Palsson, Bernhard O: search on Z-Library

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1

What is flux balance analysis?

Orth, Jeffrey D, Thiele, Ines, Palsson, Bernhard Ø

Journal:

Nature Biotechnology

Year:

2010

Language:

english

File:

PDF, 583 KB

english, 2010

2

How to set up collaborations between academia and industrial biotech companies

Pronk, Jack T, Lee, Sang Yup, Lievense, Jeff, Pierce, John, Palsson, Bernhard, Uhlen, Mathias, Nielsen, Jens

Journal:

Nature Biotechnology

Year:

2015

Language:

english

File:

PDF, 306 KB

english, 2015

3

A protocol for generating a high-quality genome-scale metabolic reconstruction

Thiele, Ines, Palsson, Bernhard Ø

Journal:

Nature Protocols

Year:

2010

Language:

english

File:

PDF, 1.78 MB

english, 2010

4

iML1515, a knowledgebase that computes Escherichia coli traits

Monk, Jonathan M, Lloyd, Colton J, Brunk, Elizabeth, Mih, Nathan, Sastry, Anand, King, Zachary, Takeuchi, Rikiya, Nomura, Wataru, Zhang, Zhen, Mori, Hirotada, Feist, Adam M, Palsson, Bernhard O

Journal:

Nature Biotechnology

Year:

2017

Language:

english

File:

PDF, 1.77 MB

english, 2017

5

Engineering synergy in biotechnology

Nielsen, Jens, Fussenegger, Martin, Keasling, Jay, Lee, Sang Yup, Liao, James C, Prather, Kristala, Palsson, Bernhard

Journal:

Nature Chemical Biology

Year:

2014

Language:

english

File:

PDF, 489 KB

english, 2014

6

Quantitative -omic data empowers bottom-up systems biology

Yurkovich, James T, Palsson, Bernhard O

Journal:

Current Opinion in Biotechnology

Year:

2018

Language:

english

File:

PDF, 960 KB

english, 2018

7

The evolution of molecular biology into systems biology

Westerhoff, Hans V, Palsson, Bernhard O

Journal:

Nature Biotechnology

Year:

2004

Language:

english

File:

PDF, 116 KB

english, 2004

8

The econometrics of evolution

Fong, Stephen S, Joyce, Andrew R, Palsson, Bernhard Ø

Journal:

Nature Chemical Biology

Year:

2005

Language:

english

File:

PDF, 151 KB

english, 2005

9

High-density photoautotrophic algal cultures: Design, construction, and operation of a novel photobioreactor system

Minoo Javanmardian, Bernhard O. Palsson

Journal:

Biotechnology and Bioengineering

Year:

1991

Language:

english

File:

PDF, 732 KB

english, 1991

10

The challenges of integrating multi-omic data sets

Palsson, Bernhard, Zengler, Karsten

Journal:

Nature Chemical Biology

Year:

2010

Language:

english

File:

PDF, 230 KB

english, 2010

11

Using Genome-scale Models to Predict Biological Capabilities

O’Brien, Edward J., Monk, Jonathan M., Palsson, Bernhard O.

Journal:

Year:

2015

Language:

english

File:

PDF, 3.65 MB

english, 2015

12

Internal Model Control: extension to nonlinear system

Economou, Constantin G., Morari, Manfred, Palsson, Bernhard O.

Journal:

Industrial & Engineering Chemistry Process Design and Development

Year:

1986

Language:

english

File:

PDF, 1013 KB

english, 1986

13

A workflow for generating multi-strain genome-scale metabolic models of prokaryotes

Norsigian, Charles J., Fang, Xin, Seif, Yara, Monk, Jonathan M., Palsson, Bernhard O.

Journal:

Nature Protocols

Year:

2020

Language:

english

File:

PDF, 1.24 MB

english, 2020

14

High-density algal photobioreactors using light-emitting diodes

Choul-Gyun Lee, Bernhard Ø. Palsson

Journal:

Biotechnology and Bioengineering

Year:

1994

Language:

english

File:

PDF, 763 KB

english, 1994

15

Metabolic Capabilities of Escherichia coli: I. Synthesis of Biosynthetic Precursors and Cofactors

Amit Varma, Bernhard O. Palsson

Journal:

Journal of Theoretical Biology

Year:

1993

File:

PDF, 851 KB

1993

16

Metabolic Flux Balancing: Basic Concepts, Scientific and Practical Use

Varma, Amit, Palsson, Bernhard O.

Journal:

Year:

1994

File:

PDF, 630 KB

1994

17

Bioengineering of gene transfer

Bernhard Palsson, L. Amy Sung, Bernhard Palsson

Journal:

Annals of Biomedical Engineering

Year:

1997

Language:

english

File:

PDF, 134 KB

english, 1997

18

Light emitting diode-based algal photobioreactor with external gas exchange

Choul-Gyun Lee, Bernhard Ø. Palsson

Journal:

Journal of Fermentation and Bioengineering

Year:

1995

Language:

english

File:

PDF, 942 KB

english, 1995

19

Metabolic gene–deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes

Fong, Stephen S, Palsson, Bernhard Ø

Journal:

Nature Genetics

Year:

2004

Language:

english

File:

PDF, 240 KB

english, 2004

20

[Human Cell Culture] Human Cell Culture Volume 1 || Melanoma: The Wistar Melanoma (WM) Cell Lines

Masters, John R. W., Palsson, Bernhard

Year:

2002

Language:

english

File:

PDF, 90 KB

english, 2002

21

Network-based prediction of human tissue-specific metabolism

Shlomi, Tomer, Cabili, Moran N, Herrgård, Markus J, Palsson, Bernhard Ø, Ruppin, Eytan

Journal:

Nature Biotechnology

Year:

2008

Language:

english

File:

PDF, 609 KB

english, 2008

22

Systems biology of the structural proteome

Brunk, Elizabeth, Mih, Nathan, Monk, Jonathan, Zhang, Zhen, O’Brien, Edward J., Bliven, Spencer E., Chen, Ke, Chang, Roger L., Bourne, Philip E., Palsson, Bernhard O.

Journal:

BMC Systems Biology

Year:

2016

Language:

english

File:

PDF, 3.27 MB

english, 2016

23

Biochemical Characterization of Human Gluconokinase and the Proposed Metabolic Impact of Gluconic Acid as Determined by Constraint Based Metabolic Network Analysis

Rohatgi, Neha, Nielsen, Tine Kragh, Bjørn, Sara Petersen, Axelsson, Ivar, Paglia, Giuseppe, Voldborg, Bjørn Gunnar, Palsson, Bernhard O., Rolfsson, Óttar, Muldoon, Mark R.

Journal:

Year:

2014

Language:

english

File:

PDF, 1.01 MB

english, 2014

24

Metabolic modelling of microbes: the flux-balance approach

Jeremy S. Edwards, Markus Covert, Bernhard Palsson

Journal:

Environmental Microbiology

Year:

2002

Language:

english

File:

PDF, 278 KB

english, 2002

25

The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli

Feist, Adam M, Palsson, Bernhard Ø

Journal:

Nature Biotechnology

Year:

2008

Language:

english

File:

PDF, 736 KB

english, 2008

26

Systems Biology (Constraint-Based Reconstruction and Analysis) || Network Reconstruction: The Process

Palsson, Bernhard O.

Year:

2015

Language:

english

File:

PDF, 8.27 MB

english, 2015

27

Temperature-Dependent Estimation of Gibbs Energies Using an Updated Group-Contribution Method

Du, Bin, Zhang, Zhen, Grubner, Sharon, Yurkovich, James T., Palsson, Bernhard O., Zielinski, Daniel C.

Journal:

Biophysical Journal

Year:

2018

Language:

english

File:

PDF, 1.94 MB

english, 2018

28

Elemental balancing of biomass and medium composition enhances growth capacity in high-density Chlorella vulgaris cultures

Ramkumar K. Mandalam, Bernhard Palsson

Journal:

Biotechnology and Bioengineering

Year:

1998

Language:

english

File:

PDF, 157 KB

english, 1998

29

Uniform Sampling of Steady-State Flux Spaces: Means to Design Experiments and to Interpret Enzymopathies

Price, Nathan D., Schellenberger, Jan, Palsson, Bernhard O.

Journal:

Biophysical Journal

Year:

2004

Language:

english

File:

PDF, 622 KB

english, 2004

30

Systems Biology (Simulation of Dynamic Network States) || Homework problems

Palsson, Bernhard O., Abrams, Marc

Year:

2011

Language:

english

File:

PDF, 224 KB

english, 2011

31

Maximizing biomass productivity and cell density of Chlorella vulgaris by using light-emitting diode-based photobioreactor

Weiqi Fu, Olafur Gudmundsson, Adam M. Feist, Gisli Herjolfsson, Sigurdur Brynjolfsson, Bernhard Ø. Palsson

Journal:

Journal of Biotechnology

Year:

2012

Language:

english

File:

PDF, 750 KB

english, 2012

32

Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution

Utrilla, Jose, O’Brien, Edward J., Chen, Ke, McCloskey, Douglas, Cheung, Jacky, Wang, Harris, Armenta-Medina, Dagoberto, Feist, Adam M., Palsson, Bernhard O.

Journal:

Year:

2016

Language:

english

File:

PDF, 3.42 MB

english, 2016

33

Systematizing the generation of missing metabolic knowledge

Jeffrey D. Orth, Bernhard Ø. Palsson

Journal:

Biotechnology and Bioengineering

Year:

2010

Language:

english

File:

PDF, 300 KB

english, 2010

34

Iron competition triggers antibiotic biosynthesis in Streptomyces coelicolor during coculture with Myxococcus xanthus

Lee, Namil, Kim, Woori, Chung, Jinkyoo, Lee, Yongjae, Cho, Suhyung, Jang, Kyoung-Soon, Kim, Sun Chang, Palsson, Bernhard, Cho, Byung-Kwan

Journal:

The ISME Journal

Year:

2020

Language:

english

File:

PDF, 1.76 MB

english, 2020

35

COBRApy: COnstraints-Based Reconstruction and Analysis for Python

Ebrahim, Ali, Lerman, Joshua A, Palsson, Bernhard O, Hyduke, Daniel R

Journal:

BMC Systems Biology

Year:

2013

Language:

english

File:

PDF, 203 KB

english, 2013

36

Systems biology and biotechnology of Streptomyces species for the production of secondary metabolites

Hwang, Kyu-Sang, Kim, Hyun Uk, Charusanti, Pep, Palsson, Bernhard Ø., Lee, Sang Yup

Journal:

Biotechnology Advances

Year:

2014

Language:

english

File:

PDF, 1.29 MB

english, 2014

37

Redefining fundamental concepts of transcription initiation in bacteria

MejÃa-Almonte, Citlalli, Busby, Stephen J. W., Wade, Joseph T., van Helden, Jacques, Arkin, Adam P., Stormo, Gary D., Eilbeck, Karen, Palsson, Bernhard O., Galagan, James E., Collado-Vides, Julio

Journal:

Nature Reviews Genetics

Year:

2020

File:

PDF, 1.94 MB

2020

38

The Underlying Pathway Structure of Biochemical Reaction Networks

Christophe H. Schilling and Bernhard O. Palsson

Journal:

Proceedings of the National Academy of Sciences

Year:

1998

Language:

english

File:

PDF, 1.51 MB

english, 1998

39

Two New Pseudopod Morphologies Displayed by the Human Hematopoietic KG1a Progenitor Cell Line and by Primary Human CD34+Cells

Francis, Karl, Ramakrishna, Ramprasad, Holloway, William, Palsson, Bernhard O.

Journal:

Year:

1998

File:

PDF, 484 KB

1998

40

Murine Sca-1+/Lin− cells and human KG1a cells exhibit multiple pseudopod morphologies during migration

Karl Francis, Bernhard Palsson, Jody Donahue, Stephen Fong, Ewa Carrier

Journal:

Experimental Hematology

Year:

2002

Language:

english

File:

PDF, 419 KB

english, 2002

41

Mass Action Stoichiometric Simulation Models: Incorporating Kinetics and Regulation into Stoichiometric Models

Jamshidi, Neema, Palsson, Bernhard Ø.

Journal:

Biophysical Journal

Year:

2010

Language:

english

File:

PDF, 683 KB

english, 2010

42

Systems Biology (Constraint-Based Reconstruction and Analysis) || Network Reconstruction: The Concept

Palsson, Bernhard O.

Year:

2015

Language:

english

File:

PDF, 9.40 MB

english, 2015

43

Dissecting the genetic and metabolic mechanisms of adaptation to the knockout of a major metabolic enzyme in Escherichia coli

Long, Christopher P., Gonzalez, Jacqueline E., Feist, Adam M., Palsson, Bernhard O., Antoniewicz, Maciek R.

Journal:

Proceedings of the National Academy of Sciences

Year:

2017

Language:

english

File:

PDF, 1.29 MB

english, 2017

44

Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes

Monk, Jonathan M., Koza, Anna, Campodonico, Miguel A., Machado, Daniel, Seoane, Jose Miguel, Palsson, Bernhard O., Herrgård, Markus J., Feist, Adam M.

Journal:

Year:

2016

Language:

english

File:

PDF, 4.54 MB

english, 2016

45

Combining pathway analysis with flux balance analysis for the comprehensive study of metabolic systems

Christophe H. Schilling, Jeremy S. Edwards, David Letscher, Bernhard Ø. Palsson

Journal:

Biotechnology and Bioengineering

Year:

2000

Language:

english

File:

PDF, 1.75 MB

english, 2000

46

Systems Biology (Constraint-Based Reconstruction and Analysis) || Prokaryotes

Palsson, Bernhard O.

Year:

2015

Language:

english

File:

PDF, 9.74 MB

english, 2015

47

BiGG Models: A platform for integrating, standardizing and sharing genome-scale models

King, Zachary A., Lu, Justin, Dräger, Andreas, Miller, Philip, Federowicz, Stephen, Lerman, Joshua A., Ebrahim, Ali, Palsson, Bernhard O., Lewis, Nathan E.

Journal:

Nucleic Acids Research

Year:

2015

Language:

english

File:

PDF, 2.48 MB

english, 2015

48

Reconstruction and Use of Microbial Metabolic Networks: the Core Escherichia coli Metabolic Model as an Educational Guide

Orth, Jeffrey D., Palsson, Bernhard Ø., Fleming, R. M. T.

Journal:

Year:

2010

Language:

english

File:

PDF, 3.22 MB

english, 2010

49

Theory for the Systemic Definition of Metabolic Pathways and their use in Interpreting Metabolic Function from a Pathway-Oriented Perspective

CHRISTOPHE H. SCHILLING, DAVID LETSCHER, BERNHARD Ø. PALSSON

Journal:

Journal of Theoretical Biology

Year:

2000

Language:

english

File:

PDF, 428 KB

english, 2000

50

Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth

Ibarra, Rafael U., Edwards, Jeremy S., Palsson, Bernhard O.

Journal:

Year:

2002

Language:

english

File:

PDF, 499 KB

english, 2002

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