Structure of paused transcription complex Pol II–DSIF–NELF

RNA Polymerase Accommodates a Pause RNA Hairpin by Global Conformational Rearrangements that Prolong Pausing

(2018) Jin Young Kang et al.   MOLECULAR CELL

Structural Basis for NusA Stabilized Transcriptional Pausing

(2018) Xieyang Guo et al.   MOLECULAR CELL

Structure of activated transcription complex Pol II–DSIF–PAF–SPT6

(2018) Seychelle M. Vos et al.   NATURE

Structure of a transcribing RNA polymerase II–DSIF complex reveals a multidentate DNA–RNA clamp

(2017) Carrie Bernecky et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structure of the complete elongation complex of RNA polymerase II with basal factors

(2017) Haruhiko Ehara et al.   SCIENCE

Structure of a transcribing RNA polymerase II–DSIF complex reveals a multidentate DNA–RNA clamp

(2017) Carrie Bernecky et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CDK9-dependent RNA polymerase II pausing controls transcription initiation

(2017) Saskia Gressel et al.   eLife

A pipeline approach to single-particle processing inRELION

(2017) Rafael Fernandez-Leiro et al.   Acta Crystallographica Section D-Structural Biology

Near-atomic resolution visualization of human transcription promoter opening

(2016) Yuan He et al.   NATURE

Transcription initiation complex structures elucidate DNA opening

(2016) C. Plaschka et al.   NATURE

Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2

(2016) Dari Kimanius et al.   eLife

Xlink Analyzer: Software for analysis and visualization of cross-linking data in the context of three-dimensional structures

(2015) Jan Kosinski et al.   JOURNAL OF STRUCTURAL BIOLOGY

xiNET: Cross-link Network Maps With Residue Resolution

(2015) Colin W. Combe et al.   MOLECULAR & CELLULAR PROTEOMICS

Pausing of RNA Polymerase II Regulates Mammalian Developmental Potential through Control of Signaling Networks

(2015) Lucy H. Williams et al.   MOLECULAR CELL

A pause sequence enriched at translation start sites drives transcription dynamics in vivo

(2014) M. H. Larson et al.   SCIENCE

Defining NELF-E RNA Binding in HIV-1 and Promoter-Proximal Pause Regions

(2014) John M. Pagano et al.   PLoS Genetics

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Scalable web services for the PSIPRED Protein Analysis Workbench

(2013) Daniel W. A. Buchan et al.   NUCLEIC ACIDS RESEARCH

Nuclear export inhibition through covalent conjugation and hydrolysis of Leptomycin B by CRM1

(2013) Qingxiang Sun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural basis of transcription elongation

(2012) Fuensanta W. Martinez-Rucobo et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

RELION: Implementation of a Bayesian approach to cryo-EM structure determination

(2012) Sjors H.W. Scheres   JOURNAL OF STRUCTURAL BIOLOGY

Identification of cross-linked peptides from complex samples

(2012) Bing Yang et al.   NATURE METHODS

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Structural basis of initial RNA polymerase II transcription

(2011) Alan C M Cheung et al.   EMBO JOURNAL

Factor-independent transcription pausing caused by recognition of the RNA-DNA hybrid sequence

(2011) Aleksandra Bochkareva et al.   EMBO JOURNAL

Structural basis of RNA polymerase II backtracking, arrest and reactivation

(2011) Alan C. M. Cheung et al.   NATURE

Features and development ofCoot

(2010) P. Emsley et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

c-Myc Regulates Transcriptional Pause Release

(2010) Peter B. Rahl et al.   CELL

Dali server: conservation mapping in 3D

(2010) Liisa Holm et al.   NUCLEIC ACIDS RESEARCH

Interactions between DSIF (DRB sensitivity inducing factor), NELF (negative elongation factor), and the Drosophila RNA polymerase II transcription elongation complex

(2010) A. Missra et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Mechanism of sequence-specific pausing of bacterial RNA polymerase

(2009) M. L. Kireeva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Immediate mediators of the inflammatory response are poised for gene activation through RNA polymerase II stalling

(2009) K. Adelman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global Analysis of Short RNAs Reveals Widespread Promoter-Proximal Stalling and Arrest of Pol II in Drosophila

(2009) S. Nechaev et al.   SCIENCE

Flexible Fitting of Atomic Structures into Electron Microscopy Maps Using Molecular Dynamics

(2008) Leonardo G. Trabuco et al.   STRUCTURE