Browsing by Author "Silver, Pamela"

Now showing items 21-36 of 36

    • Network-Scale Engineering: Systems Approaches to Synthetic Biology 

      Boyle, Patrick M. (2012-08-10)
      The field of Synthetic Biology seeks to develop engineering principles for biological systems. Modular biological parts are repurposed and recombined to develop new synthetic biological devices with novel functions. The ...

    • An objective function exploiting suboptimal solutions in metabolic networks 

      Wintermute, Edwin H; Lieberman, Tami D; Silver, Pamela A (BioMed Central, 2013)
      Background: Flux Balance Analysis is a theoretically elegant, computationally efficient, genome-scale approach to predicting biochemical reaction fluxes. Yet FBA models exhibit persistent mathematical degeneracy that ...

    • Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly 

      Torella, Joseph P.; Boehm, Christian R.; Lienert, Florian; Chen, Jan-Hung; Way, Jeffrey C.; Silver, Pamela A. (Oxford University Press, 2013)
      In vitro recombination methods have enabled one-step construction of large DNA sequences from multiple parts. Although synthetic biological circuits can in principle be assembled in the same fashion, they typically contain ...

    • Retrovirus-Delivered siRNA 

      Devroe, Eric; Silver, Pamela A. (BioMed Central, 2002)
      Background: The ability of transfected synthetic small interfering (si) RNAs to suppress the expression of specific transcripts has proved a useful technique to probe gene function in mammalian cells. However, high production ...

    • Spatial and Temporal Organization of Chromosome Duplication and Segregation in the Cyanobacterium Synechococcus elongatus PCC 7942 

      Chen, Anna Hang; Afonso, Bruno; Silver, Pamela A.; Savage, David F. (Public Library of Science, 2012)
      The spatial and temporal control of chromosome duplication and segregation is crucial for proper cell division. While this process is well studied in eukaryotic and some prokaryotic organisms, relatively little is known ...

    • Streptomyces thermoautotrophicus does not fix nitrogen 

      MacKellar, Drew; Lieber, Lucas; Norman, Jeffrey S.; Bolger, Anthony; Tobin, Cory; Murray, James W.; Oksaksin, Mehtap; Chang, Roger L.; Ford, Tyler J.; Nguyen, Peter Q.; Woodward, Jimmy; Permingeat, Hugo R.; Joshi, Neel S.; Silver, Pamela A.; Usadel, Björn; Rutherford, Alfred W.; Friesen, Maren L.; Prell, Jürgen (Nature Publishing Group, 2016)
      Streptomyces thermoautotrophicus UBT1 has been described as a moderately thermophilic chemolithoautotroph with a novel nitrogenase enzyme that is oxygen-insensitive. We have cultured the UBT1 strain, and have isolated two ...

    • Synthetic biology approaches to bio-based chemical production 

      Torella, Joseph Peter (2014-10-22)
      Inexpensive petroleum is the cornerstone of the modern global economy despite its huge environmental costs and its nature as a non-renewable resource. While ninety percent of petroleum is ultimately used as fuel and can ...

    • Synthetic Biology Approaches to Engineering Human Cells 

      Lohmueller, Jason Jakob (2013-08-21)
      The field of synthetic biology seeks to revolutionize the scope and scale of what is currently feasible by genetic engineering. By focusing on engineering general signal processing platforms using modular genetic parts and ...

    • Synthetic photosynthetic consortia define interactions leading to robustness and photoproduction 

      Hays, Stephanie G.; Yan, Leo L. W.; Silver, Pamela A.; Ducat, Daniel C. (BioMed Central, 2017)
      Background: Microbial consortia composed of autotrophic and heterotrophic species abound in nature, yet examples of synthetic communities with mixed metabolism are limited in the laboratory. We previously engineered a model ...

    • Systems Biology of Gene Regulation Fulfills its Promise 

      McKee, Adrienne E; Silver, Pamela A. (BioMed Central, 2006)
      A report on the meeting 'Systems Biology: Global Regulation of Gene Expression' at Cold Spring Harbor, New York, USA, 23-26 March 2006.

    • Tracking Cell Fate with Synthetic Memory and Pulse Detecting Transcriptional Circuits 

      Inniss, Mara Christine (2014-06-06)
      Synthetic biology aims to engineer biological systems to meet new challenges and teach us more about natural biological systems. These pursuits range from the building of relatively simple transcriptional circuits, to ...

    • Tracking Cell Fate with Synthetic Memory Circuits 

      Burrill, Devin Rene (2013-03-18)
      The capacity of cells to sense transient environmental cues and activate prolonged cellular responses is a recurring biological feature relevant to disease development and stem cell differentiation. While biologically ...

    • Transplantability of a circadian clock to a noncircadian organism 

      Chen, Anna H.; Lubkowicz, David; Yeong, Vivian; Chang, Roger L.; Silver, Pamela A. (2015)
      Circadian oscillators are posttranslationally regulated and affect gene expression in autotrophic cyanobacteria. Oscillations are controlled by phosphorylation of the KaiC protein, which is modulated by the KaiA and KaiB ...

    • A Tunable Protein Piston That Breaks Membranes to Release Encapsulated Cargo 

      Polka, Jessica; Silver, Pamela A. (American Chemical Society (ACS), 2016)
      Movement of molecules across membranes in response to a stimulus is a key component of cellular programming. Here, we characterize and manipulate the response of a protein-based piston capable of puncturing membranes in a ...

    • Two- and three-input TALE-based AND logic computation in embryonic stem cells 

      Lienert, Florian; Torella, Joseph P.; Chen, Jan-Hung; Norsworthy, Michael; Richardson, Ryan R.; Silver, Pamela A. (Oxford University Press, 2013)
      Biological computing circuits can enhance our ability to control cellular functions and have potential applications in tissue engineering and medical treatments. Transcriptional activator-like effectors (TALEs) represent ...

    • Water splitting-biosynthetic system with CO2 reduction efficiencies exceeding photosynthesis 

      Liu, Chong; Colon, Brendan Cruz; Ziesack, Marika; Silver, Pamela A.; Nocera, Daniel (American Association for the Advancement of Science (AAAS), 2016)
      Artificial photosynthetic systems can store solar energy and chemically reduce CO2. We developed a hybrid water splitting–biosynthetic system based on a biocompatible Earth-abundant inorganic catalyst system to split water ...