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

No abstract is available for this paper.

• Publication year

  2010

• Venue

  Nature Methods

• Publication date

  2010-12-01

• Fields of study

  Biology, Medicine, Computer Science

• Identifiers
  DOI 10.1038/nmeth.1534PMID 21076421PMCID PMC3117325
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• The Genetic Landscape of a Cell

  2010cited by this paper
• Synthetic genetic array (SGA) analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe.

  2010cited by this paper
• Tackling the widespread and critical impact of batch effects in high-throughput data

  2010cited by this paper
• Systematic mapping of genetic interaction networks.

  2009cited by this paper
• Systems-level approaches for identifying and analyzing genetic interaction networks in Escherichia coli and extensions to other prokaryotes.

  2009cited by this paper
• A PP2A Phosphatase High Density Interaction Network Identifies a Novel Striatin-interacting Phosphatase and Kinase Complex Linked to the Cerebral Cavernous Malformation 3 (CCM3) Protein*S

  2009cited by this paper
• Prevalent positive epistasis in E. coli and S. cerevisiae metabolic networks

  2009cited by this paper
• Coordination of growth rate, cell cycle, stress response, and metabolic activity in yeast.

  2008cited by this paper
• An in Vivo Map of the Yeast Protein Interactome

  2008cited by this paper
• Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast

  2008cited by this paper
• A VAST staging area for regulatory proteins

  2008cited by this paper
• Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes

  2008cited by this paper
• Functional Maps of Protein Complexes from Quantitative Genetic Interaction Data

  2008cited by this paper
• A comprehensive strategy enabling high-resolution functional analysis of the yeast genome

  2008cited by this paper
• High-Quality Binary Protein Interaction Map of the Yeast Interactome Network

  2008cited by this paper
• Epistatic buffering of fitness loss in yeast double deletion strains

  2007cited by this paper
• The BioGRID Interaction Database: 2008 update

  2007cited by this paper
• Systematic pathway analysis using high-resolution fitness profiling of combinatorial gene deletions

  2007cited by this paper
• Global landscape of protein complexes in the yeast Saccharomyces cerevisiae

  2006cited by this paper
• Finding function: evaluation methods for functional genomic data

  2006cited by this paper
• Proteome survey reveals modularity of the yeast cell machinery

  2006cited by this paper
• A strategy for extracting and analyzing large-scale quantitative epistatic interaction data

  2006cited by this paper
• Retrograde transport on the COG railway.

  2006cited by this paper
• Modular epistasis in yeast metabolism

  2005cited by this paper
• Relationship of DFG16 to the Rim101p pH Response Pathway in Saccharomyces cerevisiae and Candida albicans

  2005cited by this paper
• Constitutive Activation of the pH-Responsive Rim101 Pathway in Yeast Mutants Defective in Late Steps of the MVB/ESCRT Pathway

  2005cited by this paper
• Derivation of genetic interaction networks from quantitative phenotype data

  2005cited by this paper
• Components of the ESCRT Pathway, DFG16, and YGR122w Are Required for Rim101 To Act as a Corepressor with Nrg1 at the Negative Regulatory Element of the DIT1 Gene of Saccharomyces cerevisiae

  2005cited by this paper
• Mechanisms of Haploinsufficiency Revealed by Genome-Wide Profiling in Yeast

  2005cited by this paper
• BioGRID: a general repository for interaction datasets

  2005cited by this paper
• Epistasis analysis with global transcriptional phenotypes

  2005cited by this paper
• Characterization of the yeast amphiphysins Rvs161p and Rvs167p reveals roles for the Rvs heterodimer in vivo.

  2005cited by this paper
• Global Mapping of the Yeast Genetic Interaction Network

  2004cited by this paper
• Systematic quantification of gene interactions by phenotypic array analysis

  2004cited by this paper
• Far3 and Five Interacting Proteins Prevent Premature Recovery from Pheromone Arrest in the Budding Yeast Saccharomyces cerevisiae

  2003cited by this paper
• High-resolution yeast phenomics resolves different physiological features in the saline response

  2003cited by this paper
• Elg1 forms an alternative RFC complex important for DNA replication and genome integrity

  2003cited by this paper
• Functional discovery via a compendium of expression profiles.

  2000cited by this paper
• The gene PPG encodes a novel yeast protein phosphatase involved in glycogen accumulation.

  1993cited by this paper
• Ordering gene function: the interpretation of epistasis in regulatory hierarchies.

  1992cited by this paper

• Quantitative analysis of genetic interactions in human cells from genome-wide CRISPR-Cas9 screens

  2026cites this paper
• Collective Noise Filtering in Complex Networks

  2026cites this paper
• Chemical genomics screening reveals novel functions for unannotated genes in Vibrio cholerae C6706

  2026cites this paper
• Resolving discrepancies between chimeric and multiplicative measures of higher-order epistasis

  2025cites this paper
• Worm Perturb-Seq: massively parallel whole-animal RNAi and RNA-seq

  2025cites this paper
• AlphaDesign: a de novo protein design framework based on AlphaFold

  2025cites this paper
• Metabolic remodeling and de novo mutations transcend cryptic variation as drivers of adaptation in yeast.

  2025cites this paper
• The Product neutrality function defining genetic interactions emerges from mechanistic models of cell growth

  2025cites this paper
• Exposing the core genetic drivers of chronological aging in yeast cells

  2025cites this paper
• Meta-Research: Positive genetic interactions have greater scientific impact but are under-represented in the literature

  2025cites this paper
• LLP1 is a pyrophosphatase involved in homeostasis/quality control of dolichol-linked oligosaccharide.

  2025cites this paper
• The relationship between interfacial overlap and functional divergence in the yeast protein-protein interaction network.

  2025cites this paper
• Worm Perturb-Seq: massively parallel whole-animal RNAi and RNA-seq

  2025cites this paper
• A global genetic interaction map of a human cell reveals conserved principles of genetic networks

  2025cites this paper
• A mathematical framework for the quantitative analysis of genetic buffering

  2025cites this paper
• Global genetic rewiring during compensatory evolution in the yeast polarity network

  2024cites this paper
• Robustness quantification of a mutant library screen revealed key genetic markers in yeast

  2024cites this paper
• Quantifying higher-order epistasis: beware the chimera

  2024influential citation
• Genome-wide conditional degron libraries for functional genomics

  2024cites this paper
• Simplicity within biological complexity

  2024cites this paper
• K29-linked free polyubiquitin chains affect ribosome biogenesis and direct ribosomal proteins to the intranuclear quality control compartment.

  2024cites this paper
• ‘Small volume—big problem’: culturing Yarrowia lipolytica in high-throughput micro-formats

  2024cites this paper
• The distribution of beneficial mutational effects between two sister yeast species poorly explains natural outcomes of vineyard adaptation

  2024cites this paper
• Synonymous codon usage defines functional gene families

  2024cites this paper
• Exaptation and de novo mutations transcend cryptic variations as drivers of adaptation in yeast

  2024cites this paper
• Systematic data analysis pipeline for quantitative morphological cell phenotyping

  2024cites this paper
• Synthetic lethality and the minimal genome size problem

  2024cites this paper
• Genome-wide host-pathway interactions affecting cis-cis-muconic acid production in yeast.

  2024cites this paper
• CRISPR Double Knockout Library Reveals Synthetic Lethal Gene Pairs in Triple-Negative Breast Cancer

  2024cites this paper
• The distribution of beneficial mutational effects between two sister yeast species poorly explains natural outcomes of vineyard adaptation

  2024cites this paper
• Proteome-scale movements and compartment connectivity during the eukaryotic cell cycle.

  2024cites this paper
• The Role of the Swollen State in Cell Proliferation

  2024cites this paper
• Quantifying massively parallel microbial growth with spatially mediated interactions

  2023influential citation
• A Normalization Protocol Reduces Edge Effect in High-Throughput Analyses of Hydroxyurea Hypersensitivity in Fission Yeast

  2023cites this paper
• Saturated Transposon Analysis in Yeast as a one-step method to quantify the fitness effects of gene disruptions on a genome-wide scale

  2023cites this paper
• Microbial cell factory optimisation using genome-wide host-pathway interaction screens

  2023cites this paper
• Dimensionality reduction methods for extracting functional networks from large‐scale CRISPR screens

  2023cites this paper
• Multimodal perturbation analyses of cyclin-dependent kinases reveal a network of synthetic lethalities associated with cell-cycle regulation and transcriptional regulation

  2023cites this paper
• Misregulation of cell cycle-dependent methylation of budding yeast CENP-A contributes to chromosomal instability

  2023cites this paper
• ChemGAPP; A Package for Chemical Genomics Analysis and Phenotypic Profiling

  2023cites this paper
• Dimensionality reduction methods for extracting functional networks from large-scale CRISPR screens

  2023cites this paper
• CRI-SPA: a high-throughput method for systematic genetic editing of yeast libraries

  2023cites this paper
• Theory for High-Throughput Genetic Interaction Screening

  2023cites this paper
• Context-defined cancer co-dependency mapping identifies a functional interplay between PRC2 and MLL-MEN1 complex in lymphoma

  2023cites this paper
• K29-linked unanchored polyubiquitin chains disrupt ribosome biogenesis and direct ribosomal proteins to the Intranuclear Quality control compartment (INQ)

  2023cites this paper
• ChemGAPP: a tool for chemical genomics analysis and phenotypic profiling

  2023cites this paper
• CTP sensing and Mec1ATR-Rad53CHK1/CHK2 mediate a two-layered response to inhibition of glutamine metabolism

  2022cites this paper
• High-throughput Growth Measurements of Yeast Exposed to Visible Light.

  2022cites this paper
• Gradients in gene essentiality reshape antibacterial research.

  2022cites this paper
• High-Throughput Analysis of Protein Turnover with Tandem Fluorescent Protein Timers.

  2022cites this paper
• Phenomics approaches to understand genetic networks and gene function in yeast

  2022cites this paper
• Genome-wide analysis of the non-coding RNA synthetic genetic network reveals extensive plasticity and unique phenotypes in yeast

  2022cites this paper
• Micro-Bioreactors in Space: Case Study of a Yeast (Saccharomyces cerevisiae) Bioreactor With a Non-Invasive Monitoring Method

  2022cites this paper
• A positive statistical benchmark to assess network agreement

  2022cites this paper
• A synthetic genetic array screen for interactions with the RNA helicase DED1 during cell stress in budding yeast

  2022cites this paper
• Resolving Deleterious and Near-Neutral Effects Requires Different Pooled Fitness Assay Designs

  2022cites this paper
• Using colony size to measure fitness in Saccharomyces cerevisiae

  2022cites this paper
• Synthetic lethal gene pairs: Experimental approaches and predictive models

  2022influential citation
• Using Synthetic Genetic Interactions in Candida glabrata as a Novel Method to Detect Genes with Roles in Antifungal Drug Resistance.

  2022cites this paper
• A Theory for High-Throughput Genetic Interaction Screening

  2022cites this paper
• PEER: A Comprehensive and Multi-Task Benchmark for Protein Sequence Understanding

  2022cites this paper
• From Petri Plates to Petri Nets, a revolution in yeast biology

  2022cites this paper
• Lithium chloride sensitivity connects the activity of PEX11 and RIM20 to the translation of PGM2 and other mRNAs with structured 5’-UTRs

  2022cites this paper
• Lithium Chloride Sensitivity Connects the Activity of PEX11 and RIM20 to PGM2 translation

  2022cites this paper
• Repression of essential cell cycle genes increases cellular fitness

  2022cites this paper
• High participation ratio genes in the interaction network structure

  2021cites this paper
• VID22 counteracts G-quadruplex-induced genome instability

  2021cites this paper
• Tubulin isotypes optimize distinct spindle positioning mechanisms during yeast mitosis

  2021cites this paper
• A rapidly reversible mutation generates subclonal genetic diversity and unstable drug resistance

  2021cites this paper
• Analyzing the heterogeneous structure of the genes interaction network through the random matrix theory

  2021cites this paper
• Endosomal trafficking and DNA damage checkpoint kinases dictate survival to replication stress by regulating amino acid uptake and protein synthesis.

  2021cites this paper
• Complex Mutation Profiles in Mismatch Repair and Ribonucleotide Reductase Mutants Reveal Novel Repair Substrate Specificity of MutS Homolog (MSH) Complexes

  2021cites this paper
• Timer-based proteomic profiling of the ubiquitin-proteasome system reveals a substrate receptor of the GID ubiquitin ligase

  2021cites this paper
• ScreenGarden: a shinyR application for fast and easy analysis of plate-based high-throughput screens

  2021cites this paper
• Overcoming stochastic variations in culture variables to quantify and compare growth curve data

  2021cites this paper
• Characterization of Cold-Tolerant Saccharomyces cerevisiae Cheongdo Using Phenotype Microarray

  2021cites this paper
• Quantitative Genetic Screens for Mapping Bacterial Pathways and Functional Networks.

  2021cites this paper
• Environmental robustness of the global yeast genetic interaction network

  2021influential citation
• Quantifying Variation in Bacterial Reproductive Fitness: a High-Throughput Method

  2021cites this paper
• Re-defining synthetic lethality by phenotypic profiling for precision oncology.

  2021cites this paper
• τ-SGA: synthetic genetic array analysis for systematically screening and quantifying trigenic interactions in yeast

  2021cites this paper
• 1,135 ionomes reveals the global pattern of leaf and seed mineral nutrient and trace element diversity in Arabidopsis thaliana.

  2021influential citation
• Exploring a Local Genetic Interaction Network Using Evolutionary Replay Experiments

  2021cites this paper
• Trigenic Synthetic Genetic Array (τ-SGA) Technique for Complex Interaction Analysis.

  2021cites this paper
• The chaperone-binding activity of the mitochondrial surface receptor Tom70 protects the cytosol against mitoprotein-induced stress.

  2021cites this paper
• The structure balance of gene-gene networks beyond pairwise interactions

  2021cites this paper
• Protein kinase A controls yeast growth in visible light

  2020cites this paper
• eys+/-; lrp5+/− Zebrafish Reveals Lrp5 Can Be the Receptor of Retinol in the Visual Cycle

  2020cites this paper
• Comprehensive Synthetic Genetic Array Analysis of Alleles That Interact with Mutation of the Saccharomyces cerevisiae RecQ Helicases Hrq1 and Sgs1

  2020cites this paper
• Full species-wide leaf and seed ionomic diversity of Arabidopsis thaliana

  2020influential citation
• Systematic analysis of bypass suppression of essential genes

  2020cites this paper
• Functional assessment of the “two-hit” model for neurodevelopmental defects in Drosophila and X. laevis

  2020cites this paper
• The mitochondrial surface receptor Tom70 protects the cytosol against mitoprotein-induced stress

  2020cites this paper
• Diverse natural variants suppress mutations in hundreds of essential genes

  2020cites this paper
• Lithium Chloride Sensitivity in Yeast and Regulation of Translation

  2020cites this paper
• CRISPRi/a reveal signalling pathways controlling heat adaptation

  2020cites this paper
• Gene dosage screens in yeast reveal core signalling pathways controlling heat adaptation

  2020cites this paper
• A Bayesian non-parametric mixed-effects model of microbial growth curves

  2020cites this paper
• Genome-Wide Dynamic Evaluation of the UV-Induced DNA Damage Response

  2020cites this paper
• SCRaMbLEing of a synthetic yeast chromosome with clustered essential genes reveals synthetic lethal interactions.

  2020cites this paper