The nature of mutations induced by replication–transcription collisions

The Effect of Local Sequence Context on Mutational Bias of Genes Encoded on the Leading and Lagging Strands

(2016) Jeremy W. Schroeder et al.   CURRENT BIOLOGY

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble

(2015) Yuhong Zuo et al.   MOLECULAR CELL

Lagging-strand replication shapes the mutational landscape of the genome

(2015) Martin A. M. Reijns et al.   NATURE

An underlying mechanism for the increased mutagenesis of lagging-strand genes inBacillus subtilis

(2015) Samuel Million-Weaver et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerated gene evolution through replication–transcription conflicts

(2013) Sandip Paul et al.   NATURE

Structural Basis of Transcription Initiation

(2012) Y. Zhang et al.   SCIENCE

Structural Basis for Promoter −10 Element Recognition by the Bacterial RNA Polymerase σ Subunit

(2011) Andrey Feklistov et al.   CELL

Linking RNA Polymerase Backtracking to Genome Instability in E. coli

(2011) Dipak Dutta et al.   CELL

Co-directional replication–transcription conflicts lead to replication restart

(2011) Houra Merrikh et al.   NATURE

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

Parallelization of the MAFFT multiple sequence alignment program

(2010) Kazutaka Katoh et al.   BIOINFORMATICS

The Transcription Factor DksA Prevents Conflicts between DNA Replication and Transcription Machinery

(2010) Ashley K. Tehranchi et al.   CELL

Role for topoisomerase 1 in transcription-associated mutagenesis in yeast

(2010) M. J. Lippert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

Co-Orientation of Replication and Transcription Preserves Genome Integrity

(2010) Anjana Srivatsan et al.   PLoS Genetics

Fluctuation AnaLysis CalculatOR: a web tool for the determination of mutation rate using Luria-Delbruck fluctuation analysis

(2009) B. M. Hall et al.   BIOINFORMATICS

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

Enzymatic assembly of DNA molecules up to several hundred kilobases

(2009) Daniel G Gibson et al.   NATURE METHODS

Mechanisms of change in gene copy number

(2009) P. J. Hastings et al.   NATURE REVIEWS GENETICS

The replisome uses mRNA as a primer after colliding with RNA polymerase

(2008) Richard T. Pomerantz et al.   NATURE