Modular discovery of monomeric and dimeric transcription factor binding motifs for large data sets

por Toivonen, Jarkko, Kivioja, Teemu, Jolma, Arttu, Yin, Yimeng, Taipale, Jussi, Ukkonen, Esko
Publicado 2018

Transcription factor family‐specific DNA shape readout revealed by quantitative specificity models

por Yang, Lin, Orenstein, Yaron, Jolma, Arttu, Yin, Yimeng, Taipale, Jussi, Shamir, Ron, Rohs, Remo
Publicado 2017

PRIESSTESS: interpretable, high-performing models of the sequence and structure preferences of RNA-binding proteins

por Laverty, Kaitlin U, Jolma, Arttu, Pour, Sara E, Zheng, Hong, Ray, Debashish, Morris, Quaid, Hughes, Timothy R
Publicado 2022

Structural insights into the DNA-binding specificity of E2F family transcription factors

por Morgunova, Ekaterina, Yin, Yimeng, Jolma, Arttu, Dave, Kashyap, Schmierer, Bernhard, Popov, Alexander, Eremina, Nadejda, Nilsson, Lennart, Taipale, Jussi
Publicado 2015

Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima

por Morgunova, Ekaterina, Yin, Yimeng, Das, Pratyush K, Jolma, Arttu, Zhu, Fangjie, Popov, Alexander, Xu, You, Nilsson, Lennart, Taipale, Jussi
Publicado 2018

Conservation of transcription factor binding specificities across 600 million years of bilateria evolution

por Nitta, Kazuhiro R, Jolma, Arttu, Yin, Yimeng, Morgunova, Ekaterina, Kivioja, Teemu, Akhtar, Junaid, Hens, Korneel, Toivonen, Jarkko, Deplancke, Bart, Furlong, Eileen E M, Taipale, Jussi
Publicado 2015

Binding specificities of human RNA-binding proteins toward structured and linear RNA sequences

por Jolma, Arttu, Zhang, Jilin, Mondragón, Estefania, Morgunova, Ekaterina, Kivioja, Teemu, Laverty, Kaitlin U., Yin, Yimeng, Zhu, Fangjie, Bourenkov, Gleb, Morris, Quaid, Hughes, Timothy R., Maher, Louis James, Taipale, Jussi
Publicado 2020

Distinct structural bases for sequence-specific DNA binding by mammalian BEN domain proteins

por Zheng, Luqian, Liu, Jingjing, Niu, Lijie, Kamran, Mohammad, Yang, Ally W.H., Jolma, Arttu, Dai, Qi, Hughes, Timothy R., Patel, Dinshaw J., Zhang, Long, Prasanth, Supriya G., Yu, Yang, Ren, Aiming, Lai, Eric C.
Publicado 2022

Multiparameter functional diversity of human C2H2 zinc finger proteins

por Schmitges, Frank W., Radovani, Ernest, Najafabadi, Hamed S., Barazandeh, Marjan, Campitelli, Laura F., Yin, Yimeng, Jolma, Arttu, Zhong, Guoqing, Guo, Hongbo, Kanagalingam, Tharsan, Dai, Wei F., Taipale, Jussi, Emili, Andrew, Greenblatt, Jack F., Hughes, Timothy R.
Publicado 2016

RNA-binding proteins that lack canonical RNA-binding domains are rarely sequence-specific

por Ray, Debashish, Laverty, Kaitlin U., Jolma, Arttu, Nie, Kate, Samson, Reuben, Pour, Sara E., Tam, Cyrus L., von Krosigk, Niklas, Nabeel-Shah, Syed, Albu, Mihai, Zheng, Hong, Perron, Gabrielle, Lee, Hyunmin, Najafabadi, Hamed, Blencowe, Benjamin, Greenblatt, Jack, Morris, Quaid, Hughes, Timothy R.
Publicado 2023

Genome-wide analysis of ETS-family DNA-binding in vitro and in vivo

por Wei, Gong-Hong, Badis, Gwenael, Berger, Michael F, Kivioja, Teemu, Palin, Kimmo, Enge, Martin, Bonke, Martin, Jolma, Arttu, Varjosalo, Markku, Gehrke, Andrew R, Yan, Jian, Talukder, Shaheynoor, Turunen, Mikko, Taipale, Mikko, Stunnenberg, Hendrik G, Ukkonen, Esko, Hughes, Timothy R, Bulyk, Martha L, Taipale, Jussi
Publicado 2010

A bacteriophage mimic of the bacterial nucleoid-associated protein Fis

por Chakraborti, Soumyananda, Balakrishnan, Dhanasekaran, Trotter, Alexander J., Gittens, William H., Yang, Ally W.H., Jolma, Arttu, Paterson, Joy R., Świątek, Sylwia, Plewka, Jacek, Curtis, Fiona A., Bowers, Laura Y., Pålsson, Lars-Olof, Hughes, Timothy R., Taube, Michał, Kozak, Maciej, Heddle, Jonathan G., Sharples, Gary J.
Publicado 2020