Genome instability footprint under rapamycin and hydroxyurea treatments

MutationalPatterns: the one stop shop for the analysis of mutational processes

(2022) Freek Manders et al.   BMC GENOMICS

Mutagenic mechanisms of cancer-associated DNA polymerase ϵ alleles

(2021) Mareike Herzog et al.   NUCLEIC ACIDS RESEARCH

A modified fluctuation assay reveals a natural mutator phenotype that drives mutation spectrum variation within Saccharomyces cerevisiae

(2021) Pengyao Jiang et al.   eLife

MUM&Co: Accurate detection of all SV types through whole genome alignment

(2020) Samuel O’Donnell et al.   BIOINFORMATICS

The repertoire of mutational signatures in human cancer

(2020) Ludmil B. Alexandrov et al.   NATURE

Discordant evolution of mitochondrial and nuclear yeast genomes at population level

(2020) Matteo De Chiara et al.   BMC BIOLOGY

Mutational signatures are jointly shaped by DNA damage and repair

(2020) Nadezda V. Volkova et al.   Nature Communications

Punctuated Aneuploidization of the Budding Yeast Genome

(2020) Lydia R. Heasley et al.   GENETICS

Ethanol exposure increases mutation rate through error-prone polymerases

(2020) Karin Voordeckers et al.   Nature Communications

Trajectory and uniqueness of mutational signatures in yeast mutators

(2020) Sophie Loeillet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Liftoff: accurate mapping of gene annotations

(2020) Alaina Shumate et al.   BIOINFORMATICS

Shared molecular targets confer resistance over short and long evolutionary timescales

(2019) Jing Li et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Compendium of Mutational Signatures of Environmental Agents

(2019) Jill E. Kucab et al.   CELL

Yeast Spontaneous Mutation Rate and Spectrum Vary with Environment

(2019) Haoxuan Liu et al.   CURRENT BIOLOGY

Genome-wide mapping and profiling of γH2AX binding hotspots in response to different replication stress inducers

(2019) Xinxing Lyu et al.   BMC GENOMICS

Fitness benefits of loss of heterozygosity in Saccharomyces hybrids

(2019) Samuel M. Lancaster et al.   GENOME RESEARCH

Accurate Tracking of the Mutational Landscape of Diploid Hybrid Genomes

(2019) Lorenzo Tattini et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome architecture and stability in the Saccharomyces cerevisiae knockout collection

(2019) Fabio Puddu et al.   NATURE

The mutational footprints of cancer therapies

(2019) Oriol Pich et al.   NATURE GENETICS

Long-read sequencing data analysis for yeasts

(2018) Jia-Xing Yue et al.   Nature Protocols

The genome-wide rate and spectrum of spontaneous mutations differ between haploid and diploid yeast

(2018) Nathaniel P. Sharp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

The Genetic Basis of Mutation Rate Variation in Yeast

(2018) Liangke Gou et al.   GENETICS

Genomic Copy-Number Loss Is Rescued by Self-Limiting Production of DNA Circles

(2018) Andrés Mansisidor et al.   MOLECULAR CELL

Loss of Heterozygosity Drives Adaptation in Hybrid Yeast

(2017) Caiti S. Smukowski Heil et al.   MOLECULAR BIOLOGY AND EVOLUTION

Contrasting evolutionary genome dynamics between domesticated and wild yeasts

(2017) Jia-Xing Yue et al.   NATURE GENETICS

Ribonucleotides incorporated by the yeast mitochondrial DNA polymerase are not repaired

(2017) Paulina H. Wanrooij et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clonal Heterogeneity Influences the Fate of New Adaptive Mutations

(2017) Ignacio Vázquez-García et al.   Cell Reports

Mechanisms and Consequences of Cancer Genome Instability: Lessons from Genome Sequencing Studies

(2016) June-Koo Lee et al.   Annual Review of Pathology-Mechanisms of Disease

regioneR: an R/Bioconductor package for the association analysis of genomic regions based on permutation tests

(2015) Bernat Gel et al.   BIOINFORMATICS

Quantitative evolutionary dynamics using high-resolution lineage tracking

(2015) Sasha F. Levy et al.   NATURE

Regulation of ribosomal DNA amplification by the TOR pathway

(2015) Carmen V. Jack et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Slow-growing cells within isogenic populations have increased RNA polymerase error rates and DNA damage

(2015) David van Dijk et al.   Nature Communications

bz-rates : A Web Tool to Estimate Mutation Rates from Fluctuation Analysis

(2015) Alexandre Gillet-Markowska et al.   G3-Genes Genomes Genetics

Mechanisms and Regulation of Mitotic Recombination in Saccharomyces cerevisiae

(2014) L. S. Symington et al.   GENETICS

Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition

(2014) Scott A. Lujan et al.   GENOME RESEARCH

Standing Genetic Variation Drives Repeatable Experimental Evolution in Outcrossing Populations of Saccharomyces cerevisiae

(2014) Molly K. Burke et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mutational landscape of yeast mutator strains

(2014) Alexandre Serero et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic Basis of Haloperidol Resistance in Saccharomyces cerevisiae Is Complex and Dose Dependent

(2014) Xin Wang et al.   PLoS Genetics

Regulation of FANCD2 by the mTOR Pathway Contributes to the Resistance of Cancer Cells to DNA Double-Strand Breaks

(2013) C. Shen et al.   CANCER RESEARCH

Identification of Early Replicating Fragile Sites that Contribute to Genome Instability

(2013) Jacqueline H. Barlow et al.   CELL

High-Resolution Mapping of Complex Traits with a Four-Parent Advanced Intercross Yeast Population

(2013) Francisco A. Cubillos et al.   GENETICS

Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations

(2013) Gregory I. Lang et al.   NATURE

Spontaneous slow replication fork progression elicits mitosis alterations in homologous recombination-deficient mammalian cells

(2013) T. Wilhelm et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Yeast Environmental Stress Response Regulates Mutagenesis Induced by Proteotoxic Stress

(2013) Erika Shor et al.   PLoS Genetics

Hsp90 stress potentiates rapid cellular adaptation through induction of aneuploidy

(2012) Guangbo Chen et al.   NATURE

A Hierarchical Combination of Factors Shapes the Genome-wide Topography of Yeast Meiotic Recombination Initiation

(2011) Jing Pan et al.   CELL

Target of Rapamycin (TOR) in Nutrient Signaling and Growth Control

(2011) Robbie Loewith et al.   GENETICS

Hydroxyurea-Stalled Replication Forks Become Progressively Inactivated and Require Two Different RAD51-Mediated Pathways for Restart and Repair

(2010) Eva Petermann et al.   MOLECULAR CELL

Rapamycin increases rDNA stability by enhancing association of Sir2 with rDNA in Saccharomyces cerevisiae

(2010) Cheol Woong Ha et al.   NUCLEIC ACIDS RESEARCH

Estimating the Per-Base-Pair Mutation Rate in the Yeast Saccharomyces cerevisiae

(2008) Gregory I. Lang et al.   GENETICS

High-resolution mapping of meiotic crossovers and non-crossovers in yeast

(2008) Eugenio Mancera et al.   NATURE

A genome-wide view of the spectrum of spontaneous mutations in yeast

(2008) M. Lynch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA