How motif environment influences transcription factor search dynamics: Finding a needle in a haystack

by Dror, Iris, Rohs, Remo, Mandel‐Gutfreund, Yael
Published 2016

Molecular flexibility in ab initio drug docking to DNA: binding-site and binding-mode transitions in all-atom Monte Carlo simulations

by Rohs, Remo, Bloch, Itai, Sklenar, Heinz, Shakked, Zippora
Published 2005

Covariation between homeodomain transcription factors and the shape of their DNA binding sites

by Dror, Iris, Zhou, Tianyin, Mandel-Gutfreund, Yael, Rohs, Remo
Published 2014

Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein–DNA interactions

by Eldar, Amir, Rozenberg, Haim, Diskin-Posner, Yael, Rohs, Remo, Shakked, Zippora
Published 2013

Control of DNA minor groove width and Fis protein binding by the purine 2-amino group

by Hancock, Stephen P., Ghane, Tahereh, Cascio, Duilio, Rohs, Remo, Di Felice, Rosa, Johnson, Reid C.
Published 2013

TFBSshape: a motif database for DNA shape features of transcription factor binding sites

by Yang, Lin, Zhou, Tianyin, Dror, Iris, Mathelier, Anthony, Wasserman, Wyeth W., Gordân, Raluca, Rohs, Remo
Published 2014

DNAshapeR: an R/Bioconductor package for DNA shape prediction and feature encoding

by Chiu, Tsu-Pei, Comoglio, Federico, Zhou, Tianyin, Yang, Lin, Paro, Renato, Rohs, Remo
Published 2016

ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo

by Zentner, Gabriel E., Kasinathan, Sivakanthan, Xin, Beibei, Rohs, Remo, Henikoff, Steven
Published 2015

Corrigendum: ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo

by Zentner, Gabriel E., Kasinathan, Sivakanthan, Xin, Beibei, Rohs, Remo, Henikoff, Steven
Published 2015

Structure of p53 binding to the BAX response element reveals DNA unwinding and compression to accommodate base-pair insertion

by Chen, Yongheng, Zhang, Xiaojun, Dantas Machado, Ana Carolina, Ding, Yuan, Chen, Zhuchu, Qin, Peter Z., Rohs, Remo, Chen, Lin
Published 2013

DNAshape: a method for the high-throughput prediction of DNA structural features on a genomic scale

by Zhou, Tianyin, Yang, Lin, Lu, Yan, Dror, Iris, Dantas Machado, Ana Carolina, Ghane, Tahereh, Di Felice, Rosa, Rohs, Remo
Published 2013

Genome-wide features of neuroendocrine regulation in Drosophila by the basic helix-loop-helix transcription factor DIMMED

by Hadžić, Tarik, Park, Dongkook, Abruzzi, Katharine C., Yang, Lin, Trigg, Jennifer S., Rohs, Remo, Rosbash, Michael, Taghert, Paul H.
Published 2015

Evolving insights on how cytosine methylation affects protein–DNA binding

by Dantas Machado, Ana Carolina, Zhou, Tianyin, Rao, Satyanarayan, Goel, Pragya, Rastogi, Chaitanya, Lazarovici, Allan, Bussemaker, Harmen J., Rohs, Remo
Published 2015

Conformations of p53 response elements in solution deduced using site-directed spin labeling and Monte Carlo sampling

by Zhang, Xiaojun, Dantas Machado, Ana Carolina, Ding, Yuan, Chen, Yongheng, Lu, Yan, Duan, Yankun, Tham, Kenneth W., Chen, Lin, Rohs, Remo, Qin, Peter Z.
Published 2014

Sequences flanking the core-binding site modulate glucocorticoid receptor structure and activity

by Schöne, Stefanie, Jurk, Marcel, Helabad, Mahdi Bagherpoor, Dror, Iris, Lebars, Isabelle, Kieffer, Bruno, Imhof, Petra, Rohs, Remo, Vingron, Martin, Thomas-Chollier, Morgane, Meijsing, Sebastiaan H.
Published 2016

Corrigendum: Sequences flanking the core-binding site modulate glucocorticoid receptor structure and activity

by Schöne, Stefanie, Jurk, Marcel, Helabad, Mahdi Bagherpoor, Dror, Iris, Lebars, Isabelle, Kieffer, Bruno, Imhof, Petra, Rohs, Remo, Vingron, Martin, Thomas-Chollier, Morgane, Meijsing, Sebastiaan H.
Published 2016

GBshape: a genome browser database for DNA shape annotations

by Chiu, Tsu-Pei, Yang, Lin, Zhou, Tianyin, Main, Bradley J., Parker, Stephen C.J., Nuzhdin, Sergey V., Tullius, Thomas D., Rohs, Remo
Published 2015

Expansion of GA Dinucleotide Repeats Increases the Density of CLAMP Binding Sites on the X-Chromosome to Promote Drosophila Dosage Compensation

by Kuzu, Guray, Kaye, Emily G., Chery, Jessica, Siggers, Trevor, Yang, Lin, Dobson, Jason R., Boor, Sonia, Bliss, Jacob, Liu, Wei, Jogl, Gerwald, Rohs, Remo, Singh, Nadia D., Bulyk, Martha L., Tolstorukov, Michael Y., Larschan, Erica
Published 2016

Mechanistic insights into metal ion activation and operator recognition by the ferric uptake regulator

by Deng, Zengqin, Wang, Qing, Liu, Zhao, Zhang, Manfeng, Machado, Ana Carolina Dantas, Chiu, Tsu-Pei, Feng, Chong, Zhang, Qi, Yu, Lin, Qi, Lei, Zheng, Jiangge, Wang, Xu, Huo, XinMei, Qi, Xiaoxuan, Li, Xiaorong, Wu, Wei, Rohs, Remo, Li, Ying, Chen, Zhongzhou
Published 2015