Harmen J. Bussemaker - Publications, H-index & Citations

Harmen J. Bussemaker

columbia university department of biological sciences, , new york , ny 10027 ,

47H指数

135论文数

1.1W被引数

收录论文 56

发表时间

Accurate affinity models for SH2 domains from peptide binding assays and free-energy regression 基于肽结合实验和自由能回归的SH2结构域精确亲和力模型

Protein Science

IF5.2

2025-10-14

OAAI

Dejan Gagoski; H. Tomas Rube; Chaitanya Rastogi; Lucas A. N. Melo; Xiaoting Li; Rashmi Voleti; Neel H. Shah; Harmen J. Bussemaker

Predicting the DNA binding specificity of transcription factor mutants using family-level biophysically interpretable machine learning 使用家族层面具有生物物理可解释性的机器学习预测转录因子突变体的DNA结合特异性

Nucleic Acids Research

IF13.1

2025-08-28

OAAI

Shaoxun Liu; Pilar Gomez-Alcala; Christ Leemans; William J Glassford; Lucas A N Melo; Xiang-Jun Lu; Richard S Mann; Harmen J Bussemaker

Benchmarking and building DNA binding affinity models using allele-specific and allele-agnostic transcription factor binding data 使用等位基因特异性和等位基因不可知的转录因子结合数据进行基准测试和构建DNA结合亲和力模型

GENOME BIOLOGY

IF9.4

2024-10-31

OAAI

Li, Xiaoting; Melo, Lucas A. N.; Bussemaker, Harmen J.

Identifying genetic regulatory variants that affect transcription factor activity

CELL GENOMICS

IF9

2023-09-01

OAAI

Li, Xiaoting; Lappalainen, Tuuli; Bussemaker, Harmen J.

Optimisation of TP53 reporters by systematic dissection of synthetic TP53 response elements 通过系统解剖合成TP53反应元件优化TP53报告子

NUCLEIC ACIDS RESEARCH

IF13.1

2023-08-31

OAAI

Trauernicht, Max; Rastogi, Chaitanya; Manzo, Stefano G.; Bussemaker, Harmen J.; van Steensel, Bas

Defining the fine structure of promoter activity on a genome-wide scale with CISSECTOR 使用CISSECTOR在全基因组范围内定义启动子活性的精细结构

NUCLEIC ACIDS RESEARCH

IF13.1

2023-04-04

OAAI

FitzPatrick, Vincent D.; Leemans, Christ; van Arensbergen, Joris; van Steensel, Bas; Bussemaker, Harmen J.

Emerging questions in transcriptional regulation

CELL SYSTEMS

IF7.7

2023-04-01

PREAI

Nora, Elphege P.; Aerts, Stein; Wittkopp, Patricia J.; Bussemaker, Harmen J.; Bulyk, Martha; Sinha, Saurabh; Zeitlinger, Julia; Crocker, Justin; Bass, Juan Ignacio Fuxman

Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors

NATURE COMMUNICATIONS

IF15.7

2022-07-01

OAAI

Feng, Sidian; Rastogig, Chaitanya; Loker, Ryan; Glassford, William J.; Rube, H. Tomas; Bussemaker, Harmen J.; Mann, Richard S.

Prediction of protein-ligand binding affinity from sequencing data with interpretable machine learning

NATURE BIOTECHNOLOGY

IF41.7

2022-05-23

OAAI

Rube, H. Tomas; Rastogi, Chaitanya; Feng, Siqian; Kribelbauer, Judith F.; Li, Allyson; Becerra, Basheer; Melo, Lucas A. N.; Do, Bach Viet; Li, Xiaoting; Adam, Hammaad H.; Shah, Neel H.; Mann, Richard S.; Bussemaker, Harmen J.

Transcription factor regulation of eQTL activity across individuals and tissues

PLOS GENETICS

IF3.7

2022-01-31

OAAI

Flynn, Elise D.; Tsu, Athena L.; Kasela, Silva; Kim-Hellmuth, Sarah; Aguet, Francois; Ardlie, Kristin; Bussemaker, Harmen; Mohammadi, Pejman; Lappalainen, Tuuli

Systematic in vitro profiling of off-target affinity, cleavage and efficiency for CRISPR enzymes

NUCLEIC ACIDS RESEARCH

IF13.1

2020-04-21

OAAI

Zhang, Liyang; Rube, H. Tomas; Vakulskas, Christopher A.; Behlke, Mark A.; Bussemaker, Harmen J.; Pufall, Miles A.

Context-Dependent Gene Regulation by Homeodomain Transcription Factor Complexes Revealed by Shape-Readout Deficient Proteins

MOLECULAR CELL

IF16.6

2020-04-01

OAAI

Kribelbauer, Judith F.; Loker, Ryan E.; Feng, Siqian; Rastogi, Chaitanya; Abe, Namiko; Rube, H. Tomas; Bussemaker, Harmen J.; Mann, Richard S.

Low-Affinity Binding Sites and the Transcription Factor Specificity Paradox in Eukaryotes 真核生物中的低亲和力结合位点和转录因子特异性悖论

ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY

IF0

2019-10-06

145

OAAI

Kribelbauer, Judith F.; Rastogi, Chaitanya; Bussemaker, Harmen J.; Mann, Richard S.

In vivo Hox binding specificity revealed by systematic changes to a single cis regulatory module

NATURE COMMUNICATIONS

IF15.7

2019-08-09

OAAI

Sanchez-Higueras, Carlos; Rastogi, Chaitanya; Voutev, Roumen; Bussemaker, Harmen J.; Mann, Richard S.; Hombria, James C-G

High-throughput identification of human SNPs affecting regulatory element activity 影响调控元件活性的人类snp的高通量鉴定

NATURE GENETICS

IF31.8

2019-06-28

142

OAAI

van Arensbergen, Joris; Pagie, Ludo; FitzPatrick, Vincent D.; de Haas, Marcel; Baltissen, Marijke P.; Comoglio, Federico; van der Weide, Robin H.; Teunissen, Hans; Vosa, Urmo; Franke, Lude; de Wit, Elzo; Vermeulen, Michiel; Bussemaker, Harmen J.; van Steensel, Bas

Accurate and sensitive quantification of protein-DNA binding affinity

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

IF9.1

2018-04-02

OAAI

Rastogi, Chaitanya; Rube, H. Tomas; Kribelbauer, Judith F.; Crocker, Justin; Loker, Ryan E.; Martini, Gabriella D.; Laptenko, Oleg; Freed-Pastor, William A.; Prives, Carol; Stern, David L.; Mann, Richard S.; Bussemaker, Harmen J.

A unified approach for quantifying and interpreting DNA shape readout by transcription factors

MOLECULAR SYSTEMS BIOLOGY

IF7.7

2018-02-22

OAAI

Rube, H. Tomas; Rastogi, Chaitanya; Kribelbauer, Judith F.; Bussemaker, Harmen J.

Systematic prediction of DNA shape changes due to CpG methylation explains epigenetic effects on protein-DNA binding CpG甲基化引起的DNA形状变化的系统预测解释了表观遗传对蛋白质-DNA结合的影响

EPIGENETICS & CHROMATIN

IF3.5

2018-02-06

OAAI

Rao, Satyanarayan; Chiu, Tsu-Pei; Kribelbauer, Judith F.; Mann, Richard S.; Bussemaker, Harmen J.; Rohs, Remo

SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site

GENOME RESEARCH

IF5.5

2017-12-01

OAAI

Zhang, Liyang; Martini, Gabriella D.; Rube, H. Tomas; Kribelbauer, Judith F.; Rastogi, Chaitanya; FitzPatrick, Vincent D.; Houtman, Jon C.; Bussemaker, Harmen J.; Pufall, Miles A.

Quantitative Analysis of the DNA Methylation Sensitivity of Transcription Factor Complexes

CELL REPORTS

IF6.9

2017-06-01

OAAI

Kribelbauer, Judith F.; Laptenko, Oleg; Chen, Siying; Martini, Gabriella D.; Freed-Pastor, William A.; Prives, Carol; Mann, Richard S.; Bussemaker, Harmen J.

研究方向