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We present the methods and results of a two-stage modeling process that generates candidate gene-regulatory networks of the bacterium B. subtilis from experimentally obtained, yet mathematically underdetermined microchip array data. By employing a co
Externí odkaz:
http://arxiv.org/abs/q-bio/0607024
Autor:
Lan YC; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA 16802, USA., Ghasemi M; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA 16802, USA., Hall SL; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA 16802, USA., Fair RA; Department of Materials Science, The Pennsylvania State University, University Park, PA 16802, USA., Maranas C; Department of Materials Science, The Pennsylvania State University, University Park, PA 16802, USA., Shi R; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA 16802, USA., Gomez ED; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA 16802, USA.; Department of Materials Science, The Pennsylvania State University, University Park, PA 16802, USA.
Publikováno v:
ChemSusChem [ChemSusChem] 2024 Jul 08; Vol. 17 (13), pp. e202301920. Date of Electronic Publication: 2024 Mar 19.
Autor:
Oh H; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Tu YM; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Samineni L; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., De Respino S; Maseeh Department of Civil, Architectural and Environmental Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Mehrafrooz B; Center for Biophysics and Quantitative Biology, The University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.; Department of Physics and Beckman Institute for Advanced Science and Technology, The University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States., Joshi H; Department of Biotechnology, Indian Institute of Technology, Hyderabad 502285, India., Massenburg L; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, United States., Lopez-Marques H; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Elessawy N; Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States., Song W; Division of Environmental Science and Engineering, Pohang University of Science and Technology (POSTECH), Pohang 37673, South Korea., Behera H; Maseeh Department of Civil, Architectural and Environmental Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Dhiman R; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Boorla VS; Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania 16802, United States., Kher K; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Lin YC; Department of Chemistry, The University of Texas at Austin, Austin, Texas 78712, United States., Maranas C; Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania 16802, United States., Aksimentiev A; Center for Biophysics and Quantitative Biology, The University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.; Department of Physics and Beckman Institute for Advanced Science and Technology, The University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States., D Freeman B; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States., Kumar M; McKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, Texas 78712, United States.; Maseeh Department of Civil, Architectural and Environmental Engineering, The University of Texas at Austin, Austin, Texas 78712, United States.
Publikováno v:
ACS applied materials & interfaces [ACS Appl Mater Interfaces] 2024 Apr 10. Date of Electronic Publication: 2024 Apr 10.
Autor:
Chowdhury NB; Chemical and Biomolecular Engineering, University of Nebraska-Lincoln, Lincoln, NE, USA., Simons-Senftle M; Chemical Engineering, The Pennsylvania State University, University Park, PA, USA., Decouard B; Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), 78000 Versailles, France., Quillere I; Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), 78000 Versailles, France., Rigault M; Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), 78000 Versailles, France., Sajeevan KA; Chemical and Biological Engineering, Iowa State University, Ames, IA, USA., Acharya B; Chemical and Biological Engineering, Iowa State University, Ames, IA, USA., Chowdhury R; Chemical and Biological Engineering, Iowa State University, Ames, IA, USA., Hirel B; Centre de Versailles-Grignon, Institut National de Recherche pour l'Agriculture, Versailles, France., Dellagi A; Université Paris-Saclay, INRAE, AgroParisTech, Institut Jean-Pierre Bourgin (IJPB), 78000 Versailles, France., Maranas C; Chemical Engineering, The Pennsylvania State University, University Park, PA, USA., Saha R; Chemical and Biomolecular Engineering, University of Nebraska-Lincoln, Lincoln, NE, USA.
Publikováno v:
IScience [iScience] 2023 Nov 07; Vol. 26 (12), pp. 108400. Date of Electronic Publication: 2023 Nov 07 (Print Publication: 2023).
Autor:
Callaghan MM; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA., Thusoo E; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA; Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, USA., Sharma BD; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Thayer School of Engineering, Dartmouth College, Hanover, NH, USA., Getahun F; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA; Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, USA., Stevenson DM; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA; Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, USA., Maranas C; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Chemical Engineering, The Pennsylvania State University, University Park, PA, USA., Olson DG; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Thayer School of Engineering, Dartmouth College, Hanover, NH, USA., Lynd LR; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Thayer School of Engineering, Dartmouth College, Hanover, NH, USA., Amador-Noguez D; Center for Bioenergy Innovation, Oak Ridge National Laboratory, Oak Ridge, TN, USA; Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA; Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, WI, USA. Electronic address: amadornoguez@wisc.edu.
Publikováno v:
Metabolic engineering [Metab Eng] 2023 Nov; Vol. 80, pp. 254-266. Date of Electronic Publication: 2023 Nov 01.
Autor:
Choi S; Department of Genetics, University of Georgia, Athens, GA 30602, USA., Prabhakar PK; Complex Carbohydrate Research Center, University of Georgia, Athens, GA 30602, USA.; Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA., Chowdhury R; Chemical Engineering, Penn State University, State College, PA 16801, USA., Pendergast TH; Department of Plant Biology, University of Georgia, Athens, GA 30602, USA.; Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA.; Institute of Plant Breeding, Genetics and Genomics, University of Georgia, Athens, GA 30602, USA., Urbanowicz BR; Complex Carbohydrate Research Center, University of Georgia, Athens, GA 30602, USA.; Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA 30602, USA., Maranas C; Chemical Engineering, Penn State University, State College, PA 16801, USA., Devos KM; Department of Plant Biology, University of Georgia, Athens, GA 30602, USA.; Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA.; Institute of Plant Breeding, Genetics and Genomics, University of Georgia, Athens, GA 30602, USA.
Publikováno v:
Journal of experimental botany [J Exp Bot] 2023 Sep 29; Vol. 74 (18), pp. 5532-5546.
Akademický článek
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Autor:
Schultz JC; Department of Chemical and Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA., Mishra S; Department of Chemical and Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA., Gaither E; Department of Chemical and Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA.; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA., Mejia A; Department of Chemical and Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA., Dinh H; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA.; Department of Chemical Engineering, Pennsylvania State University, University Park, PA, 16802, USA., Maranas C; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA.; Department of Chemical Engineering, Pennsylvania State University, University Park, PA, 16802, USA., Zhao H; Department of Chemical and Biomolecular Engineering, Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA. zhao5@illinois.edu.; U.S. Department of Energy Center for Bioenergy and Bioproducts Innovation (CABBI), Urbana, IL, 61801, USA. zhao5@illinois.edu.; Departments of Chemistry, Biochemistry, and Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA. zhao5@illinois.edu.
Publikováno v:
Microbial cell factories [Microb Cell Fact] 2022 Feb 19; Vol. 21 (1), pp. 26. Date of Electronic Publication: 2022 Feb 19.
Autor:
Sharma, Bishal Dev1,2 (AUTHOR) bishal.d.sharma.th@dartmouth.edu, Hon, Shuen1,2,3 (AUTHOR) shuen.hon@dartmouth.edu, Thusoo, Eashant2,4,5 (AUTHOR) thusoo@wisc.edu, Stevenson, David M.2,4,5 (AUTHOR) dmstevenson@wisc.edu, Amador-Noguez, Daniel2,4,5 (AUTHOR) amadornoguez@wisc.edu, Guss, Adam M.2,6 (AUTHOR) gussam@ornl.gov, Lynd, Lee R.1,2,3 (AUTHOR) lee.r.lynd@dartmouth.edu, Olson, Daniel G.1,2 (AUTHOR) daniel.g.olson@dartmouth.edu
Publikováno v:
Biotechnology for Biofuels & Bioproducts. 12/18/2024, Vol. 17 Issue 1, p1-15. 15p.
Autor:
Vieira-Lara, Marcel A.1 (AUTHOR) M.A.VieiraLara@tudelft.nl, Warmerdam, Marieke1 (AUTHOR), de Hulster, Erik A. F.1 (AUTHOR), van den Broek, Marcel1 (AUTHOR), Daran, Jean-Marc1 (AUTHOR), Pronk, Jack T.1 (AUTHOR) J.T.Pronk@tudelft.nl
Publikováno v:
Biotechnology for Biofuels & Bioproducts. 12/4/2024, Vol. 17 Issue 1, p1-19. 19p.