Author: Bussemaker, Harmen J. | Search Results | Academic Commons

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1. Accurate and sensitive quantification of protein-DNA binding affinity

: Rastogi, Chaitanya; Rube, Hans Tomas; Kribelbauer, Judith Franziska; Crocker, Justin; Loker, Ryan Edmund; Martini, Gabriella D.; Laptenko, Oleg; Freed-Pastor, William Allen; Prives, Carol L.; Stern, David L.; Mann, Richard S.; Bussemaker, Harmen J.
: 2018
: Articles
: Transcription factorsDNA-protein interactionsProtein bindingProbabilities--Mathematical models

2. Systematic prediction of DNA shape changes due to CpG methylation explains epigenetic effects on protein–DNA binding

: Rao, Satyanarayan; Chiu, Tsu-Pei; Kribelbauer, Judith F.; Mann, Richard S.; Bussemaker, Harmen J.; Rohs, Remo
: 2018
: Articles
: DNA--MethylationEpigeneticsDNA-binding proteinsSystems biology

3. Quantitative Analysis of the DNA Methylation Sensitivity of Transcription Factor Complexes

: Kribelbauer, Judith F.; Laptenko, Oleg; Chen, Siying; Martini, Gabriella D.; Freed-Pastor, William Allen; Prives, Carol L.; Mann, Richard S.; Bussemaker, Harmen J.
: 2017
: Articles
: DNA--MethylationTranscription factorsGenetic regulationDNA-protein interactionsEpigenetics

4. Characterizing a collective and dynamic component of chromatin immunoprecipitation enrichment profiles in yeast

: Ward, Lucas; Wang, Junbai; Bussemaker, Harmen J.
: 2014
: Articles
: Protein bindingTranscription factorsGenetics

5. Dissecting complex transcriptional responses using pathway-level scores based on prior information

: Bussemaker, Harmen J.; Ward, Lucas; Boorsma, Andre
: 2007
: Articles
: Messenger RNADNA microarraysBiologyGenetics

6. Detecting transcriptionally active regions using genomic tiling arrays

: Halasz, Gabor; van Batenburg, Marinus F.; Perusse, Joelle; Hua, Sujun; Lu, Xiang-Jun; White, Kevin P.; Bussemaker, Harmen J.
: 2006
: Articles
: Genetic transcriptionDNA probesGenomicsDNA microarraysGeneticsBioinformatics

7. Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data

: Gao, Feng; Foat, Barrett; Bussemaker, Harmen J.
: 2004
: Articles
: BioinformaticsGenetics

8. Hap4p overexpression in glucose-grown Saccharomyces cerevisiae induces cells to enter a novel metabolic state

: Lascaris, Romeo; Bussemaker, Harmen J.; Boorsma, André; Piper, Matt; van der Spek, Hans; Grivell, Les; Blom, Jolanda
: 2002
: Articles
: Gene regulatory networksOverexpression (Genetics)MitochondriaSaccharomyces cerevisiae--GeneticsGeneticsCytology