Liu, Chang, Van Dyk, Dewald, Li, Yue, Andrews, Brenda, Rao, Hai
Abstract Background Ubiquitin regulates a myriad of important cellular processes through covalent attachment to its substrates. A classic role for ubiquitin is to flag proteins for destruction by the...
344 Review TRENDS in Cell Biology Vol.13 No.7 July 2003 (2008)
Gary D. Bader, Adrian Heilbut, Brenda Andrews, Mike Tyers, Timothy Hughes, Charles Boone
Functional genomics and proteomics: charting a multidimensional map of the yeast cell q
Hoke, Stephen MT, Guzzo, Julie, Andrews, Brenda, Brandl, Christopher J
Abstract Background Tra1 is an essential 437-kDa component of the Saccharomyces cerevisiae SAGA/SLIK and NuA4 histone acetyltransferase complexes. It is a member of a group of key signaling molecules...
808 RESEARCH ARTICLE Global Mapping of the Yeast Genetic Interaction Network (2008)
Amy Hin, Yan Tong, Guillaume Lesage, Gary D. Bader, Huiming Ding, Hong Xu, ...
A genetic interaction network containing �1000 genes and �4000 interactions was mapped by crossing mutations in 132 different query genes into a set of �4700 viable gene yeast deletion mutants...
2008 annual meeting Systems Biology: A Shared Goal with Diverse Views (2008)
In a well known Indian tale, blind men offer diverse descriptions of the same elephant (“…seizing on the swinging tail that fell within his scope, ‘I see, ’ quoth he, “the Elephant is very...
Reguly, Teresa, Breitkreutz, Ashton, Boucher, Lorrie, Breitkreutz, Bobby-Joe, Hon, Gary C, Myers, Chad L, ...
Abstract Background The study of complex biological networks and prediction of gene function has been enabled by high-throughput (HTP) methods for detection of genetic and protein interactions....
Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiaeinteraction network (2005)
Zhang, Lan V, King, Oliver D, Wong, Sharyl L, Goldberg, Debra S, Tong, Amy HY, Lesage, Guillaume, ...
Abstract Background Large-scale studies have revealed networks of various biological interaction types, such as protein-protein interaction, genetic interaction, transcriptional regulation, sequence...
Maya Schuldiner, Sean R. Collins, Natalie J. Thompson, Vladimir Denic, Arunashree Bhamidipati, Thanuja Punna, ...
We present a strategy for generating and analyzing comprehensive genetic-interaction maps, termed E-MAPs (epistatic miniarray profiles), comprising quantitative measures of aggravating or alleviating...
Zhang, Lan, King, Oliver, Wong, Sharyl, Goldberg, Debra, Tong, Amy, Lesage, Guillaume, ...
BACKGROUND:Large-scale studies have revealed networks of various biological interaction types, such as protein-protein interaction, genetic interaction, transcriptional regulation, sequence homology,...
Hy Tong, Guillaume Lesage, Brenda Andrews, Howard Bussey, Frederick P Roth
Research article Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network
Typescript.
Ho, Yuen, Mason, Stephen, Kobayashi, Ryuji, Hoekstra, Merl, Andrews, Brenda
In the budding yeast, Saccharomyces cerevisiae, DNA damage or ribonucleotide depletion causes the transcriptional induction of an array of genes with known or putative roles in DNA repair. The...
Mammalian Cdk5 is a functional homologue of the budding yeast Pho85 cyclin-dependent protein kinase
Huang, Dongqing, Patrick, Gentry, Moffat, Jason, Tsai, Li-Huei, Andrews, Brenda
Mammalian Cdk5 is a member of the cyclin-dependent kinase family that is activated by a neuron-specific regulator, p35, to regulate neuronal migration and neurite outgrowth. p35/Cdk5 kinase...
Archambault, Jacques, Chambers, Ross S., Kobor, Michael S., Ho, Yuen, Cartier, Mireille, Bolotin, Diana, ...
One of the essential components of a phosphatase that specifically dephosphorylates the Saccharomyces cerevisiae RNA polymerase II (RPII) large subunit C-terminal domain (CTD) is a novel polypeptide...
Regulation of Cell Cycle Transcription Factor Swi4 through Auto-Inhibition of DNA Binding
Baetz, Kristin, Andrews, Brenda
In Saccharomyces cerevisiae, two transcription factors, SBF (SCB binding factor) and MBF (MCB binding factor), promote the induction of gene expression at the G1/S-phase transition of the mitotic...
Baetz, Kristin, Moffat, Jason, Haynes, Jennifer, Chang, Michael, Andrews, Brenda
In Saccharomyces cerevisiae, the heterodimeric transcription factor SBF (for SCB binding factor) is composed of Swi4 and Swi6 and activates gene expression at the G1/S-phase transition of the mitotic...
Huang, Dongqing, Moffat, Jason, Wilson, Wayne A., Moore, Lynda, Cheng, Christine, Roach, Peter J., ...
In Saccharomyces cerevisiae, PHO85 encodes a cyclin-dependent protein kinase (Cdk) with multiple roles in cell cycle and metabolic controls. In association with the cyclin Pho80, Pho85 controls acid...
Huang, Dongqing, Moffat, Jason, Andrews, Brenda
Cyclin-dependent kinases (Cdks) are key regulators of the cell division cycle. Pho85 is a multifunctional Cdk in budding yeast involved in aspects of metabolism, the cell cycle, cell polarity, and...
Costanzo, Michael, Schub, Oliver, Andrews, Brenda
Stage-specific transcriptional programs are an integral feature of cell cycle regulation. In the budding yeast Saccharomyces cerevisiae, over 120 genes are coordinately induced in late G1 phase by...
Regulation of the Yeast Amphiphysin Homologue Rvs167p by Phosphorylation
Friesen, Helena, Murphy, Kelly, Breitkreutz, Ashton, Tyers, Mike, Andrews, Brenda
The yeast amphiphysin homologue Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. Rvs167p is a phosphoprotein in vegetatively growing cells and shows...
Measday, Vivien, Baetz, Kristin, Guzzo, Julie, Yuen, Karen, Kwok, Teresa, Sheikh, Bilal, ...
Accurate chromosome segregation requires the execution and coordination of many processes during mitosis, including DNA replication, sister chromatid cohesion, and attachment of chromosomes to...
Combining biological networks to predict genetic interactions
Wong, Sharyl L., Zhang, Lan V., Tong, Amy H. Y., Li, Zhijian, Goldberg, Debra S., King, Oliver D., ...
Genetic interactions define overlapping functions and compensatory pathways. In particular, synthetic sick or lethal (SSL) genetic interactions are important for understanding how an organism...
Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network
Zhang, Lan V, King, Oliver D, Wong, Sharyl L, Goldberg, Debra S, Tong, Amy HY, Lesage, Guillaume, ...
Friesen, Helena, Humphries, Christine, Ho, Yuen, Schub, Oliver, Colwill, Karen, Andrews, Brenda
We have used comprehensive synthetic lethal screens and biochemical assays to examine the biological role of the yeast amphiphysin homologues Rvs161p and Rvs167p, two proteins that play a role in...
Friesen, Helena, Colwill, Karen, Robertson, Karen, Schub, Oliver, Andrews, Brenda
We have used affinity chromatography to identify two proteins that bind to the SH3 domain of the actin cytoskeleton protein Rvs167p: Gyp5p and Gyl1p. Gyp5p has been shown to be a GTPase activating...
High-resolution genetic mapping with ordered arrays of Saccharomyces cerevisiae deletion mutants.
Jorgensen, Paul, Nelson, Bryce, Robinson, Mark D, Chen, Yiqun, Andrews, Brenda, Tyers, Mike, ...
We present a method for high-resolution genetic mapping that takes advantage of the ordered set of viable gene deletion mutants, which form a set of colinear markers covering almost every centimorgan...
Willis, Kristine A, Barbara, Kellie E, Menon, Balaraj B, Moffat, Jason, Andrews, Brenda, Santangelo, George M
Growth of Saccharomyces cerevisiae requires coordination of cell cycle events (e.g., new cell wall deposition) with constitutive functions like energy generation and duplication of protein mass. The...
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, ...
Ho, Yuen, Mason, Stephen, Kobayashi, Ryuji, Hoekstra, Merl, Andrews, Brenda
In the budding yeast, Saccharomyces cerevisiae, DNA damage or ribonucleotide depletion causes the transcriptional induction of an array of genes with known or putative roles in DNA repair. The...
Mammalian Cdk5 is a functional homologue of the budding yeast Pho85 cyclin-dependent protein kinase
Huang, Dongqing, Patrick, Gentry, Moffat, Jason, Tsai, Li-Huei, Andrews, Brenda
Mammalian Cdk5 is a member of the cyclin-dependent kinase family that is activated by a neuron-specific regulator, p35, to regulate neuronal migration and neurite outgrowth. p35/Cdk5 kinase...
Archambault, Jacques, Chambers, Ross S., Kobor, Michael S., Ho, Yuen, Cartier, Mireille, Bolotin, Diana, ...
One of the essential components of a phosphatase that specifically dephosphorylates the Saccharomyces cerevisiae RNA polymerase II (RPII) large subunit C-terminal domain (CTD) is a novel polypeptide...
Regulation of Cell Cycle Transcription Factor Swi4 through Auto-Inhibition of DNA Binding
Baetz, Kristin, Andrews, Brenda
In Saccharomyces cerevisiae, two transcription factors, SBF (SCB binding factor) and MBF (MCB binding factor), promote the induction of gene expression at the G1/S-phase transition of the mitotic...
Baetz, Kristin, Moffat, Jason, Haynes, Jennifer, Chang, Michael, Andrews, Brenda
In Saccharomyces cerevisiae, the heterodimeric transcription factor SBF (for SCB binding factor) is composed of Swi4 and Swi6 and activates gene expression at the G1/S-phase transition of the mitotic...
Huang, Dongqing, Moffat, Jason, Wilson, Wayne A., Moore, Lynda, Cheng, Christine, Roach, Peter J., ...
In Saccharomyces cerevisiae, PHO85 encodes a cyclin-dependent protein kinase (Cdk) with multiple roles in cell cycle and metabolic controls. In association with the cyclin Pho80, Pho85 controls acid...
Huang, Dongqing, Moffat, Jason, Andrews, Brenda
Cyclin-dependent kinases (Cdks) are key regulators of the cell division cycle. Pho85 is a multifunctional Cdk in budding yeast involved in aspects of metabolism, the cell cycle, cell polarity, and...
Costanzo, Michael, Schub, Oliver, Andrews, Brenda
Stage-specific transcriptional programs are an integral feature of cell cycle regulation. In the budding yeast Saccharomyces cerevisiae, over 120 genes are coordinately induced in late G1 phase by...
Regulation of the Yeast Amphiphysin Homologue Rvs167p by Phosphorylation
Friesen, Helena, Murphy, Kelly, Breitkreutz, Ashton, Tyers, Mike, Andrews, Brenda
The yeast amphiphysin homologue Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. Rvs167p is a phosphoprotein in vegetatively growing cells and shows...
Combining biological networks to predict genetic interactions
Wong, Sharyl L., Zhang, Lan V., Tong, Amy H. Y., Li, Zhijian, Goldberg, Debra S., King, Oliver D., ...
Genetic interactions define overlapping functions and compensatory pathways. In particular, synthetic sick or lethal (SSL) genetic interactions are important for understanding how an organism...
Menon, Balaraj B., Sarma, Nayan J., Pasula, Satish, Deminoff, Stephen J., Willis, Kristine A., Barbara, Kellie E., ...
The recruitment model for gene activation presumes that DNA is a platform on which the requisite components of the transcriptional machinery are assembled. In contrast to this idea, we show here that...
Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network
Zhang, Lan V, King, Oliver D, Wong, Sharyl L, Goldberg, Debra S, Tong, Amy HY, Lesage, Guillaume, ...
Measday, Vivien, Baetz, Kristin, Guzzo, Julie, Yuen, Karen, Kwok, Teresa, Sheikh, Bilal, ...
Accurate chromosome segregation requires the execution and coordination of many processes during mitosis, including DNA replication, sister chromatid cohesion, and attachment of chromosomes to...
Friesen, Helena, Humphries, Christine, Ho, Yuen, Schub, Oliver, Colwill, Karen, Andrews, Brenda
We have used comprehensive synthetic lethal screens and biochemical assays to examine the biological role of the yeast amphiphysin homologues Rvs161p and Rvs167p, two proteins that play a role in...
Friesen, Helena, Colwill, Karen, Robertson, Karen, Schub, Oliver, Andrews, Brenda
We have used affinity chromatography to identify two proteins that bind to the SH3 domain of the actin cytoskeleton protein Rvs167p: Gyp5p and Gyl1p. Gyp5p has been shown to be a GTPase activating...
High-resolution genetic mapping with ordered arrays of Saccharomyces cerevisiae deletion mutants.
Jorgensen, Paul, Nelson, Bryce, Robinson, Mark D, Chen, Yiqun, Andrews, Brenda, Tyers, Mike, ...
We present a method for high-resolution genetic mapping that takes advantage of the ordered set of viable gene deletion mutants, which form a set of colinear markers covering almost every centimorgan...
Willis, Kristine A, Barbara, Kellie E, Menon, Balaraj B, Moffat, Jason, Andrews, Brenda, Santangelo, George M
Growth of Saccharomyces cerevisiae requires coordination of cell cycle events (e.g., new cell wall deposition) with constitutive functions like energy generation and duplication of protein mass. The...
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, ...
Structure/Function Analysis of the Phosphatidylinositol-3-Kinase Domain of Yeast Tra1
Mutiu, A. Irina, Hoke, Stephen M. T., Genereaux, Julie, Hannam, Carol, MacKenzie, Katherine, Jobin-Robitaille, Olivier, ...
Tra1 is an essential component of the Saccharomyces cerevisiae SAGA and NuA4 complexes. Using targeted mutagenesis, we identified residues within its C-terminal phosphatidylinositol-3-kinase (PI3K)...
Zou, Jian, Friesen, Helena, Larson, Jennifer, Huang, Dongqing, Cox, Mike, Tatchell, Kelly, ...
In the budding yeast Saccharomyces cerevisiae, the G1-specific cyclin-dependent kinases (Cdks) Cln1,2-Cdc28 and Pcl1,2-Pho85 are essential for ensuring that DNA replication and cell division are...