Functional profiling of the Saccharomyces cerevisiae genome

Cited by (182)

Items 101–182 of 182

1. A Phenotypic Profile of the Candida albicans Regulatory Network
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2. Yeast Genes That Enhance the Toxicity of a Mutant Huntingtin Fragment or α-Synuclein
   Willingham, Stephen, Outeiro, Tiago Fleming, DeVit, Michael J., Lindquist, Susan L., Muchowski, Paul J. · 2003 · Science
3. Models for navigating biological complexity in breeding improved crop plants
   Hammer, Graeme, Cooper, Mark, Tardieu, François, Welch, Stephen, Walsh, Bruce, van Eeuwijk, Fred, Chapman, Scott, Podlich, Dean · 2006 · Trends in Plant Science
4. The Ecology and Evolution of Pangenomes
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5. Recognition, signaling, and repair of DNA double-strand breaks produced by ionizing radiation in mammalian cells: the molecular choreography
   Thompson, Larry H. · 2012 · Mutation Research/Reviews in Mutation Research
6. Gene co-expression network topology provides a framework for molecular characterization of cellular state
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7. <i>APOE4</i> disrupts intracellular lipid homeostasis in human iPSC-derived glia
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8. Stress-activated Genomic Expression Changes Serve a Preparative Role for Impending Stress in Yeast
   Berry, David B., Gasch, Audrey P. · 2008 · Molecular Biology of the Cell
9. Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
   Reguly, Teresa, Breitkreutz, Ashton, Boucher, Lorrie, Breitkreutz, Bobby-Joe, Hon, Gary C, Myers, Chad L, Parsons, Ainslie, Friesen, Helena, Oughtred, Rose, Tong, Amy et al. · 2006 · Journal of Biology
10. Yeast Model Uncovers Dual Roles of Mitochondria in the Action of Artemisinin
    Li, Wei, Mo, Weike, Shen, Dan, Sun, Libo, Wang, Juan, Lu, Shan, Gitschier, Jane M, Zhou, Bing · 2005 · PLoS Genetics
11. Large-Scale Genetic Perturbations Reveal Regulatory Networks and an Abundance of Gene-Specific Repressors
    Kemmeren, Patrick, Sameith, Katrin, van de Pasch, Loes A.L., Benschop, Joris J., Lenstra, Tineke L., Margaritis, Thanasis, O’Duibhir, Eoghan, Apweiler, Eva, van Wageningen, Sake, Ko, Cheuk W. et al. · 2014 · Cell
12. Antifungal Drugs: The Current Armamentarium and Development of New Agents
    Robbins, Nicole, Wright, Gerard D., Cowen, Leah E. · 2016 · Microbiology Spectrum
13. Growth control of the eukaryote cell: a systems biology study in yeast
    Castrillo, Juan I, Zeef, Leo A, Hoyle, David C, Zhang, Nianshu, Hayes, Andrew, Gardner, David CJ, Cornell, Michael J, Petty, June, Hakes, Luke, Wardleworth, Leanne et al. · 2007 · Journal of Biology
14. Glycolytic Enzymes Coalesce in G Bodies under Hypoxic Stress
    Jin, Meiyan, Fuller, Gregory G., Han, Ting, Yao, Yao, Alessi, Amelia F., Freeberg, Mallory A., Roach, Nathan P., Moresco, James J., Karnovsky, Alla, Baba, Misuzu et al. · 2017 · Cell Reports
15. Genome-wide deletion mutant analysis reveals genes required for respiratory growth, mitochondrial genome maintenance and mitochondrial protein synthesis in Saccharomyces cerevisiae
    Merz, Sandra, Westermann, Benedikt · 2009 · Genome Biology
16. Mediator Expression Profiling Epistasis Reveals a Signal Transduction Pathway with Antagonistic Submodules and Highly Specific Downstream Targets
    van de Peppel, Jeroen, Kettelarij, Nienke, van Bakel, Harm, Kockelkorn, Thessa T.J.P., van Leenen, Dik, Holstege, Frank C.P. · 2005 · Molecular Cell
17. Comparative genomics of the environmental stress response in ascomycete fungi
    Gasch, Audrey P. · 2007 · Yeast
18. Gene regulatory network reconstruction using single-cell RNA sequencing of barcoded genotypes in diverse environments
    Jackson, Christopher A, Castro, Dayanne M, Saldi, Giuseppe-Antonio, Bonneau, Richard, Gresham, David · 2020 · eLife
19. Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes
    Dixon, Scott J., Fedyshyn, Yaroslav, Koh, Judice L. Y., Prasad, T. S. Keshava, Chahwan, Charly, Chua, Gordon, Toufighi, Kiana, Baryshnikova, Anastasija, Hayles, Jacqueline, Hoe, Kwang-Lae et al. · 2008 · Proceedings of the National Academy of Sciences
20. Genome-wide expression profiling of the response to polyene, pyrimidine, azole, and echinocandin antifungal agents in Saccharomyces cerevisiae.
    Agarwal, Ameeta K., Rogers, P.David, Baerson, Scott R., Jacob, Melissa R., Barker, Katherine S., Cleary, John D., Walker, Larry A., Nagle, Dale G., Clark, Alice M. · 2003 · Journal of Biological Chemistry
21. An Extensive Circuitry for Cell Wall Regulation in Candida albicans
    Blankenship, Jill R., Fanning, Saranna, Hamaker, Jessica J., Mitchell, Aaron P. · 2010 · PLoS Pathogens
22. Role of selection in fixation of gene duplications
    Kondrashov, Fyodor A., Kondrashov, Alexey S. · 2006 · Journal of Theoretical Biology
23. Systematic Phenotyping of a Large-Scale Candida glabrata Deletion Collection Reveals Novel Antifungal Tolerance Genes
    Schwarzmüller, Tobias, Ma, Biao, Hiller, Ekkehard, Istel, Fabian, Tscherner, Michael, Brunke, Sascha, Ames, Lauren, Firon, Arnaud, Green, Brian, Cabral, Vitor et al. · 2014 · PLoS Pathogens
24. Shadows of complexity: what biological networks reveal about epistasis and pleiotropy
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25. Protein Homeostasis and the Phenotypic Manifestation of Genetic Diversity: Principles and Mechanisms
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26. Influence of metabolic network structure and function on enzyme evolution
    Vitkup, Dennis, Kharchenko, Peter, Wagner, Andreas · 2006 · Genome biology
27. Combination chemical genetics
    Lehár, Joseph, Stockwell, Brent R, Giaever, Guri, Nislow, Corey · 2008 · Nature Chemical Biology
28. Design of 240,000 orthogonal 25mer DNA barcode probes
    Xu, Qikai, Schlabach, Michael R., Hannon, Gregory J., Elledge, Stephen J. · 2009 · Proceedings of the National Academy of Sciences
29. Analysis of β-1,3-Glucan Assembly in Saccharomyces cerevisiae Using a Synthetic Interaction Network and Altered Sensitivity to Caspofungin
    Lesage, Guillaume, Sdicu, Anne-Marie, Ménard, Patrice, Shapiro, Jesse, Hussein, Shamiza, Bussey, Howard · 2004 · Genetics
30. Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts
    Steenwyk, Jacob L., Opulente, Dana A., Kominek, Jacek, Shen, Xing-Xing, Zhou, Xiaofan, Labella, Abigail L., Bradley, Noah P., Eichman, Brandt F., Čadež, Neža, Libkind, Diego et al. · 2019 · PLoS Biology
31. Systematic Functional Annotation and Visualization of Biological Networks
    Baryshnikova, Anastasia · 2016 · Cell Systems
32. Systems-level antimicrobial drug and drug synergy discovery
    Roemer, Terry, Boone, Charles · 2013 · Nature Chemical Biology
33. A Genome-Wide Screen for Regulators of TORC1 in Response to Amino Acid Starvation Reveals a Conserved Npr2/3 Complex
    Neklesa, Taavi K., Davis, Ronald W. · 2009 · PLoS Genetics
34. Protein Expression Regulation under Oxidative Stress
    Vogel, Christine, Silva, Gustavo Monteiro, Marcotte, Edward M. · 2011 · Molecular &amp; Cellular Proteomics
35. Gene Essentiality Analyzed by <i>In Vivo</i> Transposon Mutagenesis and Machine Learning in a Stable Haploid Isolate of <i>Candida albicans</i>
    Segal, Ella Shtifman, Gritsenko, Vladimir, Levitan, Anton, Yadav, Bhawna, Dror, Naama, Steenwyk, Jacob L., Silberberg, Yael, Mielich, Kevin, Rokas, Antonis, Gow, Neil A. R. et al. · 2018 · mBio
36. Confronting the challenges of natural product-based antifungal discovery
    Roemer, Terry, Xu, Deming, Singh, Sheo B., Parish, Craig A., Harris, Guy, Wang, Hao, Davies, Julian E., Bills, Gerald F. · 2011 · Chemistry &amp; Biology
37. Infection-related gene expression in Candida albicans
    Brown, Alistair J.P., Odds, Frank C., Gow, Neil A.R. · 2007 · Current Opinion in Microbiology
38. Candida albicans gains azole resistance by altering sphingolipid composition
    Gao, Jiaxin, Wang, Haitao, Li, Zeyao, Wong, Ada Hang-Heng, Wang, Yi-Zheng, Guo, Yahui, Lin, Xin, Zeng, Guisheng, Liu, Haoping, Wang, Yue et al. · 2018 · Nature Communications
39. Importance of systems biology in engineering microbes for biofuel production
    Mukhopadhyay, Aindrila, Redding, Alyssa M, Rutherford, Becky J, Keasling, Jay D · 2008 · Current Opinion in Biotechnology
40. Lysine Deacetylases Hda1 and Rpd3 Regulate Hsp90 Function thereby Governing Fungal Drug Resistance
    Robbins, Nicole, Leach, Michelle D., Cowen, Leah E. · 2012 · Cell Reports
41. Systematic analysis of genome-wide fitness data in yeast reveals novel gene function and drug action
    Hillenmeyer, Maureen E, Ericson, Elke, Davis, Ronald W, Nislow, Corey, Koller, Daphne, Giaever, Guri · 2010 · Genome Biology
42. Inhibiting GPI Anchor Biosynthesis in Fungi Stresses the Endoplasmic Reticulum and Enhances Immunogenicity
    McLellan, Catherine A., Whitesell, Luke, King, Oliver D., Lancaster, Alex K., Mazitschek, Ralph, Lindquist, Susan · 2012 · ACS Chemical Biology
43. Peroxisomes are juxtaposed to strategic sites on mitochondria
    Cohen, Yifat, Klug, Yoel Alexander, Dimitrov, Lazar, Erez, Zohar, Chuartzman, Silvia G, Elinger, Dalia, Yofe, Ido, Soliman, Kareem, Gärtner, Jutta, Thoms, Sven et al. · 2014 · Molecular BioSystems
44. New tools for functional mammalian cancer genetics
    Brummelkamp, Thijn R., Bernards, René · 2003 · Nature Reviews Cancer
45. Two-Color Cell Array Screen Reveals Interdependent Roles for Histone Chaperones and a Chromatin Boundary Regulator in Histone Gene Repression
    Fillingham, Jeffrey, Kainth, Pinay, Lambert, Jean-Philippe, van Bakel, Harm, Tsui, Kyle, Peña-Castillo, Lourdes, Nislow, Corey, Figeys, Daniel, Hughes, Timothy R., Greenblatt, Jack et al. · 2009 · Molecular Cell
46. Environmental stresses disrupt telomere length homeostasis
    Romano, Gal Hagit, Harari, Yaniv, Yehuda, Tal, Podhorzer, Ariel, Rubinstein, Linda, Shamir, Ron, Gottlieb, Assaf, Silberberg, Yael, Pe'er, Dana, Ruppin, Eytan et al. · 2013 · PLoS Genetics
47. Fluconazole Modulates Membrane Rigidity, Heterogeneity, and Water Penetration into the Plasma Membrane in <i>Saccharomyces cerevisiae</i>
    Abe, Fumiyoshi, Usui, Keiko, Hiraki, Toshiki · 2009 · Biochemistry
48. Paralog buffering contributes to the variable essentiality of genes in cancer cell lines
    De Kegel, Barbara, Ryan, Colm J. · 2019 · PLOS Genetics
49. Off-Target Effects of Psychoactive Drugs Revealed by Genome-Wide Assays in Yeast
    Ericson, Elke, Gebbia, Marinella, Heisler, Lawrence E., Wildenhain, Jan, Tyers, Mike, Giaever, Guri, Nislow, Corey · 2008 · PLoS Genetics
50. Global Screening of Genes Essential for Growth in High-Pressure and Cold Environments: Searching for Basic Adaptive Strategies Using a Yeast Deletion Library
    Abe, Fumiyoshi, Minegishi, Hiroaki · 2008 · Genetics
51. Genome-wide analytical approaches for reverse metabolic engineering of industrially relevant phenotypes in yeast
    Oud, Bart, Maris, Antonius J. A., Daran, Jean-Marc, Pronk, Jack T. · 2012 · FEMS Yeast Research
52. Conserved regulators of nucleolar size revealed by global phenotypic analyses
    Neumüller, Ralph A., Gross, Thomas, Samsonova, Anastasia A., Vinayagam, Arunachalam, Buckner, Michael, Founk, Karen, Hu, Yanhui, Sharifpoor, Sara, Rosebrock, Adam P., Andrews, Brenda et al. · 2013 · Science Signaling
53. A Genomewide Screen for Petite-negative Yeast Strains Yields a New Subunit of the i-AAA Protease Complex
    Dunn, Cory D., Lee, Marina S., Spencer, Forrest A., Jensen, Robert E. · 2006 · Molecular Biology of the Cell
54. Genome scale models of yeast: towards standardized evaluation and consistent omic integration
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55. Combining functional genomics and chemical biology to identify targets of bioactive compounds
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56. A LAPF/phafin1-like protein regulates TORC1 and lysosomal membrane permeabilization in response to endoplasmic reticulum membrane stress
    Kim, Adam, Cunningham, Kyle W. · 2015 · Molecular Biology of the Cell
57. The Hog1 Mitogen-Activated Protein Kinase Mediates a Hypoxic Response in<i>Saccharomyces cerevisiae</i>
    Hickman, Mark J, Spatt, Dan, Winston, Fred · 2011 · Genetics
58. Suppression of a Defect in Mitochondrial Protein Import Identifies Cytosolic Proteins Required for Viability of Yeast Cells Lacking Mitochondrial DNA
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59. Emerging Species and Genome Editing Tools: Future Prospects in Cyanobacterial Synthetic Biology
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60. Beyond Homeostasis: A Predictive-Dynamic Framework for Understanding Cellular Behavior
    Freddolino, Lydia, Tavazoie, Saeed · 2012 · Annual Review of Cell and Developmental Biology
61. Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome
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62. Chemical Genomic Profiling of Biological Networks Using Graph Theory and Combinations of Small Molecule Perturbations
    Haggarty, Stephen J., Clemons, Paul A., Schreiber, Stuart L. · 2003 · Journal of the American Chemical Society
63. Vacuolar H+-ATPase (V-ATPase) Promotes Vacuolar Membrane Permeabilization and Nonapoptotic Death in Stressed Yeast
    Kim, Hyemin, Kim, Adam, Cunningham, Kyle W. · 2012 · Journal of Biological Chemistry
64. Synergy of the antibiotic colistin with echinocandin antifungals in Candida species
    Zeidler, U., Bougnoux, M.-E., Lupan, A., Helynck, O., Doyen, A., Garcia, Z., Sertour, N., Clavaud, C., Munier-Lehmann, H., Saveanu, C. et al. · 2013 · Journal of Antimicrobial Chemotherapy
65. Protein Secretion: Unconventional Exit by Exophagy
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66. An Updated Collection of Sequence Barcoded Temperature-Sensitive Alleles of Yeast Essential Genes
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67. A Mycobacterial Systems Resource for the Research Community
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68. Suppression of Mediator is regulated by Cdk8-dependent Grr1 turnover of the Med3 coactivator
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69. A common mechanism involving the TORC1 pathway can lead to amphotericin B-persistence in biofilm and planktonic Saccharomyces cerevisiae populations
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70. Metabolic control of antifungal drug resistance
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71. Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast
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72. Quantitative measurement of allele‐specific protein expression in a diploid yeast hybrid by LC‐MS
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73. <i>DMR1</i> (<i>CCM1/</i>YGR150C) of <i>Saccharomyces cerevisiae</i> Encodes an RNA-Binding Protein from the Pentatricopeptide Repeat Family Required for the Maintenance of the Mitochondrial 15S Ribosomal RNA
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74. Modularity and directionality in genetic interaction maps
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75. In search of the minimal Escherichia coli genome
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76. <i>Candida glabrata</i> : new tools and technologies—expanding the toolkit
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77. Functions of Essential Genes and a Scale-Free Protein Interaction Network Revealed by Structure-Based Function and Interaction Prediction for a Minimal Genome
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78. Punctuated Emergences of Genetic and Phenotypic Innovations in Eumetazoan, Bilaterian, Euteleostome, and Hominidae Ancestors
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79. Broad functional profiling of fission yeast proteins using phenomics and machine learning
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80. Parallel reverse genetic screening in mutant human cells using transcriptomics
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81. Mutations and Lethality in Simulated Prebiotic Networks
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82. Insights into Hsp90 mechanism and in vivo functions learned from studies in the yeast, Saccharomyces cerevisiae
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