whole animal: From building a regulatory atlas to decoding gene regulation with deep learningFrom10 Jan 2024 → TodayFunding: Own budget, for example: patrimony, inscription fees, gifts
- SpaceTimeOmics: combining high-throughput spatial omics with AI to model gene regulation in space and timeFrom1 Jan 2024 → TodayFunding: FWO research project (including WEAVE projects)
- Interpretation of genomic regulatory variation in the human brain and Parkinson’s Disease by integrating deep learning with single-cell multi-omicsFrom1 Oct 2023 → TodayFunding: FWO junior postdoctoral fellowship
- Deep learning based synthetic design and massively parallel reporter assays to characterize and exploit cell type specific enhancersFrom1 Oct 2023 → TodayFunding: Own budget, for example: patrimony, inscription fees, gifts
- Enhancer-AI: AI-driven modelling and design of cell type specific enhancers for gene therapyFrom1 Oct 2023 → TodayFunding: FWO Strategic Basic Research (SBO)
- Deep learning solutions for deciphering gene regulation in the human brainFrom7 Mar 2023 → TodayFunding: FWO Strategic Basic Research Grant
- The role of smORF encoded polypeptides in lager beer fermentationFrom1 Jan 2023 → TodayFunding: FWO research project (including WEAVE projects)
- Applications of deep learning for cancer genomicsFrom1 Jan 2023 → TodayFunding: Own budget, for example: patrimony, inscription fees, gifts
- Evolution of the genomic regulatory code underlying neuronal diversityFrom1 Oct 2022 → TodayFunding: Own budget, for example: patrimony, inscription fees, gifts
- SymBioSys: Computationally mapping genomic heterogeneity from long read sequencing dataFrom1 Oct 2022 → TodayFunding: BOF - projects
Publications
121 - 130 of 177
- Whole-genome prediction of cis-regulatory modules and target genes yields insight into gene regulatory networks underlying sensory differentiation(2011)
Authors: Stein Aerts, Bassem Hassan
Pages: 221 - 223 - Multiplex enhancer-reporter assays uncover unsophisticated TP53 enhancer logic(2016)
Authors: Annelien Verfaillie, Dmitry Svetlichnyy, Hana Imrichova, Kristofer Davie, Mark Fiers, Zeynep Kalender Atak, Valerie Christiaens, Stein Aerts
Pages: 882 - 895 - cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data(2019)
Authors: Liesbeth Minnoye, Dafni Papasokrati, Valerie Christiaens, Kristofer Davie, Jasper Wouters, Stein Aerts
Pages: 397 - + - Tyrosine-Dependent Phenotype Switching Occurs Early in Many Primary Melanoma Cultures Limiting Their Translational Value(2021)
Authors: Jasper Wouters, Stein Aerts, Chris Marine
- A real-world single-centre analysis of the safety and efficacy of cladribine tablets for relapsing multiple sclerosis(2022)
Authors: Stein Aerts
Pages: 892 - 892 - Amniotic ectoderm expansion in mouse occurs via distinct modes and requires SMAD5-mediated signalling (vol 145, dev157222, 2018)(2018)
Authors: Mariya P Dobreva, Vanesa Abon Escalona, Kirstie A Lawson, Marina N Sanchez, Ljuba Ponomarev, Paulo NG Pereira, Agata Stryjewska, Nathan Criem, Danny Huylebroeck, Susana M Chuva de Sousa Lopes, et al.
- Dynamics and impact of TGFβ family signal interpretation on the transcriptional landscape, studied by perturbation strategies in embryonic cells(2017)
Authors: Ruben Dries, Danny Huylebroeck, Stein Aerts
- Unravelling enhancer landscapes in melanoma(2020)
Authors: Liesbeth Minnoye, Stein Aerts, Jasper Wouters, Chris Marine
- Drosophila Voltage-Gated Sodium Channels Are Only Expressed in Active Neurons and Are Localized to Distal Axonal Initial Segment-like Domains(2020)
Authors: Jasper Janssens, Stein Aerts
Pages: 7999 - 8024 - Prognostic relevance of molecular subtypes and master regulators in pancreatic ductal adenocarcinoma(2016)
Authors: Olivier Govaere, Johan Swinnen, Tania Roskams, Stein Aerts, Baki Topal