Loading...

Bernhard Palsson

Title(s)Professor, Bioengineering
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
vCardDownload vCard

    Collapse Research 
    Collapse Research Activities and Funding
    Systems Biology Approach to Redefine Susceptibility Testing and Treatment of MDR Pathogens in the Context of Host Immunity
    NIH/NIAID U01AI124316Mar 15, 2016 - Feb 28, 2021
    Role: Principal Investigator
    Model-guided Identification of Synthetic Lethal Genes for Drug Target Development
    NIH/NIGMS R01GM098105Jul 1, 2011 - Jun 30, 2014
    Role: Principal Investigator
    A Genome-Scale Regulated Metabolic Model of Yeast
    NIH/NIGMS R01GM071808Aug 1, 2004 - Jul 31, 2009
    Role: Principal Investigator
    Network-based Analysis of Kinetics and Regulation
    NIH/NIGMS R01GM068837Jul 15, 2003 - Mar 31, 2014
    Role: Principal Investigator
    Testable in silico Hypotheses for E. coli Growth
    NIH/NIGMS R01GM062791Apr 1, 2001 - May 31, 2010
    Role: Principal Investigator
    Genome-Scale Models of Stress Response for E. coli
    NIH/NIGMS R01GM057089Aug 1, 1998 - Jun 30, 2022
    Role: Principal Investigator
    MECHANISMS OF STEM CELL MIGRATION
    NIH/NHLBI R01HL060398Jul 10, 1998 - Jun 30, 2002
    Role: Principal Investigator
    HEMATOPOIETIC STEM CELL
    NIH/NHLBI R01HL059234Feb 1, 1998 - Jan 31, 2002
    Role: Principal Investigator
    METABOLIC DYNAMICS &THE RED BLOOD CELL
    NIH/NIDDK R29DK039256Sep 1, 1987 - Aug 31, 1992
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Systems biology analysis of the Clostridioides difficile core-genome contextualizes microenvironmental evolutionary pressures leading to genotypic and phenotypic divergence. NPJ Syst Biol Appl. 2020 Oct 20; 6(1):31. Norsigian CJ, Danhof HA, Brand CK, Oezguen N, Midani FS, Palsson BO, Savidge TC, Britton RA, Spinler JK, Monk JM. PMID: 33082337.
      View in: PubMed   Mentions:    Fields:    
    2. iModulonDB: a knowledgebase of microbial transcriptional regulation derived from machine learning. Nucleic Acids Res. 2020 Oct 12. Rychel K, Decker K, Sastry AV, Phaneuf PV, Poudel S, Palsson BO. PMID: 33045728.
      View in: PubMed   Mentions:    Fields:    
    3. Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity. Inflamm Bowel Dis. 2020 Oct 07. Fang X, Vázquez-Baeza Y, Elijah E, Vargas F, Ackermann G, Humphrey G, Lau R, Weldon KC, Sanders JG, Panitchpakdi M, Carpenter C, Jarmusch AK, Neill J, Miralles A, Dulai P, Singh S, Tsai M, Swafford AD, Smarr L, Boyle DL, Palsson BO, Chang JT, Dorrestein PC, Sandborn WJ, Knight R, Boland BS. PMID: 33026068.
      View in: PubMed   Mentions:    Fields:    
    4. Genome-scale metabolic models highlight stage-specific differences in essential metabolic pathways in Trypanosoma cruzi. PLoS Negl Trop Dis. 2020 Oct; 14(10):e0008728. Shiratsubaki IS, Fang X, Souza ROO, Palsson BO, Silber AM, Siqueira-Neto JL. PMID: 33021977.
      View in: PubMed   Mentions:    Fields:    
    5. The Bitome: digitized genomic features reveal fundamental genome organization. Nucleic Acids Res. 2020 Sep 25. Lamoureux CR, Choudhary KS, King ZA, Sandberg TE, Gao Y, Sastry AV, Phaneuf PV, Choe D, Cho BK, Palsson BO. PMID: 32976587.
      View in: PubMed   Mentions:    Fields:    
    6. Reconstructing organisms in silico: genome-scale models and their emerging applications. Nat Rev Microbiol. 2020 Sep 21. Fang X, Lloyd CJ, Palsson BO. PMID: 32958892.
      View in: PubMed   Mentions:    Fields:    
    7. Kinetic profiling of metabolic specialists demonstrates stability and consistency of in vivo enzyme turnover numbers. Proc Natl Acad Sci U S A. 2020 09 15; 117(37):23182-23190. Heckmann D, Campeau A, Lloyd CJ, Phaneuf PV, Hefner Y, Carrillo-Terrazas M, Feist AM, Gonzalez DJ, Palsson BO. PMID: 32873645.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    8. Synthetic cross-phyla gene replacement and evolutionary assimilation of major enzymes. Nat Ecol Evol. 2020 Oct; 4(10):1402-1409. Sandberg TE, Szubin R, Phaneuf PV, Palsson BO. PMID: 32778753.
      View in: PubMed   Mentions:    Fields:    
    9. System-level understanding of gene expression and regulation for engineering secondary metabolite production in Streptomyces. J Ind Microbiol Biotechnol. 2020 Aug 10. Lee Y, Lee N, Hwang S, Kim K, Kim W, Kim J, Cho S, Palsson BO, Cho BK. PMID: 32778981.
      View in: PubMed   Mentions:    Fields:    
    10. Causal mutations from adaptive laboratory evolution are outlined by multiple scales of genome annotations and condition-specificity. BMC Genomics. 2020 Jul 25; 21(1):514. Phaneuf PV, Yurkovich JT, Heckmann D, Wu M, Sandberg TE, King ZA, Tan J, Palsson BO, Feist AM. PMID: 32711472.
      View in: PubMed   Mentions:    Fields:    
    11. Independent component analysis of E. coli's transcriptome reveals the cellular processes that respond to heterologous gene expression. Metab Eng. 2020 09; 61:360-368. Tan J, Sastry AV, Fremming KS, Bjørn SP, Hoffmeyer A, Seo S, Voldborg BG, Palsson BO. PMID: 32710928.
      View in: PubMed   Mentions:    Fields:    
    12. Redefining fundamental concepts of transcription initiation in bacteria. Nat Rev Genet. 2020 Nov; 21(11):699-714. Mejía-Almonte C, Busby SJW, Wade JT, van Helden J, Arkin AP, Stormo GD, Eilbeck K, Palsson BO, Galagan JE, Collado-Vides J. PMID: 32665585.
      View in: PubMed   Mentions: 1     Fields:    
    13. Synthesizing Systems Biology Knowledge from Omics Using Genome-Scale Models. Proteomics. 2020 09; 20(17-18):e1900282. Dahal S, Yurkovich JT, Xu H, Palsson BO, Yang L. PMID: 32579720.
      View in: PubMed   Mentions:    Fields:    
    14. Revealing 29 sets of independently modulated genes in Staphylococcus aureus, their regulators, and role in key physiological response. Proc Natl Acad Sci U S A. 2020 07 21; 117(29):17228-17239. Poudel S, Tsunemoto H, Seif Y, Sastry AV, Szubin R, Xu S, Machado H, Olson CA, Anand A, Pogliano J, Nizet V, Palsson BO. PMID: 32616573.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    15. A biochemically-interpretable machine learning classifier for microbial GWAS. Nat Commun. 2020 05 22; 11(1):2580. Kavvas ES, Yang L, Monk JM, Heckmann D, Palsson BO. PMID: 32444610.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    16. Adaptations of Escherichia coli strains to oxidative stress are reflected in properties of their structural proteomes. BMC Bioinformatics. 2020 Apr 29; 21(1):162. Mih N, Monk JM, Fang X, Catoiu E, Heckmann D, Yang L, Palsson BO. PMID: 32349661.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    17. Multiplex secretome engineering enhances recombinant protein production and purity. Nat Commun. 2020 04 20; 11(1):1908. Kol S, Ley D, Wulff T, Decker M, Arnsdorf J, Schoffelen S, Hansen AH, Jensen TL, Gutierrez JM, Chiang AWT, Masson HO, Palsson BO, Voldborg BG, Pedersen LE, Kildegaard HF, Lee GM, Lewis NE. PMID: 32313013.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    18. Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing. Nat Biotechnol. 2020 Apr; 38(4):504. Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, Feist AM, Fengos G, Fleming RMT, García-Jiménez B, Hatzimanikatis V, van Helvoirt W, Henry CS, Hermjakob H, Herrgård MJ, Kaafarani A, Kim HU, King Z, Klamt S, Klipp E, Koehorst JJ, König M, Lakshmanan M, Lee DY, Lee SY, Lee S, Lewis NE, Liu F, Ma H, Machado D, Mahadevan R, Maia P, Mardinoglu A, Medlock GL, Monk JM, Nielsen J, Nielsen LK, Nogales J, Nookaew I, Palsson BO, Papin JA, Patil KR, Poolman M, Price ND, Resendis-Antonio O, Richelle A, Rocha I, Sánchez BJ, Schaap PJ, Sheriff RSM, Shoaie S, Sonnenschein N, Teusink B, Vilaça P, Vik JO, Wodke JAH, Xavier JC, Yuan Q, Zakhartsev M, Zhang C. PMID: 32265554.
      View in: PubMed   Mentions:    Fields:    
    19. Genetic Determinants Enabling Medium-Dependent Adaptation to Nafcillin in Methicillin-Resistant Staphylococcus aureus. mSystems. 2020 Mar 31; 5(2). Salazar MJ, Machado H, Dillon NA, Tsunemoto H, Szubin R, Dahesh S, Pogliano J, Sakoulas G, Palsson BO, Nizet V, Feist AM. PMID: 32234776.
      View in: PubMed   Mentions:
    20. An atlas of human metabolism. Sci Signal. 2020 Mar 24; 13(624). Robinson JL, Kocabas P, Wang H, Cholley PE, Cook D, Nilsson A, Anton M, Ferreira R, Domenzain I, Billa V, Limeta A, Hedin A, Gustafsson J, Kerkhoven EJ, Svensson LT, Palsson BO, Mardinoglu A, Hansson L, Uhlén M, Nielsen J. PMID: 32209698.
      View in: PubMed   Mentions: 7     Fields:    
    21. Metabolic and genetic basis for auxotrophies in Gram-negative species. Proc Natl Acad Sci U S A. 2020 03 17; 117(11):6264-6273. Seif Y, Choudhary KS, Hefner Y, Anand A, Yang L, Palsson BO. PMID: 32132208.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    22. Reconstruction and Validation of a Genome-Scale Metabolic Model of Streptococcus oralis (iCJ415), a Human Commensal and Opportunistic Pathogen. Front Genet. 2020; 11:116. Jensen CS, Norsigian CJ, Fang X, Nielsen XC, Christensen JJ, Palsson BO, Monk JM. PMID: 32194617.
      View in: PubMed   Mentions:
    23. Machine learning with random subspace ensembles identifies antimicrobial resistance determinants from pan-genomes of three pathogens. PLoS Comput Biol. 2020 03; 16(3):e1007608. Hyun JC, Kavvas ES, Monk JM, Palsson BO. PMID: 32119670.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    24. MEMOTE for standardized genome-scale metabolic model testing. Nat Biotechnol. 2020 03; 38(3):272-276. Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, Feist AM, Fengos G, Fleming RMT, García-Jiménez B, Hatzimanikatis V, van Helvoirt W, Henry CS, Hermjakob H, Herrgård MJ, Kaafarani A, Kim HU, King Z, Klamt S, Klipp E, Koehorst JJ, König M, Lakshmanan M, Lee DY, Lee SY, Lee S, Lewis NE, Liu F, Ma H, Machado D, Mahadevan R, Maia P, Mardinoglu A, Medlock GL, Monk JM, Nielsen J, Nielsen LK, Nogales J, Nookaew I, Palsson BO, Papin JA, Patil KR, Poolman M, Price ND, Resendis-Antonio O, Richelle A, Rocha I, Sánchez BJ, Schaap PJ, Malik Sheriff RS, Shoaie S, Sonnenschein N, Teusink B, Vilaça P, Vik JO, Wodke JAH, Xavier JC, Yuan Q, Zakhartsev M, Zhang C. PMID: 32123384.
      View in: PubMed   Mentions: 11     Fields:    
    25. OxyR Is a Convergent Target for Mutations Acquired during Adaptation to Oxidative Stress-Prone Metabolic States. Mol Biol Evol. 2020 03 01; 37(3):660-667. Anand A, Chen K, Catoiu E, Sastry AV, Olson CA, Sandberg TE, Seif Y, Xu S, Szubin R, Yang L, Feist AM, Palsson BO. PMID: 31651953.
      View in: PubMed   Mentions: 2     Fields:    
    26. BiGG Models 2020: multi-strain genome-scale models and expansion across the phylogenetic tree. Nucleic Acids Res. 2020 01 08; 48(D1):D402-D406. Norsigian CJ, Pusarla N, McConn JL, Yurkovich JT, Dräger A, Palsson BO, King Z. PMID: 31696234.
      View in: PubMed   Mentions: 7     Fields:    
    27. Genome-scale reconstructions of the mammalian secretory pathway predict metabolic costs and limitations of protein secretion. Nat Commun. 2020 01 02; 11(1):68. Gutierrez JM, Feizi A, Li S, Kallehauge TB, Hefzi H, Grav LM, Ley D, Baycin Hizal D, Betenbaugh MJ, Voldborg B, Faustrup Kildegaard H, Min Lee G, Palsson BO, Nielsen J, Lewis NE. PMID: 31896772.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    28. Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection. PLoS Comput Biol. 2019 12; 15(12):e1007562. Yan J, Estanbouli H, Liao C, Kim W, Monk JM, Rahman R, Kamboj M, Palsson BO, Qiu W, Xavier JB. PMID: 31860667.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    29. A workflow for generating multi-strain genome-scale metabolic models of prokaryotes. Nat Protoc. 2020 01; 15(1):1-14. Norsigian CJ, Fang X, Seif Y, Monk JM, Palsson BO. PMID: 31863076.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    30. Profiling the effect of nafcillin on HA-MRSA D712 using bacteriological and physiological media. Sci Data. 2019 12 17; 6(1):322. Rajput A, Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Lamsa A, Seif Y, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Knight R, Nizet V, Palsson BO, Feist AM, Pogliano J. PMID: 31848353.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    31. Genome-scale model of metabolism and gene expression provides a multi-scale description of acid stress responses in Escherichia coli. PLoS Comput Biol. 2019 12; 15(12):e1007525. Du B, Yang L, Lloyd CJ, Fang X, Palsson BO. PMID: 31809503.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    32. The Escherichia coli transcriptome mostly consists of independently regulated modules. Nat Commun. 2019 12 04; 10(1):5536. Sastry AV, Gao Y, Szubin R, Hefner Y, Xu S, Kim D, Choudhary KS, Yang L, King ZA, Palsson BO. PMID: 31797920.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    33. Adaptive evolution reveals a tradeoff between growth rate and oxidative stress during naphthoquinone-based aerobic respiration. Proc Natl Acad Sci U S A. 2019 12 10; 116(50):25287-25292. Anand A, Chen K, Yang L, Sastry AV, Olson CA, Poudel S, Seif Y, Hefner Y, Phaneuf PV, Xu S, Szubin R, Feist AM, Palsson BO. PMID: 31767748.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    34. High-quality genome-scale metabolic modelling of Pseudomonas putida highlights its broad metabolic capabilities. Environ Microbiol. 2020 01; 22(1):255-269. Nogales J, Mueller J, Gudmundsson S, Canalejo FJ, Duque E, Monk J, Feist AM, Ramos JL, Niu W, Palsson BO. PMID: 31657101.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    35. Expanding the uses of genome-scale models with protein structures. Mol Syst Biol. 2019 11; 15(11):e8601. Mih N, Palsson BO. PMID: 31777175.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    36. Adaptive laboratory evolution of Escherichia coli under acid stress. Microbiology (Reading). 2020 02; 166(2):141-148. Du B, Olson CA, Sastry AV, Fang X, Phaneuf PV, Chen K, Wu M, Szubin R, Xu S, Gao Y, Hefner Y, Feist AM, Palsson BO. PMID: 31625833.
      View in: PubMed   Mentions:
    37. Strain-Specific Metabolic Requirements Revealed by a Defined Minimal Medium for Systems Analyses of Staphylococcus aureus. Appl Environ Microbiol. 2019 11 01; 85(21). Machado H, Weng LL, Dillon N, Seif Y, Holland M, Pekar JE, Monk JM, Nizet V, Palsson BO, Feist AM. PMID: 31471305.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    38. Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom. Nat Commun. 2019 10 07; 10(1):4552. Smith SR, Dupont CL, McCarthy JK, Broddrick JT, Oborník M, Horák A, Füssy Z, Cihlár J, Kleessen S, Zheng H, McCrow JP, Hixson KK, Araújo WL, Nunes-Nesi A, Fernie A, Nikoloski Z, Palsson BO, Allen AE. PMID: 31591397.
      View in: PubMed   Mentions: 10     Fields:    Translation:AnimalsCells
    39. The Transcription Unit Architecture of Streptomyces lividans TK24. Front Microbiol. 2019; 10:2074. Lee Y, Lee N, Jeong Y, Hwang S, Kim W, Cho S, Palsson BO, Cho BK. PMID: 31555254.
      View in: PubMed   Mentions:
    40. Systems Biology and Pangenome of Salmonella O-Antigens. mBio. 2019 08 27; 10(4). Seif Y, Monk JM, Machado H, Kavvas E, Palsson BO. PMID: 31455646.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    41. The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology. . 2019 12; 56:1-16. Sandberg TE, Salazar MJ, Weng LL, Palsson BO, Feist AM. PMID: 31401242.
      View in: PubMed   Mentions:
    42. Primary transcriptome and translatome analysis determines transcriptional and translational regulatory elements encoded in the Streptomyces clavuligerus genome. Nucleic Acids Res. 2019 07 09; 47(12):6114-6129. Hwang S, Lee N, Jeong Y, Lee Y, Kim W, Cho S, Palsson BO, Cho BK. PMID: 31131406.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    43. Cellular responses to reactive oxygen species are predicted from molecular mechanisms. Proc Natl Acad Sci U S A. 2019 07 09; 116(28):14368-14373. Yang L, Mih N, Anand A, Park JH, Tan J, Yurkovich JT, Monk JM, Lloyd CJ, Sandberg TE, Seo SW, Kim D, Sastry AV, Phaneuf P, Gao Y, Broddrick JT, Chen K, Heckmann D, Szubin R, Hefner Y, Feist AM, Palsson BO. PMID: 31270234.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    44. Laboratory evolution reveals a two-dimensional rate-yield tradeoff in microbial metabolism. PLoS Comput Biol. 2019 06; 15(6):e1007066. Cheng C, O'Brien EJ, McCloskey D, Utrilla J, Olson C, LaCroix RA, Sandberg TE, Feist AM, Palsson BO, King ZA. PMID: 31158228.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    45. A White-Box Machine Learning Approach for Revealing Antibiotic Mechanisms of Action. Cell. 2019 05 30; 177(6):1649-1661.e9. Yang JH, Wright SN, Hamblin M, McCloskey D, Alcantar MA, Schrübbers L, Lopatkin AJ, Satish S, Nili A, Palsson BO, Walker GC, Collins JJ. PMID: 31080069.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    46. Characterization of CA-MRSA TCH1516 exposed to nafcillin in bacteriological and physiological media. Sci Data. 2019 04 26; 6(1):43. Poudel S, Tsunemoto H, Meehan M, Szubin R, Olson CA, Lamsa A, Seif Y, Dillon N, Vrbanac A, Sugie J, Dahesh S, Monk JM, Dorrestein PC, Pogliano J, Knight R, Nizet V, Palsson BO, Feist AM. PMID: 31028276.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    47. BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data. PLoS Comput Biol. 2019 04; 15(4):e1006971. Lachance JC, Lloyd CJ, Monk JM, Yang L, Sastry AV, Seif Y, Palsson BO, Rodrigue S, Feist AM, King ZA, Jacques PÉ. PMID: 31009451.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    48. Enzyme promiscuity shapes adaptation to novel growth substrates. Mol Syst Biol. 2019 04 08; 15(4):e8462. Guzmán GI, Sandberg TE, LaCroix RA, Nyerges Á, Papp H, de Raad M, King ZA, Hefner Y, Northen TR, Notebaart RA, Pál C, Palsson BO, Papp B, Feist AM. PMID: 30962359.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    49. The y-ome defines the 35% of Escherichia coli genes that lack experimental evidence of function. Nucleic Acids Res. 2019 03 18; 47(5):2446-2454. Ghatak S, King ZA, Sastry A, Palsson BO. PMID: 30698741.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    50. Minimal cells, maximal knowledge. Elife. 2019 03 12; 8. Lachance JC, Rodrigue S, Palsson BO. PMID: 30860025.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    51. Coupling S-adenosylmethionine-dependent methylation to growth: Design and uses. PLoS Biol. 2019 03; 17(3):e2007050. Luo H, Hansen ASL, Yang L, Schneider K, Kristensen M, Christensen U, Christensen HB, Du B, Özdemir E, Feist AM, Keasling JD, Jensen MK, Herrgård MJ, Palsson BO. PMID: 30856169.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    52. Cross-compartment metabolic coupling enables flexible photoprotective mechanisms in the diatom Phaeodactylum tricornutum. . 2019 05; 222(3):1364-1379. Broddrick JT, Du N, Smith SR, Tsuji Y, Jallet D, Ware MA, Peers G, Matsuda Y, Dupont CL, Mitchell BG, Palsson BO, Allen AE. PMID: 30636322.
      View in: PubMed   Mentions:
    53. Pseudogene repair driven by selection pressure applied in experimental evolution. Nat Microbiol. 2019 03; 4(3):386-389. Anand A, Olson CA, Yang L, Sastry AV, Catoiu E, Choudhary KS, Phaneuf PV, Sandberg TE, Xu S, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30692668.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    54. A computational knowledge-base elucidates the response of Staphylococcus aureus to different media types. PLoS Comput Biol. 2019 01; 15(1):e1006644. Seif Y, Monk JM, Mih N, Tsunemoto H, Poudel S, Zuniga C, Broddrick J, Zengler K, Palsson BO. PMID: 30625152.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    55. DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression. BMC Syst Biol. 2019 01 09; 13(1):2. Yang L, Ebrahim A, Lloyd CJ, Saunders MA, Palsson BO. PMID: 30626386.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    56. ALEdb 1.0: a database of mutations from adaptive laboratory evolution experimentation. Nucleic Acids Res. 2019 01 08; 47(D1):D1164-D1171. Phaneuf PV, Gosting D, Palsson BO, Feist AM. PMID: 30357390.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    57. Reframing gene essentiality in terms of adaptive flexibility. BMC Syst Biol. 2018 12 17; 12(1):143. Guzmán GI, Olson CA, Hefner Y, Phaneuf PV, Catoiu E, Crepaldi LB, Micas LG, Palsson BO, Feist AM. PMID: 30558585.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    58. Modeling genome-wide enzyme evolution predicts strong epistasis underlying catalytic turnover rates. Nat Commun. 2018 12 10; 9(1):5270. Heckmann D, Zielinski DC, Palsson BO. PMID: 30532008.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    59. Machine learning applied to enzyme turnover numbers reveals protein structural correlates and improves metabolic models. Nat Commun. 2018 12 07; 9(1):5252. Heckmann D, Lloyd CJ, Mih N, Ha Y, Zielinski DC, Haiman ZB, Desouki AA, Lercher MJ, Palsson BO. PMID: 30531987.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    60. Systematic discovery of uncharacterized transcription factors in Escherichia coli K-12 MG1655. Nucleic Acids Res. 2018 11 16; 46(20):10682-10696. Gao Y, Yurkovich JT, Seo SW, Kabimoldayev I, Dräger A, Chen K, Sastry AV, Fang X, Mih N, Yang L, Eichner J, Cho BK, Kim D, Palsson BO. PMID: 30137486.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    61. Revealing Key Determinants of Clonal Variation in Transgene Expression in Recombinant CHO Cells Using Targeted Genome Editing. ACS Synth Biol. 2018 12 21; 7(12):2867-2878. Lee JS, Park JH, Ha TK, Samoudi M, Lewis NE, Palsson BO, Kildegaard HF, Lee GM. PMID: 30388888.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    62. Predicting the metabolic capabilities of Synechococcus elongatus PCC 7942 adapted to different light regimes. . 2019 03; 52:42-56. Broddrick JT, Welkie DG, Jallet D, Golden SS, Peers G, Palsson BO. PMID: 30439494.
      View in: PubMed   Mentions:
    63. Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient. Front Microbiol. 2018; 9:2559. Fang X, Monk JM, Nurk S, Akseshina M, Zhu Q, Gemmell C, Gianetto-Hill C, Leung N, Szubin R, Sanders J, Beck PL, Li W, Sandborn WJ, Gray-Owen SD, Knight R, Allen-Vercoe E, Palsson BO, Smarr L. PMID: 30425690.
      View in: PubMed   Mentions:
    64. Estimating Metabolic Equilibrium Constants: Progress and Future Challenges. Trends Biochem Sci. 2018 12; 43(12):960-969. Du B, Zielinski DC, Palsson BO. PMID: 30472988.
      View in: PubMed   Mentions: 2     Fields:    
    65. Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance. Nat Commun. 2018 10 17; 9(1):4306. Kavvas ES, Catoiu E, Mih N, Yurkovich JT, Seif Y, Dillon N, Heckmann D, Anand A, Yang L, Nizet V, Monk JM, Palsson BO. PMID: 30333483.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    66. Identification of growth-coupled production strains considering protein costs and kinetic variability. Metab Eng Commun. 2018 Dec; 7:e00080. Dinh HV, King ZA, Palsson BO, Feist AM. PMID: 30370222.
      View in: PubMed   Mentions:
    67. Thermodynamic favorability and pathway yield as evolutionary tradeoffs in biosynthetic pathway choice. Proc Natl Acad Sci U S A. 2018 10 30; 115(44):11339-11344. Du B, Zielinski DC, Monk JM, Palsson BO. PMID: 30309961.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    68. Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow. Proc Natl Acad Sci U S A. 2018 10 23; 115(43):11096-11101. Brunk E, Chang RL, Xia J, Hefzi H, Yurkovich JT, Kim D, Buckmiller E, Wang HH, Cho BK, Yang C, Palsson BO, Church GM, Lewis NE. PMID: 30301795.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    69. Escher-FBA: a web application for interactive flux balance analysis. BMC Syst Biol. 2018 09 26; 12(1):84. Rowe E, Palsson BO, King ZA. PMID: 30257674.
      View in: PubMed   Mentions: 5     Fields:    
    70. Evolution of gene knockout strains of E. coli reveal regulatory architectures governed by metabolism. Nat Commun. 2018 09 18; 9(1):3796. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30228271.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    71. Multiple Optimal Phenotypes Overcome Redox and Glycolytic Intermediate Metabolite Imbalances in Escherichia coli pgi Knockout Evolutions. Appl Environ Microbiol. 2018 10 01; 84(19). McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30054360.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    72. Genome-scale metabolic reconstructions of multiple Salmonella strains reveal serovar-specific metabolic traits. Nat Commun. 2018 09 14; 9(1):3771. Seif Y, Kavvas E, Lachance JC, Yurkovich JT, Nuccio SP, Fang X, Catoiu E, Raffatellu M, Palsson BO, Monk JM. PMID: 30218022.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    73. A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0. BMC Biol. 2018 08 16; 16(1):91. Santos-Zavaleta A, Sánchez-Pérez M, Salgado H, Velázquez-Ramírez DA, Gama-Castro S, Tierrafría VH, Busby SJW, Aquino P, Fang X, Palsson BO, Galagan JE, Collado-Vides J. PMID: 30115066.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    74. Network-level allosteric effects are elucidated by detailing how ligand-binding events modulate utilization of catalytic potentials. PLoS Comput Biol. 2018 08; 14(8):e1006356. Yurkovich JT, Alcantar MA, Haiman ZB, Palsson BO. PMID: 30086174.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    75. Growth Adaptation of gnd and sdhCB Escherichia coli Deletion Strains Diverges From a Similar Initial Perturbation of the Transcriptome. Front Microbiol. 2018; 9:1793. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 30131786.
      View in: PubMed   Mentions:
    76. COBRAme: A computational framework for genome-scale models of metabolism and gene expression. PLoS Comput Biol. 2018 07; 14(7):e1006302. Lloyd CJ, Ebrahim A, Yang L, King ZA, Catoiu E, O'Brien EJ, Liu JK, Palsson BO. PMID: 29975681.
      View in: PubMed   Mentions: 12     Fields:    
    77. Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the Phosphotransferase System. . 2018 07; 48:233-242. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 29906504.
      View in: PubMed   Mentions:
    78. ssbio: a Python framework for structural systems biology. Bioinformatics. 2018 06 15; 34(12):2155-2157. Mih N, Brunk E, Chen K, Catoiu E, Sastry A, Kavvas E, Monk JM, Zhang Z, Palsson BO. PMID: 29444205.
      View in: PubMed   Mentions: 8     Fields:    Translation:Cells
    79. Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa. BMC Syst Biol. 2018 06 11; 12(1):66. Fang X, Monk JM, Mih N, Du B, Sastry AV, Kavvas E, Seif Y, Smarr L, Palsson BO. PMID: 29890970.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    80. Temperature-Dependent Estimation of Gibbs Energies Using an Updated Group-Contribution Method. Biophys J. 2018 06 05; 114(11):2691-2702. Du B, Zhang Z, Grubner S, Yurkovich JT, Palsson BO, Zielinski DC. PMID: 29874618.
      View in: PubMed   Mentions: 4     Fields:    
    81. Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes. . 2018 07; 48:82-93. McCloskey D, Xu S, Sandberg TE, Brunk E, Hefner Y, Szubin R, Feist AM, Palsson BO. PMID: 29842925.
      View in: PubMed   Mentions:
    82. The Staphylococcus aureus Two-Component System AgrAC Displays Four Distinct Genomic Arrangements That Delineate Genomic Virulence Factor Signatures. Front Microbiol. 2018; 9:1082. Choudhary KS, Mih N, Monk J, Kavvas E, Yurkovich JT, Sakoulas G, Palsson BO. PMID: 29887846.
      View in: PubMed   Mentions:
    83. ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions. PLoS One. 2018; 13(5):e0197272. Latif H, Federowicz S, Ebrahim A, Tarasova J, Szubin R, Utrilla J, Zengler K, Palsson BO. PMID: 29771928.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    84. iCN718, an Updated and Improved Genome-Scale Metabolic Network Reconstruction of Acinetobacter baumannii AYE. Front Genet. 2018; 9:121. Norsigian CJ, Kavvas E, Seif Y, Palsson BO, Monk JM. PMID: 29692801.
      View in: PubMed   Mentions:
    85. Systems assessment of transcriptional regulation on central carbon metabolism by Cra and CRP. Nucleic Acids Res. 2018 04 06; 46(6):2901-2917. Kim D, Seo SW, Gao Y, Nam H, Guzman GI, Cho BK, Palsson BO. PMID: 29394395.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    86. Systems biology as an emerging paradigm in transfusion medicine. BMC Syst Biol. 2018 03 07; 12(1):31. Yurkovich JT, Bordbar A, Sigurjónsson ÓE, Palsson BO. PMID: 29514691.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    87. Updated and standardized genome-scale reconstruction of Mycobacterium tuberculosis H37Rv, iEK1011, simulates flux states indicative of physiological conditions. BMC Syst Biol. 2018 03 02; 12(1):25. Kavvas ES, Seif Y, Yurkovich JT, Norsigian C, Poudel S, Greenwald WW, Ghatak S, Palsson BO, Monk JM. PMID: 29499714.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    88. Recon3D enables a three-dimensional view of gene variation in human metabolism. Nat Biotechnol. 2018 03; 36(3):272-281. Brunk E, Sahoo S, Zielinski DC, Altunkaya A, Dräger A, Mih N, Gatto F, Nilsson A, Preciat Gonzalez GA, Aurich MK, Prlic A, Sastry A, Danielsdottir AD, Heinken A, Noronha A, Rose PW, Burley SK, Fleming RMT, Nielsen J, Thiele I, Palsson BO. PMID: 29457794.
      View in: PubMed   Mentions: 48     Fields:    Translation:Humans
    89. Quantitative -omic data empowers bottom-up systems biology. Curr Opin Biotechnol. 2018 06; 51:130-136. Yurkovich JT, Palsson BO. PMID: 29414439.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    90. Modeling the multi-scale mechanisms of macromolecular resource allocation. Curr Opin Microbiol. 2018 10; 45:8-15. Yang L, Yurkovich JT, King ZA, Palsson BO. PMID: 29367175.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    91. Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting. PLoS Comput Biol. 2018 01; 14(1):e1005895. Abdel-Haleem AM, Hefzi H, Mineta K, Gao X, Gojobori T, Palsson BO, Lewis NE, Jamshidi N. PMID: 29300748.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    92. Metabolic Models of Protein Allocation Call for the Kinetome. Cell Syst. 2017 12 27; 5(6):538-541. Nilsson A, Nielsen J, Palsson BO. PMID: 29284126.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimalsCells
    93. Topological and kinetic determinants of the modal matrices of dynamic models of metabolism. PLoS One. 2017; 12(12):e0189880. Du B, Zielinski DC, Palsson BO. PMID: 29267329.
      View in: PubMed   Mentions:    Fields:    
    94. Dissecting the genetic and metabolic mechanisms of adaptation to the knockout of a major metabolic enzyme in Escherichia coli. Proc Natl Acad Sci U S A. 2018 01 02; 115(1):222-227. Long CP, Gonzalez JE, Feist AM, Palsson BO, Antoniewicz MR. PMID: 29255023.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    95. Antibiotic-Induced Changes to the Host Metabolic Environment Inhibit Drug Efficacy and Alter Immune Function. . 2017 Dec 13; 22(6):757-765.e3. Yang JH, Bhargava P, McCloskey D, Mao N, Palsson BO, Collins JJ. PMID: 29199098.
      View in: PubMed   Mentions:
    96. Quantitative time-course metabolomics in human red blood cells reveal the temperature dependence of human metabolic networks. J Biol Chem. 2017 12 01; 292(48):19556-19564. Yurkovich JT, Zielinski DC, Yang L, Paglia G, Rolfsson O, Sigurjónsson ÓE, Broddrick JT, Bordbar A, Wichuk K, Brynjólfsson S, Palsson S, Gudmundsson S, Palsson BO. PMID: 29030425.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    97. iML1515, a knowledgebase that computes Escherichia coli traits. Nat Biotechnol. 2017 10 11; 35(10):904-908. Monk JM, Lloyd CJ, Brunk E, Mih N, Sastry A, King Z, Takeuchi R, Nomura W, Zhang Z, Mori H, Feist AM, Palsson BO. PMID: 29020004.
      View in: PubMed   Mentions: 51     Fields:    Translation:Cells
    98. Thermosensitivity of growth is determined by chaperone-mediated proteome reallocation. Proc Natl Acad Sci U S A. 2017 10 24; 114(43):11548-11553. Chen K, Gao Y, Mih N, O'Brien EJ, Yang L, Palsson BO. PMID: 29073085.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    99. A Padawan Programmer's Guide to Developing Software Libraries. Cell Syst. 2017 11 22; 5(5):431-437. Yurkovich JT, Yurkovich BJ, Dräger A, Palsson BO, King ZA. PMID: 28988801.
      View in: PubMed   Mentions: 2     Fields:    Translation:Humans
    100. Fast growth phenotype of E. coli K-12 from adaptive laboratory evolution does not require intracellular flux rewiring. . 2017 11; 44:100-107. Long CP, Gonzalez JE, Feist AM, Palsson BO, Antoniewicz MR. PMID: 28951266.
      View in: PubMed   Mentions:
    101. Global transcriptional regulatory network for Escherichia coli robustly connects gene expression to transcription factor activities. Proc Natl Acad Sci U S A. 2017 09 19; 114(38):10286-10291. Fang X, Sastry A, Mih N, Kim D, Tan J, Yurkovich JT, Lloyd CJ, Gao Y, Yang L, Palsson BO. PMID: 28874552.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    102. Machine learning in computational biology to accelerate high-throughput protein expression. Bioinformatics. 2017 Aug 15; 33(16):2487-2495. Sastry A, Monk J, Tegel H, Uhlen M, Palsson BO, Rockberg J, Brunk E. PMID: 28398465.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    103. Laboratory Evolution to Alternating Substrate Environments Yields Distinct Phenotypic and Genetic Adaptive Strategies. Appl Environ Microbiol. 2017 07 01; 83(13). Sandberg TE, Lloyd CJ, Palsson BO, Feist AM. PMID: 28455337.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    104. Revealing genome-scale transcriptional regulatory landscape of OmpR highlights its expanded regulatory roles under osmotic stress in Escherichia coli K-12 MG1655. Sci Rep. 2017 05 19; 7(1):2181. Seo SW, Gao Y, Kim D, Szubin R, Yang J, Cho BK, Palsson BO. PMID: 28526842.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    105. Elucidating dynamic metabolic physiology through network integration of quantitative time-course metabolomics. Sci Rep. 2017 04 07; 7:46249. Bordbar A, Yurkovich JT, Paglia G, Rolfsson O, Sigurjónsson ÓE, Palsson BO. PMID: 28387366.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansAnimalsCells
    106. A Model for Designing Adaptive Laboratory Evolution Experiments. Appl Environ Microbiol. 2017 04 15; 83(8). LaCroix RA, Palsson BO, Feist AM. PMID: 28159796.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    107. Biomarkers are used to predict quantitative metabolite concentration profiles in human red blood cells. PLoS Comput Biol. 2017 03; 13(3):e1005424. Yurkovich JT, Yang L, Palsson BO. PMID: 28264007.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    108. Integrated Regulatory and Metabolic Networks of the Marine Diatom Phaeodactylum tricornutum Predict the Response to Rising CO2 Levels. mSystems. 2017 Jan-Feb; 2(1). Levering J, Dupont CL, Allen AE, Palsson BO, Zengler K. PMID: 28217746.
      View in: PubMed   Mentions:
    109. Systems biology analysis of drivers underlying hallmarks of cancer cell metabolism. Sci Rep. 2017 01 25; 7:41241. Zielinski DC, Jamshidi N, Corbett AJ, Bordbar A, Thomas A, Palsson BO. PMID: 28120890.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansCells
    110. Reliable and efficient solution of genome-scale models of Metabolism and macromolecular Expression. Sci Rep. 2017 01 18; 7:40863. Ma D, Yang L, Fleming RM, Thiele I, Palsson BO, Saunders MA. PMID: 28098205.
      View in: PubMed   Mentions: 8     Fields:    
    111. Whole-Genome Sequencing of Invasion-Resistant Cells Identifies Laminin a2 as a Host Factor for Bacterial Invasion. mBio. 2017 01 10; 8(1). van Wijk XM, Döhrmann S, Hallström BM, Li S, Voldborg BG, Meng BX, McKee KK, van Kuppevelt TH, Yurchenco PD, Palsson BO, Lewis NE, Nizet V, Esko JD. PMID: 28074024.
      View in: PubMed   Mentions: 7     Fields:    Translation:AnimalsCells
    112. Literature mining supports a next-generation modeling approach to predict cellular byproduct secretion. . 2017 01; 39:220-227. King ZA, O'Brien EJ, Feist AM, Palsson BO. PMID: 27986597.
      View in: PubMed   Mentions:
    113. Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis. Proc Natl Acad Sci U S A. 2016 12 20; 113(51):E8344-E8353. Broddrick JT, Rubin BE, Welkie DG, Du N, Mih N, Diamond S, Lee JJ, Golden SS, Palsson BO. PMID: 27911809.
      View in: PubMed   Mentions: 27     Fields:    Translation:Cells
    114. A Consensus Genome-scale Reconstruction of Chinese Hamster Ovary Cell Metabolism. Cell Syst. 2016 11 23; 3(5):434-443.e8. Hefzi H, Ang KS, Hanscho M, Bordbar A, Ruckerbauer D, Lakshmanan M, Orellana CA, Baycin-Hizal D, Huang Y, Ley D, Martinez VS, Kyriakopoulos S, Jiménez NE, Zielinski DC, Quek LE, Wulff T, Arnsdorf J, Li S, Lee JS, Paglia G, Loira N, Spahn PN, Pedersen LE, Gutierrez JM, King ZA, Lund AM, Nagarajan H, Thomas A, Abdel-Haleem AM, Zanghellini J, Kildegaard HF, Voldborg BG, Gerdtzen ZP, Betenbaugh MJ, Palsson BO, Andersen MR, Nielsen LK, Borth N, Lee DY, Lewis NE. PMID: 27883890.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansAnimalsCells
    115. Principles of proteome allocation are revealed using proteomic data and genome-scale models. Sci Rep. 2016 11 18; 6:36734. Yang L, Yurkovich JT, Lloyd CJ, Ebrahim A, Saunders MA, Palsson BO. PMID: 27857205.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    116. Citrate metabolism in red blood cells stored in additive solution-3. Transfusion. 2017 02; 57(2):325-336. D'Alessandro A, Nemkov T, Yoshida T, Bordbar A, Palsson BO, Hansen KC. PMID: 27813142.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    117. The aldehyde dehydrogenase, AldA, is essential for L-1,2-propanediol utilization in laboratory-evolved Escherichia coli. Microbiol Res. 2017 Jan; 194:47-52. Aziz RK, Monk JM, Andrews KA, Nhan J, Khaw VL, Wong H, Palsson BO, Charusanti P. PMID: 27938862.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    118. Multi-omic data integration enables discovery of hidden biological regularities. Nat Commun. 2016 10 26; 7:13091. Ebrahim A, Brunk E, Tan J, O'Brien EJ, Kim D, Szubin R, Lerman JA, Lechner A, Sastry A, Bordbar A, Feist AM, Palsson BO. PMID: 27782110.
      View in: PubMed   Mentions: 29     Fields:    Translation:Cells
    119. solveME: fast and reliable solution of nonlinear ME models. BMC Bioinformatics. 2016 Sep 22; 17(1):391. Yang L, Ma D, Ebrahim A, Lloyd CJ, Saunders MA, Palsson BO. PMID: 27659412.
      View in: PubMed   Mentions: 9     Fields:    
    120. Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes. Cell Syst. 2016 09 28; 3(3):238-251.e12. Monk JM, Koza A, Campodonico MA, Machado D, Seoane JM, Palsson BO, Herrgård MJ, Feist AM. PMID: 27667363.
      View in: PubMed   Mentions: 21     Fields:    Translation:Cells
    121. Biomarkers defining the metabolic age of red blood cells during cold storage. Blood. 2016 09 29; 128(13):e43-50. Paglia G, D'Alessandro A, Rolfsson Ó, Sigurjónsson ÓE, Bordbar A, Palsson S, Nemkov T, Hansen KC, Gudmundsson S, Palsson BO. PMID: 27554084.
      View in: PubMed   Mentions: 30     Fields:    Translation:HumansCells
    122. Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking. Nat Biotechnol. 2016 08 09; 34(8):828-837. Wang M, Carver JJ, Phelan VV, Sanchez LM, Garg N, Peng Y, Nguyen DD, Watrous J, Kapono CA, Luzzatto-Knaan T, Porto C, Bouslimani A, Melnik AV, Meehan MJ, Liu WT, Crüsemann M, Boudreau PD, Esquenazi E, Sandoval-Calderón M, Kersten RD, Pace LA, Quinn RA, Duncan KR, Hsu CC, Floros DJ, Gavilan RG, Kleigrewe K, Northen T, Dutton RJ, Parrot D, Carlson EE, Aigle B, Michelsen CF, Jelsbak L, Sohlenkamp C, Pevzner P, Edlund A, McLean J, Piel J, Murphy BT, Gerwick L, Liaw CC, Yang YL, Humpf HU, Maansson M, Keyzers RA, Sims AC, Johnson AR, Sidebottom AM, Sedio BE, Klitgaard A, Larson CB, P CAB, Torres-Mendoza D, Gonzalez DJ, Silva DB, Marques LM, Demarque DP, Pociute E, O'Neill EC, Briand E, Helfrich EJN, Granatosky EA, Glukhov E, Ryffel F, Houson H, Mohimani H, Kharbush JJ, Zeng Y, Vorholt JA, Kurita KL, Charusanti P, McPhail KL, Nielsen KF, Vuong L, Elfeki M, Traxler MF, Engene N, Koyama N, Vining OB, Baric R, Silva RR, Mascuch SJ, Tomasi S, Jenkins S, Macherla V, Hoffman T, Agarwal V, Williams PG, Dai J, Neupane R, Gurr J, Rodríguez AMC, Lamsa A, Zhang C, Dorrestein K, Duggan BM, Almaliti J, Allard PM, Phapale P, Nothias LF, Alexandrov T, Litaudon M, Wolfender JL, Kyle JE, Metz TO, Peryea T, Nguyen DT, VanLeer D, Shinn P, Jadhav A, Müller R, Waters KM, Shi W, Liu X, Zhang L, Knight R, Jensen PR, Palsson BO, Pogliano K, Linington RG, Gutiérrez M, Lopes NP, Gerwick WH, Moore BS, Dorrestein PC, Bandeira N. PMID: 27504778.
      View in: PubMed   Mentions: 318     Fields:    
    123. Metabolic fate of adenine in red blood cells during storage in SAGM solution. Transfusion. 2016 Oct; 56(10):2538-2547. Paglia G, Sigurjónsson ÓE, Bordbar A, Rolfsson Ó, Magnusdottir M, Palsson S, Wichuk K, Gudmundsson S, Palsson BO. PMID: 27491795.
      View in: PubMed   Mentions: 8     Fields:    Translation:HumansCells
    124. A Multi-scale Computational Platform to Mechanistically Assess the Effect of Genetic Variation on Drug Responses in Human Erythrocyte Metabolism. PLoS Comput Biol. 2016 07; 12(7):e1005039. Mih N, Brunk E, Bordbar A, Palsson BO. PMID: 27467583.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    125. Quantification and Classification of E. coli Proteome Utilization and Unused Protein Costs across Environments. PLoS Comput Biol. 2016 06; 12(6):e1004998. O'Brien EJ, Utrilla J, Palsson BO. PMID: 27351952.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    126. Evaluation of rate law approximations in bottom-up kinetic models of metabolism. BMC Syst Biol. 2016 06 06; 10(1):40. Du B, Zielinski DC, Kavvas ES, Dräger A, Tan J, Zhang Z, Ruggiero KE, Arzumanyan GA, Palsson BO. PMID: 27266508.
      View in: PubMed   Mentions: 7     Fields:    
    127. What do cells actually want? Genome Biol. 2016 05 23; 17(1):110. Feist AM, Palsson BO. PMID: 27215675.
      View in: PubMed   Mentions: 4     Fields:    
    128. Characterizing Strain Variation in Engineered E. coli Using a Multi-Omics-Based Workflow. Cell Syst. 2016 05 25; 2(5):335-46. Brunk E, George KW, Alonso-Gutierrez J, Thompson M, Baidoo E, Wang G, Petzold CJ, McCloskey D, Monk J, Yang L, O'Brien EJ, Batth TS, Martin HG, Feist A, Adams PD, Keasling JD, Palsson BO, Lee TS. PMID: 27211860.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    129. Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom. PLoS One. 2016; 11(5):e0155038. Levering J, Broddrick J, Dupont CL, Peers G, Beeri K, Mayers J, Gallina AA, Allen AE, Palsson BO, Zengler K. PMID: 27152931.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    130. Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution. Cell Syst. 2016 04 27; 2(4):260-71. Utrilla J, O'Brien EJ, Chen K, McCloskey D, Cheung J, Wang H, Armenta-Medina D, Feist AM, Palsson BO. PMID: 27135538.
      View in: PubMed   Mentions: 22     Fields:    Translation:Cells
    131. Modeling Method for Increased Precision and Scope of Directly Measurable Fluxes at a Genome-Scale. Anal Chem. 2016 Apr 05; 88(7):3844-52. McCloskey D, Young JD, Xu S, Palsson BO, Feist AM. PMID: 26981784.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    132. Systems biology of the structural proteome. BMC Syst Biol. 2016 Mar 11; 10:26. Brunk E, Mih N, Monk J, Zhang Z, O'Brien EJ, Bliven SE, Chen K, Chang RL, Bourne PE, Palsson BO. PMID: 26969117.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    133. Evolution of E. coli on [U-13C]Glucose Reveals a Negligible Isotopic Influence on Metabolism and Physiology. PLoS One. 2016; 11(3):e0151130. Sandberg TE, Long CP, Gonzalez JE, Feist AM, Antoniewicz MR, Palsson BO. PMID: 26964043.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    134. Quantitative feature extraction from the Chinese hamster ovary bioprocess bibliome using a novel meta-analysis workflow. Biotechnol Adv. 2016 Sep-Oct; 34(5):621-633. Golabgir A, Gutierrez JM, Hefzi H, Li S, Palsson BO, Herwig C, Lewis NE. PMID: 26948029.
      View in: PubMed   Mentions: 6     Fields:    Translation:AnimalsCells
    135. Identified metabolic signature for assessing red blood cell unit quality is associated with endothelial damage markers and clinical outcomes. Transfusion. 2016 Apr; 56(4):852-62. Bordbar A, Johansson PI, Paglia G, Harrison SJ, Wichuk K, Magnusdottir M, Valgeirsdottir S, Gybel-Brask M, Ostrowski SR, Palsson S, Rolfsson O, Sigurjónsson OE, Hansen MB, Gudmundsson S, Palsson BO. PMID: 26749434.
      View in: PubMed   Mentions: 23     Fields:    Translation:HumansCells
    136. MID Max: LC-MS/MS Method for Measuring the Precursor and Product Mass Isotopomer Distributions of Metabolic Intermediates and Cofactors for Metabolic Flux Analysis Applications. Anal Chem. 2016 Jan 19; 88(2):1362-70. McCloskey D, Young JD, Xu S, Palsson BO, Feist AM. PMID: 26666286.
      View in: PubMed   Mentions: 9     Fields:    Translation:Cells
    137. Systems biology-guided identification of synthetic lethal gene pairs and its potential use to discover antibiotic combinations. Sci Rep. 2015 Nov 04; 5:16025. Aziz RK, Monk JM, Lewis RM, In Loh S, Mishra A, Abhay Nagle A, Satyanarayana C, Dhakshinamoorthy S, Luche M, Kitchen DB, Andrews KA, Fong NL, Li HJ, Palsson BO, Charusanti P. PMID: 26531810.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    138. Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics. Cell Syst. 2015 Oct 28; 1(4):283-92. Bordbar A, McCloskey D, Zielinski DC, Sonnenschein N, Jamshidi N, Palsson BO. PMID: 27136057.
      View in: PubMed   Mentions: 26     Fields:    
    139. BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. Nucleic Acids Res. 2016 Jan 04; 44(D1):D515-22. King ZA, Lu J, Dräger A, Miller P, Federowicz S, Lerman JA, Ebrahim A, Palsson BO, Lewis NE. PMID: 26476456.
      View in: PubMed   Mentions: 135     Fields:    
    140. Do genome-scale models need exact solvers or clearer standards? Mol Syst Biol. 2015 Oct 14; 11(10):831. Ebrahim A, Almaas E, Bauer E, Bordbar A, Burgard AP, Chang RL, Dräger A, Famili I, Feist AM, Fleming RM, Fong SS, Hatzimanikatis V, Herrgård MJ, Holder A, Hucka M, Hyduke D, Jamshidi N, Lee SY, Le Novère N, Lerman JA, Lewis NE, Ma D, Mahadevan R, Maranas C, Nagarajan H, Navid A, Nielsen J, Nielsen LK, Nogales J, Noronha A, Pal C, Palsson BO, Papin JA, Patil KR, Price ND, Reed JL, Saunders M, Senger RS, Sonnenschein N, Sun Y, Thiele I. PMID: 26467284.
      View in: PubMed   Mentions: 11     Fields:    
    141. SBMLsqueezer 2: context-sensitive creation of kinetic equations in biochemical networks. BMC Syst Biol. 2015 Oct 09; 9:68. Dräger A, Zielinski DC, Keller R, Rall M, Eichner J, Palsson BO, Zell A. PMID: 26452770.
      View in: PubMed   Mentions: 4     Fields:    
    142. Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. PLoS Comput Biol. 2015 Aug; 11(8):e1004321. King ZA, Dräger A, Ebrahim A, Sonnenschein N, Lewis NE, Palsson BO. PMID: 26313928.
      View in: PubMed   Mentions: 51     Fields:    Translation:Cells
    143. Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655. Cell Rep. 2015 Aug 25; 12(8):1289-99. Seo SW, Kim D, Szubin R, Palsson BO. PMID: 26279566.
      View in: PubMed   Mentions: 34     Fields:    Translation:Cells
    144. Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli. Nat Commun. 2015 Aug 10; 6:7970. Seo SW, Kim D, O'Brien EJ, Szubin R, Palsson BO. PMID: 26258987.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    145. Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data. Proc Natl Acad Sci U S A. 2015 Aug 25; 112(34):10810-5. Yang L, Tan J, O'Brien EJ, Monk JM, Kim D, Li HJ, Charusanti P, Ebrahim A, Lloyd CJ, Yurkovich JT, Du B, Dräger A, Thomas A, Sun Y, Saunders MA, Palsson BO. PMID: 26261351.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    146. Pharmacogenomic and clinical data link non-pharmacokinetic metabolic dysregulation to drug side effect pathogenesis. Nat Commun. 2015 Jun 09; 6:7101. Zielinski DC, Filipp FV, Bordbar A, Jensen K, Smith JW, Herrgard MJ, Mo ML, Palsson BO. PMID: 26055627.
      View in: PubMed   Mentions: 11     Fields:    Translation:Humans
    147. A streamlined ribosome profiling protocol for the characterization of microorganisms. Biotechniques. 2015 Jun; 58(6):329-32. Latif H, Szubin R, Tan J, Brunk E, Lechner A, Zengler K, Palsson BO. PMID: 26054770.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    148. Using Genome-scale Models to Predict Biological Capabilities. Cell. 2015 May 21; 161(5):971-987. O'Brien EJ, Monk JM, Palsson BO. PMID: 26000478.
      View in: PubMed   Mentions: 114     Fields:    Translation:HumansAnimalsCells
    149. Decoding the jargon of bottom-up metabolic systems biology. Bioessays. 2015 Jun; 37(6):588-91. Rolfsson Ó, Palsson BO. PMID: 25761171.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    150. Multidimensional analytical approach based on UHPLC-UV-ion mobility-MS for the screening of natural pigments. Anal Chem. 2015 Mar 03; 87(5):2593-9. Pacini T, Fu W, Gudmundsson S, Chiaravalle AE, Brynjolfson S, Palsson BO, Astarita G, Paglia G. PMID: 25647265.
      View in: PubMed   Mentions: 8     Fields:    
    151. Computing the functional proteome: recent progress and future prospects for genome-scale models. Curr Opin Biotechnol. 2015 Aug; 34:125-34. O'Brien EJ, Palsson BO. PMID: 25576845.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimals
    152. Next-generation genome-scale models for metabolic engineering. Curr Opin Biotechnol. 2015 Dec; 35:23-9. King ZA, Lloyd CJ, Feist AM, Palsson BO. PMID: 25575024.
      View in: PubMed   Mentions: 31     Fields:    Translation:Humans
    153. Model-driven discovery of underground metabolic functions in Escherichia coli. Proc Natl Acad Sci U S A. 2015 Jan 20; 112(3):929-34. Guzmán GI, Utrilla J, Nurk S, Brunk E, Monk JM, Ebrahim A, Palsson BO, Feist AM. PMID: 25564669.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    154. Ion mobility-derived collision cross section as an additional measure for lipid fingerprinting and identification. Anal Chem. 2015 Jan 20; 87(2):1137-44. Paglia G, Angel P, Williams JP, Richardson K, Olivos HJ, Thompson JW, Menikarachchi L, Lai S, Walsh C, Moseley A, Plumb RS, Grant DF, Palsson BO, Langridge J, Geromanos S, Astarita G. PMID: 25495617.
      View in: PubMed   Mentions: 40     Fields:    Translation:Humans
    155. Use of adaptive laboratory evolution to discover key mutations enabling rapid growth of Escherichia coli K-12 MG1655 on glucose minimal medium. Appl Environ Microbiol. 2015 Jan; 81(1):17-30. LaCroix RA, Sandberg TE, O'Brien EJ, Utrilla J, Ebrahim A, Guzman GI, Szubin R, Palsson BO, Feist AM. PMID: 25304508.
      View in: PubMed   Mentions: 62     Fields:    Translation:Cells
    156. Reconstruction and modeling protein translocation and compartmentalization in Escherichia coli at the genome-scale. BMC Syst Biol. 2014 Sep 18; 8:110. Liu JK, O'Brien EJ, Lerman JA, Zengler K, Palsson BO, Feist AM. PMID: 25227965.
      View in: PubMed   Mentions: 28     Fields:    Translation:Cells
    157. A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks. PLoS Comput Biol. 2014 Sep; 10(9):e1003837. Nam H, Campodonico M, Bordbar A, Hyduke DR, Kim S, Zielinski DC, Palsson BO. PMID: 25232952.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansCells
    158. Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli. Nat Commun. 2014 Sep 15; 5:4910. Seo SW, Kim D, Latif H, O'Brien EJ, Szubin R, Palsson BO. PMID: 25222563.
      View in: PubMed   Mentions: 66     Fields:    Translation:Cells
    159. Metabolomic analysis of platelets during storage: a comparison between apheresis- and buffy coat-derived platelet concentrates. Transfusion. 2015 Feb; 55(2):301-13. Paglia G, Sigurjónsson ÓE, Rolfsson Ó, Hansen MB, Brynjólfsson S, Gudmundsson S, Palsson BO. PMID: 25156572.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    160. Generation of an atlas for commodity chemical production in Escherichia coli and a novel pathway prediction algorithm, GEM-Path. . 2014 Sep; 25:140-58. Campodonico MA, Andrews BA, Asenjo JA, Palsson BO, Feist AM. PMID: 25080239.
      View in: PubMed   Mentions:
    161. Evolution of Escherichia coli to 42 °C and subsequent genetic engineering reveals adaptive mechanisms and novel mutations. Mol Biol Evol. 2014 Oct; 31(10):2647-62. Sandberg TE, Pedersen M, LaCroix RA, Ebrahim A, Bonde M, Herrgard MJ, Palsson BO, Sommer M, Feist AM. PMID: 25015645.
      View in: PubMed   Mentions: 49     Fields:    Translation:Cells
    162. Minimal metabolic pathway structure is consistent with associated biomolecular interactions. Mol Syst Biol. 2014 Jul 01; 10:737. Bordbar A, Nagarajan H, Lewis NE, Latif H, Ebrahim A, Federowicz S, Schellenberger J, Palsson BO. PMID: 24987116.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansCells
    163. Genetics. Predicting microbial growth. Science. 2014 Jun 27; 344(6191):1448-9. Monk J, Palsson BO. PMID: 24970063.
      View in: PubMed   Mentions: 14     Fields:    Translation:AnimalsCells
    164. Biochemical characterization of human gluconokinase and the proposed metabolic impact of gluconic acid as determined by constraint based metabolic network analysis. PLoS One. 2014; 9(6):e98760. Rohatgi N, Nielsen TK, Bjørn SP, Axelsson I, Paglia G, Voldborg BG, Palsson BO, Rolfsson Ó. PMID: 24896608.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    165. Comprehensive metabolomic study of platelets reveals the expression of discrete metabolic phenotypes during storage. Transfusion. 2014 Nov; 54(11):2911-23. Paglia G, Sigurjónsson ÓE, Rolfsson Ó, Valgeirsdottir S, Hansen MB, Brynjólfsson S, Gudmundsson S, Palsson BO. PMID: 24840017.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCellsCTClinical Trials
    166. Optimizing genome-scale network reconstructions. Nat Biotechnol. 2014 May; 32(5):447-52. Monk J, Nogales J, Palsson BO. PMID: 24811519.
      View in: PubMed   Mentions: 65     Fields:    Translation:AnimalsCells
    167. Ion mobility derived collision cross sections to support metabolomics applications. Anal Chem. 2014 Apr 15; 86(8):3985-93. Paglia G, Williams JP, Menikarachchi L, Thompson JW, Tyldesley-Worster R, Halldórsson S, Rolfsson O, Moseley A, Grant D, Langridge J, Palsson BO, Astarita G. PMID: 24640936.
      View in: PubMed   Mentions: 49     Fields:    Translation:HumansCells
    168. Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states. BMC Biol. 2014 Jan 24; 12:4. Cho BK, Kim D, Knight EM, Zengler K, Palsson BO. PMID: 24461193.
      View in: PubMed   Mentions: 38     Fields:    Translation:Cells
    169. Constraint-based models predict metabolic and associated cellular functions. Nat Rev Genet. 2014 Feb; 15(2):107-20. Bordbar A, Monk JM, King ZA, Palsson BO. PMID: 24430943.
      View in: PubMed   Mentions: 198     Fields:    Translation:Cells
    170. Capsule deletion via a λ-Red knockout system perturbs biofilm formation and fimbriae expression in Klebsiella pneumoniae MGH 78578. BMC Res Notes. 2014 Jan 08; 7:13. Huang TW, Lam I, Chang HY, Tsai SF, Palsson BO, Charusanti P. PMID: 24398052.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    171. Global metabolic network reorganization by adaptive mutations allows fast growth of Escherichia coli on glycerol. Nat Commun. 2014; 5:3233. Cheng KK, Lee BS, Masuda T, Ito T, Ikeda K, Hirayama A, Deng L, Dong J, Shimizu K, Soga T, Tomita M, Palsson BO, Robert M. PMID: 24481126.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    172. A model-driven quantitative metabolomics analysis of aerobic and anaerobic metabolism in E. coli K-12 MG1655 that is biochemically and thermodynamically consistent. Biotechnol Bioeng. 2014 Apr; 111(4):803-15. McCloskey D, Gangoiti JA, King ZA, Naviaux RK, Barshop BA, Palsson BO, Feist AM. PMID: 24249002.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    173. Antibacterial mechanisms identified through structural systems pharmacology. BMC Syst Biol. 2013 Oct 10; 7:102. Chang RL, Xie L, Bourne PE, Palsson BO. PMID: 24112686.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    174. The development of a fully-integrated immune response model (FIRM) simulator of the immune response through integration of multiple subset models. BMC Syst Biol. 2013 Sep 28; 7:95. Palsson S, Hickling TP, Bradshaw-Pierce EL, Zager M, Jooss K, O'Brien PJ, Spilker ME, Palsson BO, Vicini P. PMID: 24074340.
      View in: PubMed   Mentions: 23     Fields:    Translation:Cells
    175. COBRApy: COnstraints-Based Reconstruction and Analysis for Python. BMC Syst Biol. 2013 Aug 08; 7:74. Ebrahim A, Lerman JA, Palsson BO, Hyduke DR. PMID: 23927696.
      View in: PubMed   Mentions: 143     Fields:    
    176. Multispecific drug transporter Slc22a8 (Oat3) regulates multiple metabolic and signaling pathways. Drug Metab Dispos. 2013 Oct; 41(10):1825-34. Wu W, Jamshidi N, Eraly SA, Liu HC, Bush KT, Palsson BO, Nigam SK. PMID: 23920220.
      View in: PubMed   Mentions: 18     Fields:    Translation:AnimalsCells
    177. Genomic landscapes of Chinese hamster ovary cell lines as revealed by the Cricetulus griseus draft genome. Nat Biotechnol. 2013 Aug; 31(8):759-65. Lewis NE, Liu X, Li Y, Nagarajan H, Yerganian G, O'Brien E, Bordbar A, Roth AM, Rosenbloom J, Bian C, Xie M, Chen W, Li N, Baycin-Hizal D, Latif H, Forster J, Betenbaugh MJ, Famili I, Xu X, Wang J, Palsson BO. PMID: 23873082.
      View in: PubMed   Mentions: 52     Fields:    Translation:HumansAnimalsCells
    178. Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli. Science. 2013 Jun 07; 340(6137):1220-3. Chang RL, Andrews K, Kim D, Li Z, Godzik A, Palsson BO. PMID: 23744946.
      View in: PubMed   Mentions: 37     Fields:    Translation:Cells
    179. Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes. Mol Biosyst. 2013 Jun; 9(6):1522-34. Kim YM, Schmidt BJ, Kidwai AS, Jones MB, Deatherage Kaiser BL, Brewer HM, Mitchell HD, Palsson BO, McDermott JE, Heffron F, Smith RD, Peterson SN, Ansong C, Hyduke DR, Metz TO, Adkins JN. PMID: 23559334.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    180. Reconciling a Salmonella enterica metabolic model with experimental data confirms that overexpression of the glyoxylate shunt can rescue a lethal ppc deletion mutant. FEMS Microbiol Lett. 2013 May; 342(1):62-9. Fong NL, Lerman JA, Lam I, Palsson BO, Charusanti P. PMID: 23432746.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    181. Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks. Nat Commun. 2013; 4:1755. Qiu Y, Nagarajan H, Embree M, Shieu W, Abate E, Juárez K, Cho BK, Elkins JG, Nevin KP, Barrett CL, Lovley DR, Palsson BO, Zengler K. PMID: 23612296.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    182. Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling. Curr Top Microbiol Immunol. 2013; 363:21-41. Ansong C, Deatherage BL, Hyduke D, Schmidt B, McDermott JE, Jones MB, Chauhan S, Charusanti P, Kim YM, Nakayasu ES, Li J, Kidwai A, Niemann G, Brown RN, Metz TO, McAteer K, Heffron F, Peterson SN, Motin V, Palsson BO, Smith RD, Adkins JN. PMID: 22886542.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    183. Multiple-omic data analysis of Klebsiella pneumoniae MGH 78578 reveals its transcriptional architecture and regulatory features. BMC Genomics. 2012 Nov 29; 13:679. Seo JH, Hong JS, Kim D, Cho BK, Huang TW, Tsai SF, Palsson BO, Charusanti P. PMID: 23194155.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    184. Enhancement of carotenoid biosynthesis in the green microalga Dunaliella salina with light-emitting diodes and adaptive laboratory evolution. Appl Microbiol Biotechnol. 2013 Mar; 97(6):2395-403. Fu W, Guðmundsson O, Paglia G, Herjólfsson G, Andrésson OS, Palsson BO, Brynjólfsson S. PMID: 23095941.
      View in: PubMed   Mentions: 27     Fields:    Translation:Animals
    185. Proteomic analysis of Chinese hamster ovary cells. J Proteome Res. 2012 Nov 02; 11(11):5265-76. Baycin-Hizal D, Tabb DL, Chaerkady R, Chen L, Lewis NE, Nagarajan H, Sarkaria V, Kumar A, Wolozny D, Colao J, Jacobson E, Tian Y, O'Meally RN, Krag SS, Cole RN, Palsson BO, Zhang H, Betenbaugh M. PMID: 22971049.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    186. Multiscale modeling of metabolism and macromolecular synthesis in E. coli and its application to the evolution of codon usage. PLoS One. 2012; 7(9):e45635. Thiele I, Fleming RM, Que R, Bordbar A, Diep D, Palsson BO. PMID: 23029152.
      View in: PubMed   Mentions: 38     Fields:    Translation:Cells
    187. Network context and selection in the evolution to enzyme specificity. Science. 2012 Aug 31; 337(6098):1101-4. Nam H, Lewis NE, Lerman JA, Lee DH, Chang RL, Kim D, Palsson BO. PMID: 22936779.
      View in: PubMed   Mentions: 79     Fields:    Translation:Cells
    188. In silico method for modelling metabolism and gene product expression at genome scale. Nat Commun. 2012 Jul 03; 3:929. Lerman JA, Hyduke DR, Latif H, Portnoy VA, Lewis NE, Orth JD, Schrimpe-Rutledge AC, Smith RD, Adkins JN, Zengler K, Palsson BO. PMID: 22760628.
      View in: PubMed   Mentions: 76     Fields:    Translation:Cells
    189. Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation. Mol Syst Biol. 2012 Jun 26; 8:558. Bordbar A, Mo ML, Nakayasu ES, Schrimpe-Rutledge AC, Kim YM, Metz TO, Jones MB, Frank BC, Smith RD, Peterson SN, Hyduke DR, Adkins JN, Palsson BO. PMID: 22735334.
      View in: PubMed   Mentions: 51     Fields:    Translation:AnimalsCells
    190. Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions. BMC Syst Biol. 2012 May 01; 6:30. Orth JD, Palsson B. PMID: 22548736.
      View in: PubMed   Mentions: 25     Fields:    Translation:Cells
    191. A road map for the development of community systems (CoSy) biology. Nat Rev Microbiol. 2012 03 27; 10(5):366-72. Zengler K, Palsson BO. PMID: 22450377.
      View in: PubMed   Mentions: 49     Fields:    Translation:PHPublic Health
    192. Exploiting adaptive laboratory evolution of Streptomyces clavuligerus for antibiotic discovery and overproduction. PLoS One. 2012; 7(3):e33727. Charusanti P, Fong NL, Nagarajan H, Pereira AR, Li HJ, Abate EA, Su Y, Gerwick WH, Palsson BO. PMID: 22470465.
      View in: PubMed   Mentions: 19     Fields:    Translation:Cells
    193. Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat Rev Microbiol. 2012 Feb 27; 10(4):291-305. Lewis NE, Nagarajan H, Palsson BO. PMID: 22367118.
      View in: PubMed   Mentions: 235     Fields:    Translation:Cells
    194. Using the reconstructed genome-scale human metabolic network to study physiology and pathology. J Intern Med. 2012 Feb; 271(2):131-41. Bordbar A, Palsson BO. PMID: 22142339.
      View in: PubMed   Mentions: 32     Fields:    Translation:Humans
    195. Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis. Proc Natl Acad Sci U S A. 2012 Feb 14; 109(7):2678-83. Nogales J, Gudmundsson S, Knight EM, Palsson BO, Thiele I. PMID: 22308420.
      View in: PubMed   Mentions: 95     Fields:    Translation:Cells
    196. A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology. BMC Syst Biol. 2011 Oct 31; 5:180. Bordbar A, Feist AM, Usaite-Black R, Woodcock J, Palsson BO, Famili I. PMID: 22041191.
      View in: PubMed   Mentions: 69     Fields:    Translation:HumansCells
    197. An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92. BMC Syst Biol. 2011 Oct 13; 5:163. Charusanti P, Chauhan S, McAteer K, Lerman JA, Hyduke DR, Motin VL, Ansong C, Adkins JN, Palsson BO. PMID: 21995956.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    198. The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line. Nat Biotechnol. 2011 Jul 31; 29(8):735-41. Xu X, Nagarajan H, Lewis NE, Pan S, Cai Z, Liu X, Chen W, Xie M, Wang W, Hammond S, Andersen MR, Neff N, Passarelli B, Koh W, Fan HC, Wang J, Gui Y, Lee KH, Betenbaugh MJ, Quake SR, Famili I, Palsson BO, Wang J. PMID: 21804562.
      View in: PubMed   Mentions: 145     Fields:    Translation:AnimalsCells
    199. iAB-RBC-283: A proteomically derived knowledge-base of erythrocyte metabolism that can be used to simulate its physiological and patho-physiological states. BMC Syst Biol. 2011 Jul 12; 5:110. Bordbar A, Jamshidi N, Palsson BO. PMID: 21749716.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansCells
    200. Technologies and approaches to elucidate and model the virulence program of salmonella. Front Microbiol. 2011; 2:121. McDermott JE, Yoon H, Nakayasu ES, Metz TO, Hyduke DR, Kidwai AS, Palsson BO, Adkins JN, Heffron F. PMID: 21687430.
      View in: PubMed   Mentions:
    201. An experimentally validated genome-scale metabolic reconstruction of Klebsiella pneumoniae MGH 78578, iYL1228. J Bacteriol. 2011 Apr; 193(7):1710-7. Liao YC, Huang TW, Chen FC, Charusanti P, Hong JS, Chang HY, Tsai SF, Palsson BO, Hsiung CA. PMID: 21296962.
      View in: PubMed   Mentions: 36     Fields:    Translation:Cells
    202. A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2. BMC Syst Biol. 2011 Jan 18; 5:8. Thiele I, Hyduke DR, Steeb B, Fankam G, Allen DK, Bazzani S, Charusanti P, Chen FC, Fleming RM, Hsiung CA, De Keersmaecker SC, Liao YC, Marchal K, Mo ML, Özdemir E, Raghunathan A, Reed JL, Shin SI, Sigurbjörnsdóttir S, Steinmann J, Sudarsan S, Swainston N, Thijs IM, Zengler K, Palsson BO, Adkins JN, Bumann D. PMID: 21244678.
      View in: PubMed   Mentions: 58     Fields:    Translation:HumansCells
    203. A c-type cytochrome and a transcriptional regulator responsible for enhanced extracellular electron transfer in Geobacter sulfurreducens revealed by adaptive evolution. Environ Microbiol. 2011 Jan; 13(1):13-23. Tremblay PL, Summers ZM, Glaven RH, Nevin KP, Zengler K, Barrett CL, Qiu Y, Palsson BO, Lovley DR. PMID: 20636372.
      View in: PubMed   Mentions: 19     Fields:    Translation:CellsPHPublic Health
    204. Microbiology. Topping off a multiscale balancing act. Science. 2010 Nov 19; 330(6007):1058-9. Lerman J, Palsson BO. PMID: 21097927.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    205. Sensitive and accurate identification of protein-DNA binding events in ChIP-chip assays using higher order derivative analysis. Nucleic Acids Res. 2011 Mar; 39(5):1656-65. Barrett CL, Cho BK, Palsson BO. PMID: 21051353.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    206. The biomass objective function. Curr Opin Microbiol. 2010 Jun; 13(3):344-9. Feist AM, Palsson BO. PMID: 20430689.
      View in: PubMed   Mentions: 145     Fields:    Translation:AnimalsCells
    207. Using in silico models to simulate dual perturbation experiments: procedure development and interpretation of outcomes. BMC Syst Biol. 2009 Apr 30; 3:44. Jamshidi N, Palsson BO. PMID: 19405968.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    208. Gene expression profiling and the use of genome-scale in silico models of Escherichia coli for analysis: providing context for content. J Bacteriol. 2009 Jun; 191(11):3437-44. Lewis NE, Cho BK, Knight EM, Palsson BO. PMID: 19363119.
      View in: PubMed   Mentions: 24     Fields:    Translation:Cells
    209. Connecting extracellular metabolomic measurements to intracellular flux states in yeast. BMC Syst Biol. 2009 Mar 25; 3:37. Mo ML, Palsson BO, Herrgård MJ. PMID: 19321003.
      View in: PubMed   Mentions: 147     Fields:    Translation:AnimalsCells
    210. Genome-scale network analysis of imprinted human metabolic genes. Epigenetics. 2009 Jan; 4(1):43-6. Sigurdsson MI, Jamshidi N, Jonsson JJ, Palsson BO. PMID: 19218833.
      View in: PubMed   Mentions: 9     Fields:    Translation:Humans
    211. Context-specific metabolic networks are consistent with experiments. PLoS Comput Biol. 2008 May 16; 4(5):e1000082. Becker SA, Palsson BO. PMID: 18483554.
      View in: PubMed   Mentions: 177     Fields:    Translation:Cells
    212. Three factors underlying incorrect in silico predictions of essential metabolic genes. BMC Syst Biol. 2008 Feb 04; 2:14. Becker SA, Palsson BO. PMID: 18248675.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    213. Microbial regulatory and metabolic networks. Curr Opin Biotechnol. 2007 Aug; 18(4):360-4. Cho BK, Charusanti P, Herrgård MJ, Palsson BO. PMID: 17719767.
      View in: PubMed   Mentions: 9     Fields:    
    214. Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data. J Biol Chem. 2007 Sep 28; 282(39):28791-9. Oh YK, Palsson BO, Park SM, Schilling CH, Mahadevan R. PMID: 17573341.
      View in: PubMed   Mentions: 140     Fields:    Translation:Cells
    215. Crystal structure of a hyperactive Escherichia coli glycerol kinase mutant Gly230 --> Asp obtained using microfluidic crystallization devices. Biochemistry. 2007 May 15; 46(19):5722-31. Anderson MJ, DeLabarre B, Raghunathan A, Palsson BO, Brunger AT, Quake SR. PMID: 17441732.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    216. Systems analysis of energy metabolism elucidates the affected respiratory chain complex in Leigh's syndrome. Mol Genet Metab. 2007 May; 91(1):15-22. Vo TD, Paul Lee WN, Palsson BO. PMID: 17336115.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansCells
    217. In silico analysis of SNPs and other high-throughput data. Methods Mol Biol. 2007; 366:267-85. Jamshidi N, Vo TD, Palsson BO. PMID: 17568130.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    218. Toward whole cell modeling and simulation: comprehensive functional genomics through the constraint-based approach. Prog Drug Res. 2007; 64:265, 267-309. Joyce AR, Palsson BO. PMID: 17195479.
      View in: PubMed   Mentions: 16     Fields:    Translation:HumansAnimalsCells
    219. Isotopomer analysis of myocardial substrate metabolism: a systems biology approach. Biotechnol Bioeng. 2006 Dec 05; 95(5):972-83. Vo TD, Palsson BO. PMID: 16878330.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    220. Systems approach to refining genome annotation. Proc Natl Acad Sci U S A. 2006 Nov 14; 103(46):17480-4. Reed JL, Patel TR, Chen KH, Joyce AR, Applebee MK, Herring CD, Bui OT, Knight EM, Fong SS, Palsson BO. PMID: 17088549.
      View in: PubMed   Mentions: 127     Fields:    Translation:Cells
    221. Matrix formalism to describe functional states of transcriptional regulatory systems. PLoS Comput Biol. 2006 Aug 11; 2(8):e101. Gianchandani EP, Papin JA, Price ND, Joyce AR, Palsson BO. PMID: 16895435.
      View in: PubMed   Mentions: 38     Fields:    Translation:Cells
    222. Building the power house: recent advances in mitochondrial studies through proteomics and systems biology. . 2007 Jan; 292(1):C164-77. Vo TD, Palsson BO. PMID: 16885397.
      View in: PubMed   Mentions:
    223. Iterative reconstruction of transcriptional regulatory networks: an algorithmic approach. PLoS Comput Biol. 2006 May; 2(5):e52. Barrett CL, Palsson BO. PMID: 16710450.
      View in: PubMed   Mentions: 20     Fields:    Translation:Cells
    224. Network-level analysis of metabolic regulation in the human red blood cell using random sampling and singular value decomposition. BMC Bioinformatics. 2006 Mar 13; 7:132. Barrett CL, Price ND, Palsson BO. PMID: 16533395.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    225. Towards multidimensional genome annotation. Nat Rev Genet. 2006 Feb; 7(2):130-41. Reed JL, Famili I, Thiele I, Palsson BO. PMID: 16418748.
      View in: PubMed   Mentions: 134     Fields:    
    226. Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling. Appl Environ Microbiol. 2006 Feb; 72(2):1558-68. Mahadevan R, Bond DR, Butler JE, Esteve-Nuñez A, Coppi MV, Palsson BO, Schilling CH, Lovley DR. PMID: 16461711.
      View in: PubMed   Mentions: 77     Fields:    Translation:Cells
    227. PCR-based tandem epitope tagging system for Escherichia coli genome engineering. Biotechniques. 2006 Jan; 40(1):67-72. Cho BK, Knight EM, Palsson BO. PMID: 16454042.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    228. The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states. Proc Natl Acad Sci U S A. 2005 Dec 27; 102(52):19103-8. Barrett CL, Herring CD, Reed JL, Palsson BO. PMID: 16357206.
      View in: PubMed   Mentions: 34     Fields:    Translation:Cells
    229. Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. J Biol Chem. 2006 Mar 24; 281(12):8024-33. Fong SS, Nanchen A, Palsson BO, Sauer U. PMID: 16319065.
      View in: PubMed   Mentions: 77     Fields:    Translation:AnimalsCells
    230. In silico design and adaptive evolution of Escherichia coli for production of lactic acid. Biotechnol Bioeng. 2005 Sep 05; 91(5):643-8. Fong SS, Burgard AP, Herring CD, Knight EM, Blattner FR, Maranas CD, Palsson BO. PMID: 15962337.
      View in: PubMed   Mentions: 99     Fields:    Translation:Cells
    231. Reconstruction of cellular signalling networks and analysis of their properties. Nat Rev Mol Cell Biol. 2005 Feb; 6(2):99-111. Papin JA, Hunter T, Palsson BO, Subramaniam S. PMID: 15654321.
      View in: PubMed   Mentions: 141     Fields:    Translation:HumansAnimalsCells
    232. k-Cone analysis: determining all candidate values for kinetic parameters on a network scale. Biophys J. 2005 Mar; 88(3):1616-25. Famili I, Mahadevan R, Palsson BO. PMID: 15626710.
      View in: PubMed   Mentions: 26     Fields:    Translation:AnimalsCells
    233. Hierarchical thinking in network biology: the unbiased modularization of biochemical networks. Trends Biochem Sci. 2004 Dec; 29(12):641-7. Papin JA, Reed JL, Palsson BO. PMID: 15544950.
      View in: PubMed   Mentions: 62     Fields:    Translation:HumansAnimalsCells
    234. Properties of metabolic networks: structure versus function. Biophys J. 2005 Jan; 88(1):L07-9. Mahadevan R, Palsson BO. PMID: 15574705.
      View in: PubMed   Mentions: 23     Fields:    Translation:AnimalsCells
    235. Uniform sampling of steady-state flux spaces: means to design experiments and to interpret enzymopathies. Biophys J. 2004 Oct; 87(4):2172-86. Price ND, Schellenberger J, Palsson BO. PMID: 15454420.
      View in: PubMed   Mentions: 59     Fields:    Translation:HumansAnimalsCells
    236. The evolution of molecular biology into systems biology. Nat Biotechnol. 2004 Oct; 22(10):1249-52. Westerhoff HV, Palsson BO. PMID: 15470464.
      View in: PubMed   Mentions: 94     Fields:    
    237. Comparison of network-based pathway analysis methods. Trends Biotechnol. 2004 Aug; 22(8):400-5. Papin JA, Stelling J, Price ND, Klamt S, Schuster S, Palsson BO. PMID: 15283984.
      View in: PubMed   Mentions: 78     Fields:    Translation:HumansCells
    238. The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis. Biophys J. 2004 Jul; 87(1):37-46. Papin JA, Palsson BO. PMID: 15240442.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansCells
    239. Reconstruction and functional characterization of the human mitochondrial metabolic network based on proteomic and biochemical data. J Biol Chem. 2004 Sep 17; 279(38):39532-40. Vo TD, Greenberg HJ, Palsson BO. PMID: 15205464.
      View in: PubMed   Mentions: 49     Fields:    Translation:HumansCells
    240. Integrating high-throughput and computational data elucidates bacterial networks. Nature. 2004 May 06; 429(6987):92-6. Covert MW, Knight EM, Reed JL, Herrgard MJ, Palsson BO. PMID: 15129285.
      View in: PubMed   Mentions: 268     Fields:    Translation:Cells
    241. Topological analysis of mass-balanced signaling networks: a framework to obtain network properties including crosstalk. J Theor Biol. 2004 Mar 21; 227(2):283-97. Papin JA, Palsson BO. PMID: 14990392.
      View in: PubMed   Mentions: 31     Fields:    Translation:AnimalsCells
    242. In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium. OMICS. 2004; 8(1):25-41. Raghunathan A, Price ND, Galperin MY, Makarova KS, Purvine S, Picone AF, Cherny T, Xie T, Reilly TJ, Munson R, Tyler RE, Akerley BJ, Smith AL, Palsson BO, Kolker E. PMID: 15107235.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    243. Identifying constraints that govern cell behavior: a key to converting conceptual to computational models in biology? Biotechnol Bioeng. 2003 Dec 30; 84(7):763-72. Covert MW, Famili I, Palsson BO. PMID: 14708117.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    244. Network-based analysis of metabolic regulation in the human red blood cell. J Theor Biol. 2003 Nov 21; 225(2):185-94. Price ND, Reed JL, Papin JA, Wiback SJ, Palsson BO. PMID: 14575652.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansCells
    245. Saccharomyces cerevisiae phenotypes can be predicted by using constraint-based analysis of a genome-scale reconstructed metabolic network. Proc Natl Acad Sci U S A. 2003 Nov 11; 100(23):13134-9. Famili I, Forster J, Nielsen J, Palsson BO. PMID: 14578455.
      View in: PubMed   Mentions: 102     Fields:    Translation:AnimalsCells
    246. Systemic metabolic reactions are obtained by singular value decomposition of genome-scale stoichiometric matrices. J Theor Biol. 2003 Sep 07; 224(1):87-96. Famili I, Palsson BO. PMID: 12900206.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    247. An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR). Genome Biol. 2003; 4(9):R54. Reed JL, Vo TD, Schilling CH, Palsson BO. PMID: 12952533.
      View in: PubMed   Mentions: 336     Fields:    Translation:Cells
    248. Initial proteome analysis of model microorganism Haemophilus influenzae strain Rd KW20. J Bacteriol. 2003 Aug; 185(15):4593-602. Kolker E, Purvine S, Galperin MY, Stolyar S, Goodlett DR, Nesvizhskii AI, Keller A, Xie T, Eng JK, Yi E, Hood L, Picone AF, Cherny T, Tjaden BC, Siegel AF, Reilly TJ, Makarova KS, Palsson BO, Smith AL. PMID: 12867470.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansAnimalsCells
    249. The convex basis of the left null space of the stoichiometric matrix leads to the definition of metabolically meaningful pools. Biophys J. 2003 Jul; 85(1):16-26. Famili I, Palsson BO. PMID: 12829460.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    250. Development of network-based pathway definitions: the need to analyze real metabolic networks. Trends Biotechnol. 2003 May; 21(5):195-8. Palsson BO, Price ND, Papin JA. PMID: 12727379.
      View in: PubMed   Mentions: 12     Fields:    Translation:Cells
    251. Metabolic pathways in the post-genome era. Trends Biochem Sci. 2003 May; 28(5):250-8. Papin JA, Price ND, Wiback SJ, Fell DA, Palsson BO. PMID: 12765837.
      View in: PubMed   Mentions: 80     Fields:    
    252. Constraints-based models: regulation of gene expression reduces the steady-state solution space. J Theor Biol. 2003 Apr 07; 221(3):309-25. Covert MW, Palsson BO. PMID: 12642111.
      View in: PubMed   Mentions: 35     Fields:    Translation:AnimalsCells
    253. Genome-scale microbial in silico models: the constraints-based approach. Trends Biotechnol. 2003 Apr; 21(4):162-9. Price ND, Papin JA, Schilling CH, Palsson BO. PMID: 12679064.
      View in: PubMed   Mentions: 118     Fields:    Translation:HumansAnimalsCells
    254. Scalable method to determine mutations that occur during adaptive evolution of Escherichia coli. Biotechnol Lett. 2003 Mar; 25(5):435-41. Raghunathan A, Palsson BO. PMID: 12882568.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    255. Analysis of metabolic capabilities using singular value decomposition of extreme pathway matrices. Biophys J. 2003 Feb; 84(2 Pt 1):794-804. Price ND, Reed JL, Papin JA, Famili I, Palsson BO. PMID: 12547764.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    256. Large-scale evaluation of in silico gene deletions in Saccharomyces cerevisiae. OMICS. 2003; 7(2):193-202. Förster J, Famili I, Palsson BO, Nielsen J. PMID: 14506848.
      View in: PubMed   Mentions: 51     Fields:    Translation:Animals
    257. Quantitative analysis of Escherichia coli metabolic phenotypes within the context of phenotypic phase planes. J Mol Microbiol Biotechnol. 2003; 6(2):101-8. Ibarra RU, Fu P, Palsson BO, DiTonno JR, Edwards JS. PMID: 15044828.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    258. Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth. Nature. 2002 Nov 14; 420(6912):186-9. Ibarra RU, Edwards JS, Palsson BO. PMID: 12432395.
      View in: PubMed   Mentions: 266     Fields:    Translation:Cells
    259. Description and analysis of metabolic connectivity and dynamics in the human red blood cell. Biophys J. 2002 Aug; 83(2):646-62. Kauffman KJ, Pajerowski JD, Jamshidi N, Palsson BO, Edwards JS. PMID: 12124254.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansCells
    260. Extreme pathway analysis of human red blood cell metabolism. Biophys J. 2002 Aug; 83(2):808-18. Wiback SJ, Palsson BO. PMID: 12124266.
      View in: PubMed   Mentions: 35     Fields:    Translation:HumansCells
    261. Genome-scale metabolic model of Helicobacter pylori 26695. J Bacteriol. 2002 Aug; 184(16):4582-93. Schilling CH, Covert MW, Famili I, Church GM, Edwards JS, Palsson BO. PMID: 12142428.
      View in: PubMed   Mentions: 101     Fields:    Translation:Cells
    262. Characterization and efficacy of PKH26 as a probe to study the replication history of the human hematopoietic KG1a progenitor cell line. In Vitro Cell Dev Biol Anim. 2002 Feb; 38(2):90-6. Lee GM, Fong SS, Oh DJ, Francis K, Palsson BO. PMID: 11929001.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    263. Characterizing the metabolic phenotype: a phenotype phase plane analysis. Biotechnol Bioeng. 2002 Jan 05; 77(1):27-36. Edwards JS, Ramakrishna R, Palsson BO. PMID: 11745171.
      View in: PubMed   Mentions: 40     Fields:    Translation:Cells
    264. H. influenzae Consortium: integrative study of H. influenzae-human interactions. OMICS. 2002; 6(4):341-8. Kolker E, Purvine S, Picone A, Cherny T, Akerley BJ, Munson RS, Palsson BO, Daines DA, Smith AL. PMID: 12626093.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    265. Flux-balance analysis of mitochondrial energy metabolism: consequences of systemic stoichiometric constraints. . 2001 Mar; 280(3):R695-704. Ramakrishna R, Edwards JS, McCulloch A, Palsson BO. PMID: 11171647.
      View in: PubMed   Mentions:
    266. Metabolic modeling of microbial strains in silico. Trends Biochem Sci. 2001 Mar; 26(3):179-86. Covert MW, Schilling CH, Famili I, Edwards JS, Goryanin II, Selkov E, Palsson BO. PMID: 11246024.
      View in: PubMed   Mentions: 72     Fields:    
    267. Dynamic simulation of the human red blood cell metabolic network. Bioinformatics. 2001 Mar; 17(3):286-7. Jamshidi N, Edwards JS, Fahland T, Church GM, Palsson BO. PMID: 11294796.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansCells
    268. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nat Biotechnol. 2001 Feb; 19(2):125-30. Edwards JS, Ibarra RU, Palsson BO. PMID: 11175725.
      View in: PubMed   Mentions: 281     Fields:    Translation:Cells
    269. Multiple steady states in kinetic models of red cell metabolism. J Theor Biol. 2000 Nov 07; 207(1):125-7. Edwards JS, Palsson BO. PMID: 11027485.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    270. Robustness analysis of the Escherichia coli metabolic network. Biotechnol Prog. 2000 Nov-Dec; 16(6):927-39. Edwards JS, Palsson BO. PMID: 11101318.
      View in: PubMed   Mentions: 63     Fields:    Translation:Cells
    271. Metabolic flux balance analysis and the in silico analysis of Escherichia coli K-12 gene deletions. BMC Bioinformatics. 2000; 1:1. Edwards JS, Palsson BO. PMID: 11001586.
      View in: PubMed   Mentions: 74     Fields:    Translation:Cells
    272. Extension of osmolality-induced podia is observed from fluorescently labeled hematopoietic cell lines in hyperosmotic medium. Cytometry. 2000 Jun 01; 40(2):109-18. Oh DJ, Martinez AR, Lee GM, Francis K, Palsson BO. PMID: 10805930.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    273. Intercellular adhesion can be visualized using fluorescently labeled fibrosarcoma HT1080 cells cocultured with hematopoietic cell lines or CD34(+) enriched human mobilized peripheral blood cells. Cytometry. 2000 Jun 01; 40(2):119-25. Oh DJ, Martinez AR, Lee GM, Francis K, Palsson BO. PMID: 10805931.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    274. The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities. Proc Natl Acad Sci U S A. 2000 May 09; 97(10):5528-33. Edwards JS, Palsson BO. PMID: 10805808.
      View in: PubMed   Mentions: 239     Fields:    Translation:Cells
    275. Theory for the systemic definition of metabolic pathways and their use in interpreting metabolic function from a pathway-oriented perspective. J Theor Biol. 2000 Apr 07; 203(3):229-48. Schilling CH, Letscher D, Palsson BO. PMID: 10716907.
      View in: PubMed   Mentions: 143     Fields:    Translation:AnimalsCells
    276. Assessment of the metabolic capabilities of Haemophilus influenzae Rd through a genome-scale pathway analysis. J Theor Biol. 2000 Apr 07; 203(3):249-83. Schilling CH, Palsson BO. PMID: 10716908.
      View in: PubMed   Mentions: 58     Fields:    Translation:Cells
    277. In situ labeling of adherent cells with PKH26. In Vitro Cell Dev Biol Anim. 2000 Jan; 36(1):4-6. Lee GM, Fong S, Francis K, Oh DJ, Palsson BO. PMID: 10691033.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    278. Key adhesion molecules are present on long podia extended by hematopoietic cells. Cytometry. 1999 Nov 01; 37(3):171-7. Holloway W, Martinez AR, Oh DJ, Francis K, Ramakrishna R, Palsson BO. PMID: 10520196.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    279. Symmetry of initial cell divisions among primitive hematopoietic progenitors is independent of ontogenic age and regulatory molecules. Blood. 1999 Oct 15; 94(8):2595-604. Huang S, Law P, Francis K, Palsson BO, Ho AD. PMID: 10515863.
      View in: PubMed   Mentions: 24     Fields:    Translation:HumansCells
    280. Phototoxicity of the fluorescent membrane dyes PKH2 and PKH26 on the human hematopoietic KG1a progenitor cell line. Cytometry. 1999 Aug 01; 36(4):312-8. Oh DJ, Lee GM, Francis K, Palsson BO. PMID: 10404146.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    281. Systems properties of the Haemophilus influenzae Rd metabolic genotype. J Biol Chem. 1999 Jun 18; 274(25):17410-6. Edwards JS, Palsson BO. PMID: 10364169.
      View in: PubMed   Mentions: 89     Fields:    Translation:Cells
    282. Toward metabolic phenomics: analysis of genomic data using flux balances. Biotechnol Prog. 1999 May-Jun; 15(3):288-95. Schilling CH, Edwards JS, Palsson BO. PMID: 10356245.
      View in: PubMed   Mentions: 37     Fields:    Translation:Cells
    283. Metabolic pathway analysis: basic concepts and scientific applications in the post-genomic era. Biotechnol Prog. 1999 May-Jun; 15(3):296-303. Schilling CH, Schuster S, Palsson BO, Heinrich R. PMID: 10356246.
      View in: PubMed   Mentions: 62     Fields:    
    284. Two new pseudopod morphologies displayed by the human hematopoietic KG1a progenitor cell line and by primary human CD34(+) cells. Blood. 1998 Nov 15; 92(10):3616-23. Francis K, Ramakrishna R, Holloway W, Palsson BO. PMID: 9808555.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    285. Elemental balancing of biomass and medium composition enhances growth capacity in high-density Chlorella vulgaris cultures. Biotechnol Bioeng. 1998 Sep 05; 59(5):605-11. Mandalam RK, Palsson BO. PMID: 10099378.
      View in: PubMed   Mentions: 13     Fields:    Translation:AnimalsCells
    286. The underlying pathway structure of biochemical reaction networks. Proc Natl Acad Sci U S A. 1998 Apr 14; 95(8):4193-8. Schilling CH, Palsson BO. PMID: 9539712.
      View in: PubMed   Mentions: 33     Fields:    Translation:HumansCells
    287. How will bioinformatics influence metabolic engineering? Biotechnol Bioeng. 1998 Apr 20-May 5; 58(2-3):162-9. Edwards JS, Palsson BO. PMID: 10191386.
      View in: PubMed   Mentions: 15     Fields:    
    288. Cell cycle dependence of retroviral transduction: An issue of overlapping time scales. Biotechnol Bioeng. 1998 Apr 20-May 5; 58(2-3):272-81. Andreadis S, Fuller AO, Palsson BO. PMID: 10191401.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    289. Effective intercellular communication distances are determined by the relative time constants for cyto/chemokine secretion and diffusion. Proc Natl Acad Sci U S A. 1997 Nov 11; 94(23):12258-62. Francis K, Palsson BO. PMID: 9356436.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansAnimals
    290. What lies beyond bioinformatics? Nat Biotechnol. 1997 Jan; 15(1):3-4. Palsson BO. PMID: 9035092.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    291. Kinetics of retrovirus mediated gene transfer: the importance of intracellular half-life of retroviruses. J Theor Biol. 1996 Sep 07; 182(1):1-20. Andreadis ST, Palsson BO. PMID: 8917734.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    292. Parametric sensitivity of stoichiometric flux balance models applied to wild-type Escherichia coli metabolism. Biotechnol Bioeng. 1995 Jan 05; 45(1):69-79. Varma A, Palsson BO. PMID: 18623053.
      View in: PubMed   Mentions: 15     Fields:    
    293. Replating of bioreactor expanded human bone marrow results in extended growth of primitive and mature cells. Cytotechnology. 1995 Jan; 18(1-2):125-31. Palsson BO, Oh DJ, Koller MR. PMID: 22358645.
      View in: PubMed   Mentions:    Fields:    
    294. Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110. Appl Environ Microbiol. 1994 Oct; 60(10):3724-31. Varma A, Palsson BO. PMID: 7986045.
      View in: PubMed   Mentions: 284     Fields:    Translation:Cells
    295. Frequent harvesting from perfused bone marrow cultures results in increased overall cell and progenitor expansion. Biotechnol Bioeng. 1994 Aug 20; 44(5):609-16. Oh DJ, Koller MR, Palsson BO. PMID: 18618796.
      View in: PubMed   Mentions: 1     Fields:    
    296. Preface: Tissue engineering and cell therapies: II. Biotechnol Bioeng. 1994 Apr 05; 43(8):683. Hubbell JA, Palsson BO, Papoutsakis ET. PMID: 18615791.
      View in: PubMed   Mentions: 1     Fields:    
    297. Microencapsulated human bone marrow cultures: a potential culture system for the clonal outgrowth of hematopoietic progenitor cells. Biotechnol Bioeng. 1994 Apr 05; 43(8):734-9. Levee MG, Lee GM, Paek SH, Palsson BO. PMID: 18615796.
      View in: PubMed   Mentions: 4     Fields:    
    298. Preface. Tissue engineering and cell therapies. Biotechnol Bioeng. 1994 Mar 25; 43(7):541. Hubbell JA, Palsson BO, Papoutsakis ET. PMID: 18615753.
      View in: PubMed   Mentions:    Fields:    
    299. Predictions for oxygen supply control to enhance population stability of engineered production strains. Biotechnol Bioeng. 1994 Feb 20; 43(4):275-85. Varma A, Palsson BO. PMID: 18615690.
      View in: PubMed   Mentions: 3     Fields:    
    300. Monoclonal antibody production using free-suspended and entrapped hybridoma cells. Biotechnol Genet Eng Rev. 1994; 12:509-33. Lee GM, Palsson BO. PMID: 7727036.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    301. Enhanced specific antibody productivity of calcium alginate-entrapped hybridoma is cell line-specific. Cytotechnology. 1994; 16(1):1-15. Lee GM, Kim SJ, Palsson BO. PMID: 7765785.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    302. Metabolic capabilities of Escherichia coli: I. synthesis of biosynthetic precursors and cofactors. J Theor Biol. 1993 Dec 21; 165(4):477-502. Varma A, Palsson BO. PMID: 21322280.
      View in: PubMed   Mentions: 62     Fields:    Translation:Cells
    303. Stability of antibody productivity is improved when hybridoma cells are entrapped in calcium alginate beads. Biotechnol Bioeng. 1993 Nov 05; 42(9):1131-5. Lee GM, Palsson BO. PMID: 18613244.
      View in: PubMed   Mentions: 2     Fields:    
    304. Review: tissue engineering: reconstitution of human hematopoiesis ex vivo. Biotechnol Bioeng. 1993 Oct; 42(8):909-30. Koller MR, Palsson BO. PMID: 18613140.
      View in: PubMed   Mentions: 8     Fields:    
    305. Stoichiometric interpretation of Escherichia coli glucose catabolism under various oxygenation rates. Appl Environ Microbiol. 1993 Aug; 59(8):2465-73. Varma A, Boesch BW, Palsson BO. PMID: 8368835.
      View in: PubMed   Mentions: 71     Fields:    Translation:Cells
    306. Loss of antibody productivity is highly reproducible in multiple hybridoma subclones. Biotechnol Bioeng. 1993 Jun 20; 42(2):247-50. Merritt SE, Palsson BO. PMID: 18612986.
      View in: PubMed   Mentions: 1     Fields:    
    307. Biochemical production capabilities of Escherichia coli. Biotechnol Bioeng. 1993 Jun 05; 42(1):59-73. Varma A, Boesch BW, Palsson BO. PMID: 18609648.
      View in: PubMed   Mentions: 33     Fields:    
    308. Simultaneous enzymatic/electrochemical determination of glucose and L-glutamine in hybridoma media by flow-injection analysis. Biotechnol Bioeng. 1993 Apr 25; 41(10):964-9. Meyerhoff ME, Trojanowicz M, Palsson BO. PMID: 18601278.
      View in: PubMed   Mentions: 1     Fields:    
    309. Model complexity has a significant effect on the numerical value and interpretation of metabolic sensitivity coefficients. J Theor Biol. 1993 Apr 07; 161(3):299-315. Palsson BO, Lee ID. PMID: 8331956.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    310. Expansion of human bone marrow progenitor cells in a high cell density continuous perfusion system. Biotechnology (N Y). 1993 Mar; 11(3):368-72. Palsson BO, Paek SH, Schwartz RM, Palsson M, Lee GM, Silver S, Emerson SG. PMID: 7763438.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    311. Cell Culture conditions determine the enhancement of specific monoclonal antibody productivity of calcium alginate-entrapped S3H5/gamma2bA2 hybridoma cells. Biotechnol Bioeng. 1993 Feb 05; 41(3):330-40. Lee GM, Chuck AS, Palsson BO. PMID: 18609557.
      View in: PubMed   Mentions: 9     Fields:    
    312. A Macintosh software package for simulation of human red blood cell metabolism. Comput Methods Programs Biomed. 1992 Aug; 38(4):195-226. Lee ID, Palsson BO. PMID: 1473341.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    313. Replication of mini-F plasmids during the bacterial division cycle. Res Microbiol. 1992 Jul-Aug; 143(6):541-8. Keasling JD, Palsson BO, Cooper S. PMID: 1475515.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    314. Replication of prophage P1 is cell-cycle specific. J Bacteriol. 1992 Jul; 174(13):4457-62. Keasling JD, Palsson BO, Cooper S. PMID: 1624438.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    315. Optimal selection of metabolic fluxes for in vivo measurement. I. Development of mathematical methods. J Theor Biol. 1992 Mar 21; 155(2):201-14. Savinell JM, Palsson BO. PMID: 1453697.
      View in: PubMed   Mentions: 16     Fields:    Translation:Animals
    316. Optimal selection of metabolic fluxes for in vivo measurement. II. Application to Escherichia coli and hybridoma cell metabolism. J Theor Biol. 1992 Mar 21; 155(2):215-42. Savinell JM, Palsson BO. PMID: 1453698.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    317. Continuous photoautotrophic cultures of the eukaryotic alga Chlorella vulgaris can exhibit stable oscillatory dynamics. Biotechnol Bioeng. 1992 Mar 05; 39(5):487-97. Javanmardian M, Palsson BO. PMID: 18600974.
      View in: PubMed   Mentions: 1     Fields:    
    318. Network analysis of intermediary metabolism using linear optimization. I. Development of mathematical formalism. J Theor Biol. 1992 Feb 21; 154(4):421-54. Savinell JM, Palsson BO. PMID: 1593896.
      View in: PubMed   Mentions: 45     Fields:    Translation:AnimalsCells
    319. Network analysis of intermediary metabolism using linear optimization. II. Interpretation of hybridoma cell metabolism. J Theor Biol. 1992 Feb 21; 154(4):455-73. Savinell JM, Palsson BO. PMID: 1593897.
      View in: PubMed   Mentions: 17     Fields:    Translation:AnimalsCells
    320. Effects of ammonia and lactate on hybridoma growth, metabolism, and antibody production. Biotechnol Bioeng. 1992 Feb 20; 39(4):418-31. Ozturk SS, Riley MR, Palsson BO. PMID: 18600963.
      View in: PubMed   Mentions: 44     Fields:    
    321. Population balance between producing and nonproducing hybridoma clones is very sensitive to serum level, state of inoculum, and medium composition. Biotechnol Bioeng. 1992 Feb 05; 39(3):354-60. Chuck AS, Palsson BO. PMID: 18600953.
      View in: PubMed   Mentions: 5     Fields:    
    322. Replication of the R6K plasmid during the Escherichia coli cell cycle. J Bacteriol. 1992 Feb; 174(3):1060-2. Keasling JD, Palsson BO, Cooper S. PMID: 1732198.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    323. High-density photoautotrophic algal cultures: design, construction, and operation of a novel photobioreactor system. Biotechnol Bioeng. 1991 Dec 05; 38(10):1182-9. Javanmardian M, Palsson BO. PMID: 18600714.
      View in: PubMed   Mentions: 5     Fields:    
    324. Growth, metabolic, and antibody production kinetics of hybridoma cell culture: 2. Effects of serum concentration, dissolved oxygen concentration, and medium pH in a batch reactor. Biotechnol Prog. 1991 Nov-Dec; 7(6):481-94. Ozturk SS, Palsson BO. PMID: 1367750.
      View in: PubMed   Mentions: 22     Fields:    Translation:AnimalsCells
    325. Growth, metabolic, and antibody production kinetics of hybridoma cell culture: 1. Analysis of data from controlled batch reactors. Biotechnol Prog. 1991 Nov-Dec; 7(6):471-80. Ozturk SS, Palsson BO. PMID: 1367749.
      View in: PubMed   Mentions: 9     Fields:    Translation:AnimalsCells
    326. Production of monoclonal antibody using free-suspended and immobilized hybridoma cells: Effect of serum. Biotechnol Bioeng. 1991 Oct 20; 38(8):821-30. Lee GM, Varma A, Palsson BO. PMID: 18600839.
      View in: PubMed   Mentions: 10     Fields:    
    327. Culture perfusion schedules influence the metabolic activity and granulocyte-macrophage colony-stimulating factor production rates of human bone marrow stromal cells. J Cell Physiol. 1991 May; 147(2):344-53. Caldwell J, Palsson BO, Locey B, Emerson SG. PMID: 2040665.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    328. Effect of medium osmolarity on hybridoma growth, metabolism, and antibody production. Biotechnol Bioeng. 1991 Apr 25; 37(10):989-93. Ozturk SS, Palsson BO. PMID: 18597326.
      View in: PubMed   Mentions: 32     Fields:    
    329. Cell-cycle-specific F plasmid replication: regulation by cell size control of initiation. J Bacteriol. 1991 Apr; 173(8):2673-80. Keasling JD, Palsson BO, Cooper S. PMID: 2013579.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    330. Physiological changes during the adaptation of hybridoma cells to low serum and serum-free media. Biotechnol Bioeng. 1991 Jan 05; 37(1):35-46. Ozturk SS, Palsson BO. PMID: 18597305.
      View in: PubMed   Mentions: 7     Fields:    
    331. Application of population balance model to the loss of hybridoma antibody productivity. Biotechnol Prog. 1991 Jan-Feb; 7(1):72-5. Lee GM, Varma A, Palsson BO. PMID: 1366981.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    332. Influence of medium exchange schedules on metabolic, growth, and GM-CSF secretion rates of genetically engineered NIH-3T3 cells. Biotechnol Prog. 1991 Jan-Feb; 7(1):1-8. Caldwell J, Locey B, Clarke MF, Emerson SG, Palsson BO. PMID: 1366977.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    333. Immobilization can improve the stability of hybridoma antibody productivity in serum-free media. Biotechnol Bioeng. 1990 Dec 05; 36(10):1049-55. Lee GM, Palsson BO. PMID: 18595043.
      View in: PubMed   Mentions: 8     Fields:    
    334. Effects of dissolved oxygen on hybridoma cell growth, metabolism, and antibody production kinetics in continuous culture. Biotechnol Prog. 1990 Nov-Dec; 6(6):437-46. Ozturk SS, Palsson BO. PMID: 1366834.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    335. Loss of antibody productivity during long-term cultivation of a hybridoma cell line in low serum and serum-free media. Hybridoma. 1990 Apr; 9(2):167-75. Ozturk SS, Palsson BO. PMID: 2347598.
      View in: PubMed   Mentions: 2     Fields:    Translation:AnimalsCells
    336. Metabolic dynamics in the human red cell. Part III--Metabolic reaction rates. J Theor Biol. 1990 Jan 09; 142(1):41-68. Joshi A, Palsson BO. PMID: 2141093.
      View in: PubMed   Mentions: 20     Fields:    Translation:HumansCells
    337. Metabolic dynamics in the human red cell. Part IV--Data prediction and some model computations. J Theor Biol. 1990 Jan 09; 142(1):69-85. Joshi A, Palsson BO. PMID: 2141094.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansCells
    338. The regulatory mechanisms of human immunodeficiency virus replication predict multiple expression rates. Proc Natl Acad Sci U S A. 1990 Jan; 87(2):772-6. Palsson BO, Keasling JD, Emerson SG. PMID: 2405389.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    339. A comprehensive model of human erythrocyte metabolism: extensions to include pH effects. Biomed Biochim Acta. 1990; 49(8-9):771-89. Lee ID, Palsson BO. PMID: 2082921.
      View in: PubMed   Mentions: 6     Fields:    Translation:HumansCells
    340. Metabolic dynamics in the human red cell. Part II--Interactions with the environment. J Theor Biol. 1989 Dec 19; 141(4):529-45. Joshi A, Palsson BO. PMID: 2630804.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    341. ColE1 plasmid replication: a simple kinetic description from a structured model. J Theor Biol. 1989 Dec 19; 141(4):447-61. Keasling JD, Palsson BO. PMID: 2483575.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    342. Metabolic dynamics in the human red cell. Part I--A comprehensive kinetic model. J Theor Biol. 1989 Dec 19; 141(4):515-28. Joshi A, Palsson BO. PMID: 2630803.
      View in: PubMed   Mentions: 33     Fields:    Translation:HumansCells
    343. Serum can act as a shear protecting agent in agitated hybridoma cell cultures. Hybridoma. 1989 Dec; 8(6):639-45. Lee GM, Savinell JM, Palsson BO. PMID: 2693339.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    344. Effect of serum concentration on hybridoma cell growth and monoclonal antibody production at various initial cell densities. Hybridoma. 1989 Jun; 8(3):369-75. Lee GM, Huard TK, Palsson BO. PMID: 2744789.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    345. On the kinetics of plasmid replication. J Theor Biol. 1989 Feb 22; 136(4):487-92. Keasling JD, Palsson BO. PMID: 2811403.
      View in: PubMed   Mentions: 3     Fields:    Translation:Cells
    346. Control of interspecies electron transfer flow during anaerobic digestion: dynamic diffusion reaction models for hydrogen gas transfer in microbial flocs. Biotechnol Bioeng. 1989 Feb 05; 33(6):745-57. Ozturk SS, Palsson BO, Thiele JH. PMID: 18587976.
      View in: PubMed   Mentions: 3     Fields:    
    347. Computer model of human erythrocyte metabolism. Prog Clin Biol Res. 1989; 319:133-50; discussion 151-4. Palsson BO, Narang A, Joshi A. PMID: 2695934.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    348. Mathematical modelling of dynamics and control in metabolic networks: VI. Dynamic bifurcations in single biochemical control loops. J Theor Biol. 1988 Mar 07; 131(1):43-53. Palsson BO, Groshans TM. PMID: 3419192.
      View in: PubMed   Mentions:    Fields:    
    349. Escherichia coil growth dynamics: A three-pool biochemically based description. Biotechnol Bioeng. 1988 Feb 05; 31(2):102-16. Joshi A, Palsson BO. PMID: 18581570.
      View in: PubMed   Mentions: 3     Fields:    
    350. Reducing complexity in metabolic networks: making metabolic meshes manageable. Fed Proc. 1987 Jun; 46(8):2485-9. Palsson BO, Joshi A, Ozturk SS. PMID: 3297796.
      View in: PubMed   Mentions: 11     Fields:    Translation:AnimalsCells
    351. On the dynamic order of structured Escherichia coli growth models. Biotechnol Bioeng. 1987 Apr; 29(6):789-92. Palsson BO, Joshi A. PMID: 18576521.
      View in: PubMed   Mentions: 4     Fields:    
    352. Mathematical modelling of dynamics and control in metabolic networks. IV. Local stability analysis of single biochemical control loops. J Theor Biol. 1985 Mar 21; 113(2):261-77. Palsson BO, Lightfoot EN. PMID: 3999778.
      View in: PubMed   Mentions: 3     Fields:    
    353. Mathematical modelling of dynamics and control in metabolic networks. III. Linear reaction sequences. J Theor Biol. 1985 Mar 21; 113(2):231-59. Palsson BO, Palsson H, Lightfoot EN. PMID: 3999777.
      View in: PubMed   Mentions: 2     Fields:    
    354. Mathematical modelling of dynamics and control in metabolic networks. V. Static bifurcations in single biochemical control loops. J Theor Biol. 1985 Mar 21; 113(2):279-98. Palsson BO, Lightfoot EN. PMID: 3999779.
      View in: PubMed   Mentions: 6     Fields:    
    355. Mathematical modelling of dynamics and control in metabolic networks. II. Simple dimeric enzymes. J Theor Biol. 1984 Nov 21; 111(2):303-21. Palsson BO, Jamier R, Lightfoot EN. PMID: 6513573.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    356. Mathematical modelling of dynamics and control in metabolic networks. I. On Michaelis-Menten kinetics. J Theor Biol. 1984 Nov 21; 111(2):273-302. Palsson BO, Lightfoot EN. PMID: 6513572.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    Bernhard's Networks
    Concepts (741)
    Derived automatically from this person's publications.
    _
    Co-Authors (63)
    People in Profiles who have published with this person.
    _
    Similar People (60)
    People who share similar concepts with this person.
    _
    Same Department
    Search Department
    _