Search Results - "Dombek, Kenneth M."

Stitching together multiple data dimensions reveals interacting metabolomic and transcriptomic networks that modulate cell regulation by Zhu, Jun, Sova, Pavel, Xu, Qiuwei, Dombek, Kenneth M, Xu, Ethan Y, Vu, Heather, Tu, Zhidong, Brem, Rachel B, Bumgarner, Roger E, Schadt, Eric E

“…Cells employ multiple levels of regulation, including transcriptional and translational regulation, that drive core biological processes and enable cells to…”
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Cyclic changes in metabolic state during the life of a yeast cell by Tu, Benjamin P, Mohler, Rachel E, Liu, Jessica C, Dombek, Kenneth M, Young, Elton T, Synovec, Robert E, McKnight, Steven L

“…Budding yeast undergo robust oscillations in oxygen consumption during continuous growth in a nutrient-limited environment. Using liquid chromatography-mass…”
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Snf1-Dependent Transcription Confers Glucose-Induced Decay upon the mRNA Product by Braun, Katherine A., Dombek, Kenneth M., Young, Elton T.

“…In the yeast Saccharomyces cerevisiae , the switch from respiratory metabolism to fermentation causes rapid decay of transcripts encoding proteins uniquely…”
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Phosphoproteomic analysis identifies proteins involved in transcription-coupled mRNA decay as targets of Snf1 signaling by Braun, Katherine A, Vaga, Stefania, Dombek, Kenneth M, Fang, Fang, Palmisano, Salvator, Aebersold, Ruedi, Young, Elton T

“…Stresses, such as glucose depletion, activate Snf1, the Saccharomyces cerevisiae ortholog of adenosine monophosphate-activated protein kinase (AMPK), enabling…”
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Construction of regulatory networks using expression time-series data of a genotyped population by Yeung, Ka Yee, Dombek, Kenneth M, Lo, Kenneth, Mittler, John E, Zhu, Jun, Schadt, Eric E, Bumgarner, Roger E, Raftery, Adrian E

“…The inference of regulatory and biochemical networks from large-scale genomics data is a basic problem in molecular biology. The goal is to generate testable…”
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Multiple Pathways Are Co-regulated by the Protein Kinase Snf1 and the Transcription Factors Adr1 and Cat8 by Young, Elton T., Dombek, Kenneth M., Tachibana, Chris, Ideker, Trey

“…ADR1 and CAT8 encode carbon source-responsive transcriptional regulators that cooperatively control expression of genes involved in ethanol utilization. These…”
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Comprehensive Two-Dimensional Gas Chromatography Time-of-Flight Mass Spectrometry Analysis of Metabolites in Fermenting and Respiring Yeast Cells by Mohler, Rachel E, Dombek, Kenneth M, Hoggard, Jamin C, Young, Elton T, Synovec, Robert E

“…Comprehensive two-dimensional gas chromatography with time-of-flight mass spectrometry coupled with rapid chemometric analysis were used to identify chemical…”
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14-3-3 (Bmh) Proteins Regulate Combinatorial Transcription following RNA Polymerase II Recruitment by Binding at Adr1-Dependent Promoters in Saccharomyces cerevisiae by Braun, Katherine A., Parua, Pabitra K., Dombek, Kenneth M., Miner, Gregory E., Young, Elton T.

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Genome-Wide Amplifications Caused by Chromosomal Rearrangements Play a Major Role in the Adaptive Evolution of Natural Yeast by Infante, Juan J, Dombek, Kenneth M, Rebordinos, Laureana, Cantoral, Jesus M, Young, Elton T

“…The relative importance of gross chromosomal rearrangements to adaptive evolution has not been precisely defined. The Saccharomyces cerevisiae flor yeast…”
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The Reg1-interacting Proteins, Bmh1, Bmh2, Ssb1, and Ssb2, Have Roles in Maintaining Glucose Repression in Saccharomyces cerevisiae by Dombek, Kenneth M., Kacherovsky, Nataly, Young, Elton T.

“…In Saccharomyces cerevisiae, a type 1 protein phosphatase complex composed of the Glc7 catalytic subunit and the Reg1 regulatory subunit represses expression…”
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Tumors overcome the action of the wasting factor ImpL2 by locally elevating Wnt/Wingless by Lee, Jiae, Ng, Katelyn G.-L., Dombek, Kenneth M., Eom, Dae Seok, Kwon, Young V.

“…Tumors often secrete wasting factors associated with atrophy and the degeneration of host tissues. If tumors were to be affected by the wasting…”
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Artificial Recruitment of Mediator by the DNA-Binding Domain of Adr1 Overcomes Glucose Repression of ADH2 Expression by Young, Elton T., Tachibana, Christine, Chang, Hsin-Wen Ella, Dombek, Kenneth M., Arms, Erin M., Biddick, Rhiannon

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Yeast 14-3-3 Protein Functions as a Comodulator of Transcription by Inhibiting Coactivator Functions by Parua, Pabitra K., Dombek, Kenneth M., Young, Elton T.

“…In eukaryotes combinatorial activation of transcription is an important component of gene regulation. In the budding yeast Saccharomyces cerevisiae, Adr1-Cat8…”
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Comprehensive analysis of yeast metabolite GC x GC-TOFMS data: combining discovery-mode and deconvolution chemometric software by Mohler, Rachel E, Dombek, Kenneth M, Hoggard, Jamin C, Pierce, Karisa M, Young, Elton T, Synovec, Robert E

“…The first extensive study of yeast metabolite GC x GC-TOFMS data from cells grown under fermenting, R, and respiring, DR, conditions is reported. In this…”
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Identification and evaluation of cycling yeast metabolites in two-dimensional comprehensive gas chromatography–time-of-flight-mass spectrometry data by Mohler, Rachel E., Tu, Benjamin P., Dombek, Kenneth M., Hoggard, Jamin C., Young, Elton T., Synovec, Robert E.

“…A yeast metabolome exhibiting oscillatory behavior was analyzed using comprehensive two-dimensional gas chromatography–time-of-flight-mass spectrometry (GC ×…”
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Toward a global analysis of metabolites in regulatory mutants of yeast by Humston, Elizabeth M., Dombek, Kenneth M., Tu, Benjamin P., Young, Elton T., Synovec, Robert E.

“…The AMP-activated protein kinase in yeast, Snf1, coordinates expression and activity of numerous intracellular signaling and developmental pathways, including…”
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Integrating external biological knowledge in the construction of regulatory networks from time-series expression data by Lo, Kenneth, Raftery, Adrian E, Dombek, Kenneth M, Zhu, Jun, Schadt, Eric E, Bumgarner, Roger E, Yeung, Ka Yee

“…Inference about regulatory networks from high-throughput genomics data is of great interest in systems biology. We present a Bayesian approach to infer gene…”
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Time-Dependent Profiling of Metabolites from Snf1 Mutant and Wild Type Yeast Cells by Humston, Elizabeth M, Dombek, Kenneth M, Hoggard, Jamin C, Young, Elton T, Synovec, Robert E

“…The effect of sampling time in the context of growth conditions on a dynamic metabolic system was investigated in order to assess to what extent a single…”
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Snf1‐independent, glucose‐resistant transcription of Adr1‐dependent genes in a mediator mutant of Saccharomyces cerevisiae by Young, Elton T., Yen, Kuangyu, Dombek, Kenneth M., Law, G. Lynn, Chang, Ella, Arms, Erin

“…Summary Glucose represses transcription of a network of co‐regulated genes in Saccharomyces cerevisiae, ensuring that it is utilized before poorer carbon…”
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Functional Analysis of the Yeast Glc7-Binding Protein Reg1 Identifies a Protein Phosphatase Type 1-Binding Motif as Essential for Repression of ADH2 Expression by Dombek, Kenneth M., Voronkova, Valentina, Raney, Alexa, Young, Elton T.

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