Harmen J Bussemaker

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 16

Top Topics

Circulating Tumor Cells

Machine Learning

Transcription Factor

High Throughput Sequencing

Top Venues

bioRxiv : the preprint server for biology

Nature biotechnology

Nature communications

Nucleic acids research

This page only lists publications with an associated author ORCID identifier.

Publications

Shaoxun Liu, Pilar Gomez-Alcala, Christ Leemans, William J Glassford, Richard S Mann, Harmen J Bussemaker
Predicting the DNA binding specificity of mutated transcription factors using family-level biophysically interpretable machine learning. bioRxiv : the preprint server for biology (2024)
Shaoxun Liu, Pilar Gomez-Alcala, Christ Leemans, William J Glassford, Richard S Mann, Harmen J Bussemaker
Predicting the DNA binding specificity of mutated transcription factors using family-level biophysically interpretable machine learning. bioRxiv : the preprint server for biology (2024)
Xiaoting Li, Lucas A N Melo, Harmen J Bussemaker
Benchmarking DNA binding affinity models using allele-specific transcription factor binding data. bioRxiv : the preprint server for biology (2023)
Vincent D FitzPatrick, Christ Leemans, Joris van Arensbergen, Bas van Steensel, Harmen J Bussemaker
Defining the fine structure of promoter activity on a genome-wide scale with CISSECTOR. Nucleic acids research (2023)
Xiaoting Li, Lucas A N Melo, Harmen J Bussemaker
Benchmarking DNA binding affinity models using allele-specific transcription factor binding data. bioRxiv : the preprint server for biology (2023)
Xiaoting Li, Lucas A N Melo, Harmen J Bussemaker
Benchmarking DNA binding affinity models using allele-specific transcription factor binding data. bioRxiv : the preprint server for biology (2023)
Xiaoting Li, Lucas A N Melo, Harmen J Bussemaker
Benchmarking DNA binding affinity models using allele-specific transcription factor binding data. bioRxiv : the preprint server for biology (2023)
Max Trauernicht, Chaitanya Rastogi, Stefano G Manzo, Harmen J Bussemaker, Bas van Steensel
Optimisation of TP53 reporters by systematic dissection of synthetic TP53 response elements. Nucleic acids research (2023)
Xiaoting Li, Lucas A N Melo, Harmen J Bussemaker
Benchmarking DNA binding affinity models using allele-specific transcription factor binding data. bioRxiv : the preprint server for biology (2023)
H Tomas Rube, Chaitanya Rastogi, Siqian Feng, Judith F Kribelbauer, Allyson Li, Basheer Becerra, Lucas A N Melo, Bach Viet Do, Xiaoting Li, Hammaad H Adam, Neel H Shah, Richard S Mann, Harmen J Bussemaker
Prediction of protein-ligand binding affinity from sequencing data with interpretable machine learning. Nature biotechnology 40 (10) (2022)
Elise D Flynn, Athena L Tsu, Silva Kasela, Sarah Kim-Hellmuth, François Aguet, Kristin G Ardlie, Harmen J Bussemaker, Pejman Mohammadi, Tuuli Lappalainen
Transcription factor regulation of eQTL activity across individuals and tissues. PLoS genetics 18 (1) (2022)
Siqian Feng, Chaitanya Rastogi, Ryan Loker, William J Glassford, H Tomas Rube, Harmen J Bussemaker, Richard S Mann
Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors. Nature communications 13 (1) (2022)
Joris H Janssen, Ludo Pagie, Vincent D FitzPatrick, Marcel de Haas, Marijke P Baltissen, Federico Comoglio, Robin H van der Weide, Hans Teunissen, Urmo Võsa, Lude Franke, Elzo de Wit, Michiel Vermeulen, Harmen J Bussemaker, Bas van Steensel
High-throughput identification of human SNPs affecting regulatory element activity. Nature genetics 51 (7) (2019)
Carlos Sánchez-Higueras, Chaitanya Rastogi, Roumen Voutev, Harmen J Bussemaker, Richard S Mann, James Castelli-Gair Hombría
In vivo Hox binding specificity revealed by systematic changes to a single cis regulatory module. Nature communications 10 (1) (2019)
H Tomas Rube, Chaitanya Rastogi, Judith F Kribelbauer, Harmen J Bussemaker
A unified approach for quantifying and interpreting DNA shape readout by transcription factors. Molecular systems biology 14 (2) (2018)
Joris van Arensbergen, Vincent D FitzPatrick, Marcel de Haas, Ludo Pagie, Jasper Sluimer, Harmen J Bussemaker, Bas van Steensel
Genome-wide mapping of autonomous promoter activity in human cells. Nature biotechnology 35 (2) (2016)