Search Results - "Cummins, Breschine"

Subnetwork inclusion and switching of multilevel Boolean networks preserve parameter graph structure and dynamics by Duncan, William, Cummins, Breschine, Gedeon, Tomáš

“…This study addresses a problem of correspondence between dynamics of a parameterized system and the structure of interactions within that system. The structure…”
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Experimental guidance for discovering genetic networks through hypothesis reduction on time series by Cummins, Breschine, Motta, Francis C, Moseley, Robert C, Deckard, Anastasia, Campione, Sophia, Gameiro, Marcio, Gedeon, Tomáš, Mischaikow, Konstantin, Haase, Steven B

“…Large programs of dynamic gene expression, like cell cyles and circadian rhythms, are controlled by a relatively small "core" network of transcription factors…”
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Assessing biological network dynamics: comparing numerical simulations with analytical decomposition of parameter space by Hari, Kishore, Duncan, William, Ibrahim, Mohammed Adil, Jolly, Mohit Kumar, Cummins, Breschine, Gedeon, Tomas

“…Mathematical modeling of the emergent dynamics of gene regulatory networks (GRN) faces a double challenge of (a) dependence of model dynamics on parameters,…”
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Multistability and predominant hybrid phenotypes in a four node mutually repressive network of Th1/Th2/Th17/Treg differentiation by Duddu, Atchuta Srinivas, Andreas, Elizabeth, BV, Harshavardhan, Grover, Kaushal, Singh, Vivek Raj, Hari, Kishore, Jhunjhunwala, Siddharth, Cummins, Breschine, Gedeon, Tomas, Jolly, Mohit Kumar

“…Elucidating the emergent dynamics of cellular differentiation networks is crucial to understanding cell-fate decisions. Toggle switch – a network of mutually…”
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Quantifying robustness of the gap gene network by Andreas, Elizabeth, Cummins, Breschine, Gedeon, Tomáš

“…Early development of Drosophila melanogaster (fruit fly) facilitated by the gap gene network has been shown to be incredibly robust, and the same patterns…”
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Oscillator death in coupled biochemical oscillators by Gedeon, Tomáš, Cummins, Breschine

“…Circadian rhythm, cell division and metabolic oscillations are rhythmic cellular behaviors that must be both robust but also to respond to changes in their…”
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AN IMPROVED STOICHIOMETRIC MODEL OF CHONDROCYTE CENTRAL METABOLISM: FLUX BALANCE ANALYSIS AND INITIAL MECHANOTRANSDUCTION RESULTS by Erdogan, Ayten, Arnold, Adrienne, Kimmel, Aubrey, Myers, Erik, Brahmachary, Priyanka, Smith, Donald, Zosso, Dominique, Cummins, Breschine, Carlson, Ross, June, Ronald

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661 - AN IMPROVED STOICHIOMETRIC MODEL OF CHONDROCYTE CENTRAL METABOLISM: FLUX BALANCE ANALYSIS AND INITIAL MECHANOTRANSDUCTION RESULTS by Erdogan, Ayten, Arnold, Adrienne, Kimmel, Aubrey, Myers, Erik, Brahmachary, Priyanka, Smith, Donald, Zosso, Dominique, Cummins, Breschine, Carlson, Ross, June, Ronald

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Leveraging social networks for identification of people with HIV who are virally unsuppressed by Cummins, Breschine, Johnson, Kara, Schneider, John A, Del Vecchio, Natascha, Moshiri, Niema, Wertheim, Joel O, Goyal, Ravi, Skaathun, Britt

“…This study investigates primary peer-referral engagement (PRE) strategies to assess which strategy results in engaging higher numbers of people with HIV (PWH)…”
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A yeast cell cycle pulse generator model shows consistency with multiple oscillatory and checkpoint mutant datasets by Fox, Julian, Cummins, Breschine, Moseley, Robert C, Gameiro, Marcio, Haase, Steven B

“…Modeling biological systems holds great promise for speeding up the rate of discovery in systems biology by predicting experimental outcomes and suggesting…”
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Robustness and reproducibility of simple and complex synthetic logic circuit designs using a DBTL loop by Cummins, Breschine, Vrana, Justin, Moseley, Robert C, Eramian, Hamed, Deckard, Anastasia, Fontanarrosa, Pedro, Bryce, Daniel, Weston, Mark, Zheng, George, Nowak, Joshua, Motta, Francis C, Eslami, Mohammed, Johnson, Kara Layne, Goldman, Robert P, Myers, Chris J, Johnson, Tessa, Vaughn, Matthew W, Gaffney, Niall, Urrutia, Joshua, Gopaulakrishnan, Shweta, Biggers, Vanessa, Higa, Trissha R, Mosqueda, Lorraine A, Gameiro, Marcio, Gedeon, Tomáš, Mischaikow, Konstantin, Beal, Jacob, Bartley, Bryan, Mitchell, Tom, Nguyen, Tramy T, Roehner, Nicholas, Haase, Steven B

“…Abstract Computational tools addressing various components of design–build–test–learn (DBTL) loops for the construction of synthetic genetic networks exist but…”
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Highly-automated, high-throughput replication of yeast-based logic circuit design assessments by Goldman, Robert P, Moseley, Robert, Roehner, Nicholas, Cummins, Breschine, Vrana, Justin D, Clowers, Katie J, Bryce, Daniel, Beal, Jacob, DeHaven, Matthew, Nowak, Joshua, Higa, Trissha, Biggers, Vanessa, Lee, Peter, Hunt, Jeremy P, Mosqueda, Lorraine, Haase, Steven B, Weston, Mark, Zheng, George, Deckard, Anastasia, Gopaulakrishnan, Shweta, Stubbs, Joseph F, Gaffney, Niall I, Vaughn, Matthew W, Maheshri, Narendra, Mikhalev, Ekaterina, Bartley, Bryan, Markeloff, Richard, Mitchell, Tom, Nguyen, Tramy, Sumorok, Daniel, Walczak, Nicholas, Myers, Chris, Zundel, Zach, Hatch, Benjamin, Scholz, James, Colonna-Romano, John

“…Abstract We describe an experimental campaign that replicated the performance assessment of logic gates engineered into cells of Saccharomyces cerevisiae by…”
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Generalized Measures of Population Synchrony by Motta, Francis C, McGoff, Kevin, Cummins, Breschine, Haase, Steven B

“…Synchronized behavior among individuals is a ubiquitous feature of populations. Understanding mechanisms of (de)synchronization demands meaningful,…”
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A yeast cell cycle pulse generator model shows consistency with multiple oscillatory and checkpoint mutant datasets by Fox, Julian, Cummins, Breschine, Moseley, Robert C, Gameiro, Marcio, Haase, Steven B

“…The regulatory mechanisms driving progression of the yeast cell cycle appears to be comprised of an interacting network of transcription factors (TFs),…”
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Determining the biomechanical response of a filiform hair array: A low Reynolds number fluid-structure model by Cummins, Breschine

“…A model system that has been the subject of many anatomical, developmental, functional, and theoretical studies over the last 30 years is the cercal sensory…”
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Determining the biomechanical response of a filiform hair array: A low Reynolds number fluid-structure model by Cummins, Breschine

“…A model system that has been the subject of many anatomical, developmental, functional, and theoretical studies over the last 30 years is the cercal sensory…”
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