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Author Details

Audrey P Gasch
University of Wisconsin-Madison
1994
89
37
Leah V Schaffer (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37410771PKA regulatory subunit Bcy1 couples growth, lipid metabolism, and fermentation during anaerobic xylose growth in Saccharomyces cerevisiae.PLoS Genet2023
37623557Advances in <i>S. cerevisiae</i> Engineering for Xylose Fermentation and Biofuel Production: Balancing Growth, Metabolism, and Defense.J Fungi (Basel)2023
37481264Gene-by-environment interactions influence the fitness cost of gene copy-number variation in yeast.G3 (Bethesda)2023
37503218Gene-by-environment interactions influence the fitness cost of gene copy-number variation in yeast.bioRxiv2023
37495306The IV International Symposium on Fungal Stress and the XIII International Fungal Biology Conference.Fungal Biol2023
35252178Breadth and Specificity in Pleiotropic Protein Kinase A Activity and Environmental Responses.Front Cell Dev Biol2022
35387233Comparative functional genomics identifies an iron-limited bottleneck in a <i>Saccharomyces cerevisiae</i> strain with a cytosolic-localized isobutanol pathway.Synth Syst Biotechnol2022
36350693Modeling single-cell phenotypes links yeast stress acclimation to transcriptional repression and pre-stress cellular states.Elife2022
35883225Comparative chemical genomic profiling across plant-based hydrolysate toxins reveals widespread antagonism in fitness contributions.FEMS Yeast Res2022
34338637Natural variation in the consequences of gene overexpression and its implications for evolutionary trajectories.Elife2021
33734361Genetic variation in aneuploidy prevalence and tolerance across Saccharomyces cerevisiae lineages.Genetics2021
33931500The role of stress-activated RNA-protein granules in surviving adversity.RNA2021
34592433Crabtree/Warburg-like aerobic xylose fermentation by engineered Saccharomyces cerevisiae.Metab Eng2021
32597660Phosphoproteome Response to Dithiothreitol Reveals Unique <i>Versus</i> Shared Features of <i>Saccharomyces cerevisiae</i> Stress Responses.J Proteome Res2020
32053004Context-Specific Nested Effects Models.J Comput Biol2020
32963084CRISpy-Pop: A Web Tool for Designing CRISPR/Cas9-Driven Genetic Modifications in Diverse Populations.G3 (Bethesda)2020
30598543Noncanonical CTD kinases regulate RNA polymerase II in a gene-class-specific manner.Nat Chem Biol2019
30856163Rewired cellular signaling coordinates sugar and hypoxic responses for anaerobic xylose fermentation in yeast.PLoS Genet2019
31112537PKA and HOG signaling contribute separable roles to anaerobic xylose fermentation in yeast engineered for biofuel production.PLoS One2019
29195273Proteoform Suite: Software for Constructing, Quantifying, and Visualizing Proteoform Families.J Proteome Res2018
30078561Decoupling Yeast Cell Division and Stress Defense Implicates mRNA Repression in Translational Reallocation during Stress.Curr Biol2018
30045857Natural Variation in the Multidrug Efflux Pump <i>SGE1</i> Underlies Ionic Liquid Tolerance in Yeast.Genetics2018
30680375Context-Specific Nested Effects Models.Res Comput Mol Biol2018
30487155Independent Mechanisms for Acquired Salt Tolerance versus Growth Resumption Induced by Mild Ethanol Pretreatment in <i>Saccharomyces cerevisiae</i>.mSphere2018
30301737Genotype-by-Environment-by-Environment Interactions in the <i>Saccharomyces cerevisiae</i> Transcriptomic Response to Alcohols and Anaerobiosis.G3 (Bethesda)2018
29644456Genetic background effects in quantitative genetics: gene-by-system interactions.Curr Genet2018
29474395Genome-wide association across Saccharomyces cerevisiae strains reveals substantial variation in underlying gene requirements for toxin tolerance.PLoS Genet2018
29738528Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response.PLoS Comput Biol2018
29122854The Substrates of Nonsense-Mediated mRNA Decay in <i>Caenorhabditis elegans</i>.G3 (Bethesda)2018
28654248Multiplexed Sequence-Specific Capture of Chromatin and Mass Spectrometric Discovery of Associated Proteins.Anal Chem2017
28320951Recurrent rewiring and emergence of RNA regulatory networks.Proc Natl Acad Sci U S A2017
28418000SCnorm: robust normalization of single-cell RNA-seq data.Nat Methods2017
28465432Different phosphoisoforms of RNA polymerase II engage the Rtt103 termination factor in a structurally analogous manner.Proc Natl Acad Sci U S A2017
29208722Reply to Hogan: Direct evidence of RNA-protein interactions and rewiring.Proc Natl Acad Sci U S A2017
29240790Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress.PLoS Biol2017
28637316Incorporating comparative genomics into the design-test-learn cycle of microbial strain engineering.FEMS Yeast Res2017
26949252Further support for aneuploidy tolerance in wild yeast and effects of dosage compensation on gene copy-number evolution.Elife2016
27741250Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae.PLoS Genet2016
27828955Correction: Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae.PLoS Genet2016
27451446Leveraging Genetic-Background Effects in Saccharomyces cerevisiae To Improve Lignocellulosic Hydrolysate Tolerance.Appl Environ Microbiol2016
27172212Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research.G3 (Bethesda)2016
27184763HyCCAPP as a tool to characterize promoter DNA-protein interactions in Saccharomyces cerevisiae.Genomics2016
26777596The Power of Natural Variation for Model Organism Biology.Trends Genet2016
27006204Correction: Dosage compensation can buffer copy-number variation in wild yeast.Elife2016
25953281Ecological and Genetic Barriers Differentiate Natural Populations of Saccharomyces cerevisiae.Mol Biol Evol2015
26518477A unique ecological niche fosters hybridization of oak-tree and vineyard isolates of Saccharomyces cerevisiae.Mol Ecol2015
25908568Meeting Report on Experimental Approaches to Evolution and Ecology Using Yeast and Other Model Systems.G3 (Bethesda)2015
25957506Exploiting the yeast stress-activated signaling network to inform on stress biology and disease signaling.Curr Genet2015
25955966Dosage compensation can buffer copy-number variation in wild yeast.Elife2015
24212571Harnessing genetic diversity in Saccharomyces cerevisiae for fermentation of xylose in hydrolysates of alkaline hydrogen peroxide-pretreated biomass.Appl Environ Microbiol2014
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Collaborators

Michael Place
Center for Genomic Science Innovation, University of Wisconsin-Madison
Co-authored papers 10
Robert Landick
University of Wisconsin-Madison
Co-authored papers 7
David Botstein
Calico Life Sciences LLC
Co-authored papers 6
Yaoping Zhang
DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison
Co-authored papers 6
Michael A Newton
University of Wisconsin School of Medicine and Public Health
Co-authored papers 4
Michael R Shortreed
University of Wisconsin-Madison
Co-authored papers 4
Mark Scalf
University of Wisconsin-Madison College of Letters and Sciences
Co-authored papers 4
Lloyd M Smith
University of Wisconsin-Madison College of Letters and Sciences
Co-authored papers 4
Michael B Eisen
Howard Hughes Medical Institute, University of California Berkeley
Co-authored papers 4
Christina Kendziorski
University of Wisconsin-Madison
Co-authored papers 3
Yunxiang Dai
University of Wisconsin-Madison
Co-authored papers 2
James A Thomson
Co-authored papers 2
Anthony J Cesnik
University of Wisconsin-Madison
Co-authored papers 2
Shweta Deshpande
Cleveland Clinic Akron General Medical Center
Co-authored papers 2
Ron Stewart
Co-authored papers 2
Brian L Frey
University of Wisconsin-Madison, 1101 University Ave
Co-authored papers 2
Rhonda Bacher
University of Florida
Co-authored papers 2
Dirk Eick
Helmholtz Center Munich and Center for Integrated Protein Science Munich (CIPSM)
Co-authored papers 2
Michael Olivier
Co-authored papers 2
Blake A Simmons
Joint BioEnergy Institute, USA Lawrence Berkeley National Laboratory
Co-authored papers 2
Asaf Salamov
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 1
Anna Lipzen
Co-authored papers 1
Anthony Gitter
University of Wisconsin
Co-authored papers 1
Lawrence E Heisler
Ontario Institute for Cancer Research
Co-authored papers 1
Joel Martin
Co-authored papers 1
Daphne Koller
Stanford University
Co-authored papers 1
Hyun Seok Kim
Seoul National University
Co-authored papers 1
Stephen J Elledge
Howard Hughes Medical Institute, Brigham and Women's Hospital, Harvard Medical School
Co-authored papers 1
Rachel A Knoener
University of Wisconsin-Madison College of Letters and Sciences
Co-authored papers 1
Steven W Singer
Co-authored papers 1
Release 1.2