Crowding-induced transcriptional bursts dictate polymerase and nucleosome density profiles along genes

por van den Berg, Aafke A., Depken, Martin
Publicado 2017

Backtracking behavior in viral RNA-dependent RNA polymerase provides the basis for a second initiation site

por Dulin, David, Vilfan, Igor D., Berghuis, Bojk A., Poranen, Minna M., Depken, Martin, Dekker, Nynke H.
Publicado 2015

Argonaute bypasses cellular obstacles without hindrance during target search

por Cui, Tao Ju, Klein, Misha, Hegge, Jorrit W., Chandradoss, Stanley D., van der Oost, John, Depken, Martin, Joo, Chirlmin
Publicado 2019

Temperature controlled high-throughput magnetic tweezers show striking difference in activation energies of replicating viral RNA-dependent RNA polymerases

por Seifert, Mona, van Nies, Pauline, Papini, Flávia S, Arnold, Jamie J, Poranen, Minna M, Cameron, Craig E, Depken, Martin, Dulin, David
Publicado 2020

A kinetic model predicts SpCas9 activity, improves off-target classification, and reveals the physical basis of targeting fidelity

por Eslami-Mossallam, Behrouz, Klein, Misha, Smagt, Constantijn V. D., Sanden, Koen V. D., Jones, Stephen K., Hawkins, John A., Finkelstein, Ilya J., Depken, Martin
Publicado 2022

Quantitative parameters of bacterial RNA polymerase open-complex formation, stabilization and disruption on a consensus promoter

por Bera, Subhas C, America, Pim P B, Maatsola, Santeri, Seifert, Mona, Ostrofet, Eugeniu, Cnossen, Jelmer, Spermann, Monika, Papini, Flávia S, Depken, Martin, Malinen, Anssi M, Dulin, David
Publicado 2022

Slow unloading leads to DNA-bound β(2)-sliding clamp accumulation in live Escherichia coli cells

por Moolman, M. Charl, Krishnan, Sriram Tiruvadi, Kerssemakers, Jacob W. J., van den Berg, Aafke, Tulinski, Pawel, Depken, Martin, Reyes-Lamothe, Rodrigo, Sherratt, David J., Dekker, Nynke H.
Publicado 2014

Signatures of Nucleotide Analog Incorporation by an RNA-Dependent RNA Polymerase Revealed Using High-Throughput Magnetic Tweezers

por Dulin, David, Arnold, Jamie J., van Laar, Theo, Oh, Hyung-Suk, Lee, Cheri, Perkins, Angela L., Harki, Daniel A., Depken, Martin, Cameron, Craig E., Dekker, Nynke H.
Publicado 2017

Mechanism of assembly of an elongation-competent SARS-CoV-2 replication transcription complex

por Klein, Misha, Bera, Subhas C., Anderson, Thomas K., Wang, Bing, Papini, Flavia S., Arnold, Jamie J., Cameron, Craig E., Depken, Martin, Kirchdoerfer, Robert N., Artsimovitch, Irina, Dulin, David
Publicado 2023

Pausing controls branching between productive and non-productive pathways during initial transcription in bacteria

por Dulin, David, Bauer, David L. V., Malinen, Anssi M., Bakermans, Jacob J. W., Kaller, Martin, Morichaud, Zakia, Petushkov, Ivan, Depken, Martin, Brodolin, Konstantin, Kulbachinskiy, Andrey, Kapanidis, Achillefs N.
Publicado 2018

The nucleotide addition cycle of the SARS-CoV-2 polymerase

por Bera, Subhas Chandra, Seifert, Mona, Kirchdoerfer, Robert N., van Nies, Pauline, Wubulikasimu, Yibulayin, Quack, Salina, Papini, Flávia S., Arnold, Jamie J., Canard, Bruno, Cameron, Craig E., Depken, Martin, Dulin, David
Publicado 2021

The nucleotide addition cycle of the SARS-CoV-2 polymerase

por Bera, Subhas Chandra, Seifert, Mona, Kirchdoerfer, Robert N., van Nies, Pauline, Wubulikasimu, Yibulayin, Quack, Salina, Papini, Flávia S., Arnold, Jamie J., Canard, Bruno, Cameron, Craig E., Depken, Martin, Dulin, David
Publicado 2021

Systematic decomposition of sequence determinants governing CRISPR/Cas9 specificity

por Fu, Rongjie, He, Wei, Dou, Jinzhuang, Villarreal, Oscar D., Bedford, Ella, Wang, Helen, Hou, Connie, Zhang, Liang, Wang, Yalong, Ma, Dacheng, Chen, Yiwen, Gao, Xue, Depken, Martin, Xu, Han
Publicado 2022

Inhibition of SARS-CoV-2 polymerase by nucleotide analogs from a single-molecule perspective

por Seifert, Mona, Bera, Subhas C, van Nies, Pauline, Kirchdoerfer, Robert N, Shannon, Ashleigh, Le, Thi-Tuyet-Nhung, Meng, Xiangzhi, Xia, Hongjie, Wood, James M, Harris, Lawrence D, Papini, Flavia S, Arnold, Jamie J, Almo, Steven, Grove, Tyler L, Shi, Pei-Yong, Xiang, Yan, Canard, Bruno, Depken, Martin, Cameron, Craig E, Dulin, David
Publicado 2021

Inhibition of SARS-CoV-2 polymerase by nucleotide analogs: a single molecule perspective

por Seifert, Mona, Bera, Subhas Chandra, van Nies, Pauline, Kirchdoerfer, Robert N., Shannon, Ashleigh, Le, Thi-Tuyet-Nhung, Meng, Xiangzhi, Xia, Hongjie, Wood, James M., Harris, Lawrence D., Papini, Flávia S., Arnold, Jamie J., Almo, Steven C., Grove, Tyler L., Shi, Pei-Yong, Xiang, Yan, Canard, Bruno, Depken, Martin, Cameron, Craig E., Dulin, David
Publicado 2021