Harmen J. Bussemaker

11.0k citations

93 papers · 7.4k indexed · 2 hit papers · h-index 41

Impact in

Aging top 0.5%
Molecular Biology top 0.5%
- Genomics and Chromatin Dynamics
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- RNA modifications and cancer
- Epigenetics and DNA Methylation
- Gene expression and cancer classification
- Bioinformatics and Genomic Networks
- Genomics and Phylogenetic Studies

Papers in

Molecular Biology 80
- Genomics and Chromatin Dynamics 56
- RNA Research and Splicing 33
- RNA and protein synthesis mechanisms 24
- Gene expression and cancer classification 13
- RNA modifications and cancer 11
- Fungal and yeast genetics research 11
- Epigenetics and DNA Methylation 10
- Cancer-related gene regulation 8
Aging 2

Co-authors: Eric D. Siggia Hao Li Barrett C. Foat Bas van Steensel Richard S. Mann Lucas D. Ward Remo Rohs Xiang‐Jun Lu
Journals: Proceedings of the National Academy of Sciences (10 papers)Nucleic Acids Research (8 papers)Cell (5 papers)Nature Biotechnology (3 papers)Journal of Biomolecular Structure and Dynamics (3 papers)
Partner nations: United States Netherlands Germany

In The Last Decade

Harmen J. Bussemaker

89 papers receiving 7.3k citations

Hit Papers

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Systematic Protein Location Mapping Reveals Five Principal Chromatin Types in Drosophila Cells 2010 · 693 citations

Peers

Countries citing papers authored by Harmen J. Bussemaker

Since Specialization

Citations

This map shows the geographic impact of Harmen J. Bussemaker's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Harmen J. Bussemaker with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Harmen J. Bussemaker more than expected).

Fields of papers citing papers by Harmen J. Bussemaker

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Harmen J. Bussemaker. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Harmen J. Bussemaker. The network helps show where Harmen J. Bussemaker may publish in the future.

Co-authors

The 25 scholars most cited alongside Harmen J. Bussemaker, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with Harmen J. Bussemaker Line = papers co-authored together Harmen J. Bussemaker links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	Accurate affinity models for SH2 domains from peptide binding assays and free‐energy regression Protein Science ·Kyunghoan Lee, H. Tomas Rube, Chaitanya Rastogi, Po Hsun Chen, Xiaoting Li, Xiaodie Wu, Neel H. Shah, Harmen J. Bussemaker	2025	0
2	Predicting the DNA binding specificity of transcription factor mutants using family-level biophysically interpretable machine learning Nucleic Acids Research ·Ji Guo, Gonca Eren, Christ Leemans, William J. Glassford, Po Hsun Chen, Xiang‐Jun Lu, Richard S. Mann, Harmen J. Bussemaker	2025	0
3	Transcription factor regulation of eQTL activity across individuals and tissues PLoS Genetics ·Elise D. Flynn, 植也山下, Silva Kasela, Sarah Kim-Hellmuth, François Aguet, Kristin Ardlie, Harmen J. Bussemaker, Pejman Mohammadi, Tuuli Lappalainen	2022	21
4	Prediction of protein–ligand binding affinity from sequencing data with interpretable machine learning Nature Biotechnology ·H. Tomas Rube, Chaitanya Rastogi, 芳孝後藤, Judith F. Kribelbauer, Amina Batool, I. G. Vinogradov, Po Hsun Chen, Lulin Ma, Xiaoting Li, 常吉幸子, Neel H. Shah, Richard S. Mann, Harmen J. Bussemaker	2022	65
5	Systematic in vitro profiling of off-target affinity, cleavage and efficiency for CRISPR enzymes Nucleic Acids Research ·Liyang Zhang, H. Tomas Rube, Christopher A. Vakulskas, Mark A. Behlke, Harmen J. Bussemaker, Miles A. Pufall	2020	31
6	A unified approach for quantifying and interpreting DNA shape readout by transcription factors Molecular Systems Biology ·H. Tomas Rube, Chaitanya Rastogi, Judith F. Kribelbauer, Harmen J. Bussemaker	2018	28
7	SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site Genome Research ·Liyang Zhang, Greg Pawlikowski, H. Tomas Rube, Judith F. Kribelbauer, Chaitanya Rastogi, Vincent FitzPatrick, Jon C. D. Houtman, Harmen J. Bussemaker, Miles A. Pufall	2017	29
8	Quantitative modeling of transcription factor binding specificities using DNA shape Proceedings of the National Academy of Sciences ·Tianyin Zhou, Ning Shen, Lin Yang, Namiko Abe, J.R. Horton, Richard S. Mann, Harmen J. Bussemaker, Raluca Gordân, Remo Rohs	2015	178
9	SNAP: Software for Analyzing Structures of Nucleic Acid-Protein Complexes Biophysical Journal ·Xiang‐Jun Lu, Wilma K. Olson, Harmen J. Bussemaker	2014	1
10	Combinatorial control of diverse metabolic and physiological functions by transcriptional regulators of the yeast sulfur assimilation pathway Molecular Biology of the Cell ·Allegra A. Petti, R. Scott McIsaac, Sonia Chaluisa Chaluisa, Harmen J. Bussemaker, David Botstein	2012	31
11	Perturbation-based analysis and modeling of combinatorial regulation in the yeast sulfur assimilation pathway Molecular Biology of the Cell ·R. Scott McIsaac, Allegra A. Petti, Harmen J. Bussemaker, David Botstein	2012	36
12	Systematic Protein Location Mapping Reveals Five Principal Chromatin Types in Drosophila Cells Cell ·Guillaume J. Filion, Joke G. van Bemmel, Ulrich Braunschweig, Wendy Talhout, Jop Kind, Lucas D. Ward, Wim Brugman, Inês J. de Castro, Ron Kerkhoven, Harmen J. Bussemaker, Bas van Steensel Hit paper breakdown →	2010	693
13	TransfactomeDB: a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors Nucleic Acids Research ·Barrett C. Foat, 杉田喜子, Harmen J. Bussemaker	2007	19
14	Hotspots of transcription factor colocalization in the genome of Drosophila melanogaster Proceedings of the National Academy of Sciences ·Celine Moorman, 徳秀吉田, Junbai Wang, Elzo de Wit, Wendy Talhout, Lucas D. Ward, Frauke Greil, Xiang‐Jun Lu, Kevin P. White, Harmen J. Bussemaker, Bas van Steensel	2006	152
15	A Gene Expression Map for the Euchromatic Genome of Drosophila melanogaster Science ·Viktor Štolc, Agus Sudigdo, Christopher E. Mason, G. Halász, Marinus F. van Batenburg, Scott A. Rifkin, Sujun Hua, Hellen Susy, Waraporn Tongprasit, Paolo Emilio Barbano, Harmen J. Bussemaker, Kevin P. White	2004	243
16	Genomewide analysis of Drosophila GAGA factor target genes reveals context-dependent DNA binding. The Plant Journal ·Bas van Steensel, Jeffrey J. Delrow, Harmen J. Bussemaker	2003	7
17	Genomic binding by the Drosophila Myc, Max, Mad/Mnt transcription factor network Genes & Development ·Amir Orian, Bas van Steensel, Jeffrey J. Delrow, Harmen J. Bussemaker, Ling Li, Tomoyuki Sawado, Eleanor Williams, Lenora W. M. Loo, Shaun M. Cowley, Cynthia Yost, Sarah B. Pierce, Bruce A. Edgar, Susan M. Parkhurst, Robert N. Eisenman	2003	334
18	Hap4p overexpression in glucose-grown Saccharomyces cerevisiae induces cells to enter a novel metabolic state Genome biology ·Romeo Lascaris, Harmen J. Bussemaker, André Boorsma, Matthew D. W. Piper, Hans van der Spek, Les Grivell, J.G. Blom	2002	85
19	Dissection of Transient Oxidative Stress Response inSaccharomyces cerevisiaeby Using DNA Microarrays Molecular Biology of the Cell ·Marian J.A. Groot Koerkamp, Martijn Rep, Harmen J. Bussemaker, Guy Hardy, Adri N. Mul, Weldon Cs, Cristina Al‐Khalili Szigyarto, 이형식, Henk F. Tabak	2002	99
20	Regulatory element detection using correlation with expression Nature Genetics ·Harmen J. Bussemaker, Hao Li, Eric D. Siggia Hit paper breakdown →	2001	535

About Harmen J. Bussemaker

Harmen J. Bussemaker is a scholar working on Molecular Biology, Aging, Condensed Matter Physics, Mathematical Physics and Genetics, having authored 93 papers that have together received 7.4k indexed citations. Recurring topics across this work include Genomics and Chromatin Dynamics (56 papers), RNA Research and Splicing (33 papers), RNA and protein synthesis mechanisms (24 papers), Gene expression and cancer classification (13 papers), RNA modifications and cancer (11 papers), Fungal and yeast genetics research (11 papers), Epigenetics and DNA Methylation (10 papers) and Cancer-related gene regulation (8 papers). The work is most often cited by research in Aging (424 citations), Molecular Biology (6.5k citations), Genetics (973 citations), Plant Science (920 citations) and Cancer Research (325 citations). Harmen J. Bussemaker has collaborated with scholars based in United States, Netherlands and Germany. Frequent co-authors include Eric D. Siggia, Hao Li, Barrett C. Foat, Bas van Steensel, Richard S. Mann, Lucas D. Ward, Remo Rohs, Xiang‐Jun Lu, Todd Riley and Judith F. Kribelbauer. Their work appears in journals such as Proceedings of the National Academy of Sciences, Nucleic Acids Research, Cell, Nature Biotechnology and Journal of Biomolecular Structure and Dynamics.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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