Adaptive laboratory evolution in S. cerevisiae highlights role of transcription factors in fungal xenobiotic resistance

Assessing risks of Plasmodium falciparum resistance to select next-generation antimalarials

(2021) Maëlle Duffey et al.   TRENDS IN PARASITOLOGY

PfMFR3: A Multidrug-Resistant Modulator in Plasmodium falciparum

(2021) Frances Rocamora et al.   ACS Infectious Diseases

Pan-active imidazolopiperazine antimalarials target the Plasmodium falciparum intracellular secretory pathway

(2020) Gregory M. LaMonte et al.   Nature Communications

Perturbing proteomes at single residue resolution using base editing

(2020) Philippe C. Després et al.   Nature Communications

Genome editing systems across yeast species

(2020) Zhiliang Yang et al.   CURRENT OPINION IN BIOTECHNOLOGY

Prioritization of cancer therapeutic targets using CRISPR–Cas9 screens

(2019) Fiona M. Behan et al.   NATURE

Gypsum-DL: an open-source program for preparing small-molecule libraries for structure-based virtual screening

(2019) Patrick J. Ropp et al.   Journal of Cheminformatics

Genome architecture and stability in the Saccharomyces cerevisiae knockout collection

(2019) Fabio Puddu et al.   NATURE

Preventive Chemotherapy in the Fight against Soil-Transmitted Helminthiasis: Achievements and Limitations

(2018) Jessica D. Schulz et al.   TRENDS IN PARASITOLOGY

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

BlendMol: advanced macromolecular visualization in Blender

(2018) Jacob D Durrant   BIOINFORMATICS

Development of a Potent Inhibitor of the Plasmodium Proteasome with Reduced Mammalian Toxicity

(2017) Gregory M. LaMonte et al.   JOURNAL OF MEDICINAL CHEMISTRY

The dynamics of molecular evolution over 60,000 generations

(2017) Benjamin H. Good et al.   NATURE

Laboratory confirmed miltefosine resistant cases of visceral leishmaniasis from India

(2017) Saumya Srivastava et al.   Parasites & Vectors

Genome-Wide Screen Reveals sec21 Mutants of Saccharomyces cerevisiae Are Methotrexate-Resistant

(2017) Lai H. Wong et al.   G3-Genes Genomes Genetics

Comparative functional genomic screens of three yeast deletion collections reveal unexpected effects of genotype in response to diverse stress

(2017) Erica Acton et al.   Open Biology

The Anti-helminthic Compound Mebendazole Has Multiple Antifungal Effects against Cryptococcus neoformans

(2017) Luna S. Joffe et al.   Frontiers in Microbiology

Rapid Chagas Disease Drug Target Discovery Using Directed Evolution in Drug-Sensitive Yeast

(2016) Sabine Ottilie et al.   ACS Chemical Biology

BioCircos.js: an interactive Circos JavaScript library for biological data visualization on web applications

(2016) Ya Cui et al.   BIOINFORMATICS

High-Throughput Assay and Discovery of Small Molecules that Interrupt Malaria Transmission

(2016) David M. Plouffe et al.   Cell Host & Microbe

High-Throughput Identification of Adaptive Mutations in Experimentally Evolved Yeast Populations

(2016) Celia Payen et al.   PLoS Genetics

Open Source Drug Discovery with the Malaria Box Compound Collection for Neglected Diseases and Beyond

(2016) Wesley C. Van Voorhis et al.   PLoS Pathogens

Transcriptional Control of Drug Resistance, Virulence and Immune System Evasion in Pathogenic Fungi: A Cross-Species Comparison

(2016) Pedro Pais et al.   Frontiers in Cellular and Infection Microbiology

High-Throughput Luciferase-Based Assay for the Discovery of Therapeutics That Prevent Malaria

(2016) Justine Swann et al.   ACS Infectious Diseases

Comparative chemical genomics reveal that the spiroindolone antimalarial KAE609 (Cipargamin) is a P-type ATPase inhibitor

(2016) Gregory M. Goldgof et al.   Scientific Reports

Analysis of the Resistance Mechanism of a Benzoxaborole Inhibitor Reveals Insight into the Leucyl-tRNA Synthetase Editing Mechanism

(2015) Hanchao Zhao et al.   ACS Chemical Biology

Omics Pipe: a community-based framework for reproducible multi-omics data analysis

(2015) Kathleen M. Fisch et al.   BIOINFORMATICS

Fast, accurate, and reliable molecular docking with QuickVina 2

(2015) Amr Alhossary et al.   BIOINFORMATICS

The I-TASSER Suite: protein structure and function prediction

(2015) Jianyi Yang et al.   NATURE METHODS

Divergence in a master variator generates distinct phenotypes and transcriptional responses

(2014) J. E. G. Gallagher et al.   GENES & DEVELOPMENT

The Yeast Deletion Collection: A Decade of Functional Genomics

(2014) Guri Giaever et al.   GENETICS

Confirmation of the cellular targets of benomyl and rapamycin using next-generation sequencing of resistant mutants in S. cerevisiae

(2014) Dustin A. Wride et al.   Molecular BioSystems

Molecular mechanisms of antibiotic resistance

(2014) Jessica M. A. Blair et al.   NATURE REVIEWS MICROBIOLOGY

Precise estimates of mutation rate and spectrum in yeast

(2014) Y. O. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mapping the Cellular Response to Small Molecules Using Chemogenomic Fitness Signatures

(2014) A. Y. Lee et al.   SCIENCE

Salicylic acid resistance is conferred by a novel YRR1 mutation in Saccharomyces cerevisiae

(2013) Naohiko Kodo et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Nosocomial bloodstream infections due to Candida spp. in the USA: species distribution, clinical features and antifungal susceptibilities

(2013) Hilmar Wisplinghoff et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Large FK506-Binding Proteins Shape the Pharmacology of Rapamycin

(2013) A. M. Marz et al.   MOLECULAR AND CELLULAR BIOLOGY

Targeting Plasmodium PI(4)K to eliminate malaria

(2013) Case W. McNamara et al.   NATURE

Dynamic Large-Scale Chromosomal Rearrangements Fuel Rapid Adaptation in Yeast Populations

(2013) Shang-Lin Chang et al.   PLoS Genetics

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

The Fidelity of Transcription

(2012) Jeffrey Strathern et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Evolutionary insight from whole-genome sequencing of experimentally evolved microbes

(2012) JEREMY R. DETTMAN et al.   MOLECULAR ECOLOGY

Chromosomal duplication is a transient evolutionary solution to stress

(2012) A. H. Yona et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Post-Transcriptional Regulation of the Sef1 Transcription Factor Controls the Virulence of Candida albicans in Its Mammalian Host

(2012) Changbin Chen et al.   PLoS Pathogens

The Green Monster Process for the Generation of Yeast Strains Carrying Multiple Gene Deletions

(2012) Yo Suzuki et al.   Jove-Journal of Visualized Experiments

Characterization of benzoxaborole-based antifungal resistance mutations demonstrates that editing depends on electrostatic stabilization of the leucyl-tRNA synthetase editing cap

(2011) Jaya Sarkar et al.   FEBS LETTERS

New Topoisomerase I mutations are associated with resistance to camptothecin

(2011) Céline Gongora et al.   Molecular Cancer

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Evolutionary paths to antibiotic resistance under dynamically sustained drug selection

(2011) Erdal Toprak et al.   NATURE GENETICS

Antitumor alkyl-lysophospholipid analog edelfosine induces apoptosis in pancreatic cancer by targeting endoplasmic reticulum

(2011) C Gajate et al.   ONCOGENE

Whole-genome sequencing of a laboratory-evolved yeast strain

(2010) Carlos L Araya et al.   BMC GENOMICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

DNA Topoisomerase I Inhibitors: Chemistry, Biology, and Interfacial Inhibition

(2009) Yves Pommier   CHEMICAL REVIEWS

Genome evolution and adaptation in a long-term experiment with Escherichia coli

(2009) Jeffrey E. Barrick et al.   NATURE

A molecular barcoded yeast ORF library enables mode-of-action analysis of bioactive compounds

(2009) Cheuk Hei Ho et al.   NATURE BIOTECHNOLOGY

Gain of Function Mutations in CgPDR1 of Candida glabrata Not Only Mediate Antifungal Resistance but Also Enhance Virulence

(2009) Sélène Ferrari et al.   PLoS Pathogens

Clinically relevant mutations that cause derepression of theNeisseria gonorrhoeaeMtrC-MtrD-MtrE Efflux pump system confer different levels of antimicrobial resistance andin vivofitness

(2008) Douglas M. Warner et al.   MOLECULAR MICROBIOLOGY

Analyzing real-time PCR data by the comparative CT method

(2008) Thomas D Schmittgen et al.   Nature Protocols

The Chemical Genomic Portrait of Yeast: Uncovering a Phenotype for All Genes

(2008) M. E. Hillenmeyer et al.   SCIENCE

Yeast adaptation to mancozeb involves the up-regulation of FLR1 under the coordinate control of Yap1, Rpn4, Pdr3, and Yrr1

(2007) Miguel Cacho Teixeira et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS