A genome‐scale yeast library with inducible expression of individual genes

Living materials with programmable functionalities grown from engineered microbial co-cultures

(2021) Charlie Gilbert et al.   NATURE MATERIALS

Vacuolar protein Tag1 and Atg1–Atg13 regulate autophagy termination during persistent starvation in S. cerevisiae

(2021) Shintaro Kira et al.   JOURNAL OF CELL SCIENCE

Autophagy of an Amyloid-like Translational Repressor Regulates Meiotic Exit

(2020) Fei Wang et al.   DEVELOPMENTAL CELL

Dual threshold optimization and network inference reveal convergent evidence from TF binding locations and TF perturbation responses

(2020) Yiming Kang et al.   GENOME RESEARCH

Systematic genetics and single‐cell imaging reveal widespread morphological pleiotropy and cell‐to‐cell variability

(2020) Mojca Mattiazzi Usaj et al.   Molecular Systems Biology

Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments

(2020) Christopher A Jackson et al.   eLife

The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis

(2020) Stephanie Smith et al.   MOLECULAR & CELLULAR PROTEOMICS

Learning causal networks using inducible transcription factors and transcriptome‐wide time series

(2020) Sean R Hackett et al.   Molecular Systems Biology

Harnessing β-estradiol inducible expression system to overproduce nervonic acid in Saccharomyces cerevisiae

(2020) Junfeng Liu et al.   PROCESS BIOCHEMISTRY

Model-driven generation of artificial yeast promoters

(2020) Benjamin J. Kotopka et al.   Nature Communications

Stress-activated MAPK signaling controls fission yeast actomyosin ring integrity by modulating formin For3 levels

(2020) Elisa Gómez-Gil et al.   eLife

Simultaneous quantification of mRNA and protein in single cells reveals post-transcriptional effects of genetic variation

(2020) Christian Brion et al.   eLife

An inducible CRISPR interference library for genetic interrogation of Saccharomyces cerevisiae biology

(2020) Amir Momen-Roknabadi et al.   Communications Biology

Auxin-Inducible Depletion of the Essentialome Suggests Inhibition of TORC1 by Auxins and Inhibition of Vrg4 by SDZ 90-215, a Natural Antifungal Cyclopeptide

(2019) Nathan A. Snyder et al.   G3-Genes Genomes Genetics

Engineering a Model Cell for Rational Tuning of GPCR Signaling

(2019) William M. Shaw et al.   CELL

Complex signal processing in synthetic gene circuits using cooperative regulatory assemblies

(2019) Caleb J. Bashor et al.   SCIENCE

Synthetic Bistability and Differentiation in Yeast

(2019) Yaoyu Yang et al.   ACS Synthetic Biology

A combination of transcription factors mediates inducible interchromosomal contacts

(2019) Seungsoo Kim et al.   eLife

Not just the wall: the other ways to turn the yeast CWI pathway on

(2019) Elena Jiménez-Gutiérrez et al.   INTERNATIONAL MICROBIOLOGY

Identification and dynamic quantification of regulatory elements using total RNA

(2019) Sascha H. Duttke et al.   GENOME RESEARCH

DNA variants affecting the expression of numerous genes in trans have diverse mechanisms of action and evolutionary histories

(2019) Sheila Lutz et al.   PLoS Genetics

Pooled CRISPR interference screening enables genome-scale functional genomics study in bacteria with superior performance

(2018) Tianmin Wang et al.   Nature Communications

Promoter Activity Buffering Reduces the Fitness Cost of Misregulation

(2018) Miquel Àngel Schikora-Tamarit et al.   Cell Reports

A High-Throughput Mutational Scan of an Intrinsically Disordered Acidic Transcriptional Activation Domain

(2018) Max V. Staller et al.   Cell Systems

HEx: A heterologous expression platform for the discovery of fungal natural products

(2018) Colin J. B. Harvey et al.   Science Advances

Set4 is a chromatin-associated protein, promotes survival during oxidative stress, and regulates stress response genes in yeast

(2018) Khoa Tran et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A new experimental platform facilitates assessment of the transcriptional and chromatin landscapes of aging yeast

(2018) David G Hendrickson et al.   eLife

Low escape-rate genome safeguards with minimal molecular perturbation ofSaccharomyces cerevisiae

(2017) Neta Agmon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-throughput characterization of protein–protein interactions by reprogramming yeast mating

(2017) David Younger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An estradiol-inducible promoter enables fast, graduated control of gene expression in fission yeast

(2017) Makoto J. Ohira et al.   YEAST

Digital logic circuits in yeast with CRISPR-dCas9 NOR gates

(2017) Miles W. Gander et al.   Nature Communications

Transcriptional Profiling of Biofilm Regulators Identified by an Overexpression Screen in Saccharomyces cerevisiae

(2017) Gareth A. Cromie et al.   G3-Genes Genomes Genetics

Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens

(2017) Traver Hart et al.   G3-Genes Genomes Genetics

The AAA protein Msp1 mediates clearance of excess tail-anchored proteins from the peroxisomal membrane

(2017) Nicholas R Weir et al.   eLife

Genome-wide functional analysis using the barcode sequence alignment and statistical analysis (Barcas) tool

(2016) Jihyeob Mun et al.   BMC BIOINFORMATICS

A synthetic gene circuit for measuring autoregulatory feedback control

(2016) Miquel Àngel Schikora-Tamarit et al.   Integrative Biology

Higher-order oligomerization of Spc110p drives γ-tubulin ring complex assembly

(2016) Andrew S. Lyon et al.   MOLECULAR BIOLOGY OF THE CELL

Synthetic biology and microbioreactor platforms for programmable production of biologics at the point-of-care

(2016) Pablo Perez-Pinera et al.   Nature Communications

Robust Synthetic Circuits for Two-Dimensional Control of Gene Expression in Yeast

(2016) Andrés Aranda-Díaz et al.   ACS Synthetic Biology

Improvement of the reverse tetracycline transactivator by single amino acid substitutions that reduce leaky target gene expression to undetectable levels

(2016) Ian J. Roney et al.   Scientific Reports

Quantitative nature of overexpression experiments

(2015) Hisao Moriya   MOLECULAR BIOLOGY OF THE CELL

Characterizing the in vivo role of trehalose inSaccharomyces cerevisiaeusing theAGT1transporter

(2015) Patrick A. Gibney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA polymerase errors cause splicing defects and can be regulated by differential expression of RNA polymerase subunits

(2015) Lucas B Carey   eLife

A dynamic interplay of nucleosome and Msn2 binding regulates kinetics of gene activation and repression following stress

(2014) Nils Elfving et al.   NUCLEIC ACIDS RESEARCH

Inducible, tightly regulated and growth condition-independent transcription factor in Saccharomyces cerevisiae

(2014) Diana S.M. Ottoz et al.   NUCLEIC ACIDS RESEARCH

Synthetic biology tools for programming gene expression without nutritional perturbations in Saccharomyces cerevisiae

(2014) R. Scott McIsaac et al.   NUCLEIC ACIDS RESEARCH

Structure of a new DNA-binding domain which regulates pathogenesis in a wide variety of fungi

(2014) M. B. Lohse et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

gitter: A Robust and Accurate Method for Quantification of Colony Sizes From Plate Images

(2014) Omar Wagih et al.   G3-Genes Genomes Genetics

Design and Analysis of Bar-seq Experiments

(2013) David G. Robinson et al.   G3-Genes Genomes Genetics

Characterization of plasmid burden and copy number inSaccharomyces cerevisiaefor optimization of metabolic engineering applications

(2012) Ashty S. Karim et al.   FEMS YEAST RESEARCH

Identification of dosage-sensitive genes in Saccharomyces cerevisiae using the genetic tug-of-war method

(2012) K. Makanae et al.   GENOME RESEARCH

Perturbation-based analysis and modeling of combinatorial regulation in the yeast sulfur assimilation pathway

(2012) R. Scott McIsaac et al.   MOLECULAR BIOLOGY OF THE CELL

Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast

(2012) R. Scott McIsaac et al.   NUCLEIC ACIDS RESEARCH

Whole lifespan microscopic observation of budding yeast aging through a microfluidic dissection platform

(2012) S. S. Lee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional Analysis With a Barcoder Yeast Gene Overexpression System

(2012) Alison C. Douglas et al.   G3-Genes Genomes Genetics

A Conserved Transcriptional Regulator Governs Fungal Morphology in Widely Diverged Species

(2011) Christopher W. Cain et al.   GENETICS

Yeast: An Experimental Organism for 21st Century Biology

(2011) David Botstein et al.   GENETICS

Fast-acting and nearly gratuitous induction of gene expression and protein depletion in Saccharomyces cerevisiae

(2011) R. Scott McIsaac et al.   MOLECULAR BIOLOGY OF THE CELL

The Specificity and Topology of Chromatin Interaction Pathways in Yeast

(2011) Tineke L. Lenstra et al.   MOLECULAR CELL

Systematic exploration of essential yeast gene function with temperature-sensitive mutants

(2011) Zhijian Li et al.   NATURE BIOTECHNOLOGY

Saccharomyces Genome Database: the genomics resource of budding yeast

(2011) J. M. Cherry et al.   NUCLEIC ACIDS RESEARCH

A Consensus of Core Protein Complex Compositions for Saccharomyces cerevisiae

(2010) Joris J. Benschop et al.   MOLECULAR CELL

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Quantitative analysis of fitness and genetic interactions in yeast on a genome scale

(2010) Anastasia Baryshnikova et al.   NATURE METHODS

Intrinsic Protein Disorder and Interaction Promiscuity Are Widely Associated with Dosage Sensitivity

(2009) Tanya Vavouri et al.   CELL

Quantitative phenotyping via deep barcode sequencing

(2009) A. M. Smith et al.   GENOME RESEARCH

Quantification of the yeast transcriptome by single-molecule sequencing

(2009) Doron Lipson et al.   NATURE BIOTECHNOLOGY

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

(2009) Cheuk Hei Ho et al.   NATURE BIOTECHNOLOGY

Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences

(2008) Arjun Raj et al.   CELL

A systematic library for comprehensive overexpression screens in Saccharomyces cerevisiae

(2008) Grace Marie Jones et al.   NATURE METHODS

A comprehensive strategy enabling high-resolution functional analysis of the yeast genome

(2008) David K Breslow et al.   NATURE METHODS

Coordination of Growth Rate, Cell Cycle, Stress Response, and Metabolic Activity in Yeast

(2007) Matthew J. Brauer et al.   MOLECULAR BIOLOGY OF THE CELL