Last Name

Intawat Nookaew

TitleAssociate Professor
InstitutionUniversity of Arkansas for Medical Sciences
DepartmentBiomedical Informatics, College of Medicine
Address501 Jack Stephens Drive
Mail Slot # 782
Little Rock AR 72205
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    Other Positions
    TitleAssociate Professor
    InstitutionUniversity of Arkansas for Medical Sciences
    DepartmentPhysiology and Biophysics, College of Medicine

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Thammarongtham C, Nookaew I, Vorapreeda T, Srisuk T, Land ML, Jeennor S, Laoteng K. Genome Characterization of Oleaginous Aspergillus oryzae BCC7051: A Potential Fungal-Based Platform for Lipid Production. Curr Microbiol. 2017 Sep 01. PMID: 28865010.
      View in: PubMed
    2. Alkam D, Wongsurawat T, Jenjaroenpun P, Connor S, Hobbs C, Wassenaar TM, Jun SR, Nookaew I, Ussery D. Three Complete Genome Sequences of Genotype G Mumps Virus from the 2016 Outbreak in Arkansas, USA. Genome Announc. 2017 Aug 10; 5(32). PMID: 28798162.
      View in: PubMed
    3. Jun SR, Nookaew I, Hauser L, Gorin A. Assessment of genome annotation using gene function similarity within the gene neighborhood. BMC Bioinformatics. 2017 Jul 19; 18(1):345. PMID: 28724412.
      View in: PubMed
    4. Khoomrung S, Wanichthanarak K, Nookaew I, Thamsermsang O, Seubnooch P, Laohapand T, Akarasereenont P. Metabolomics and Integrative Omics for the Development of Thai Traditional Medicine. Front Pharmacol. 2017; 8:474. PMID: 28769804.
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    5. Thorell K, Bengtsson-Palme J, Liu OH, Gonzales RVP, Nookaew I, Rabeneck L, Paszat L, Graham DY, Nielsen J, Lundin SB, Sjöling Å. In vivo analysis of the viable microbiota and Helicobacter pylori transcriptome in gastric infection and early stages of carcinogenesis. Infect Immun. 2017 Jul 10. PMID: 28694295.
      View in: PubMed
    6. Linda J. Larson-Prior, Gohar Azhar, David G. Davila, Se-Ran Jun, Aaron S. Kemp, Intawat Nookaew, Jeanne Y. Wei, Trudy M. Wassenaar. Neurobiology of Sleep and Microbiomics in Aging. OBM Neurobiology. 2017; 1(2):doi:10.21926/obm.neurobiol.170.
    7. Pedersen TL, Nookaew I, Wayne Ussery D, Månsson M. PanViz: interactive visualization of the structure of functionally annotated pangenomes. Bioinformatics. 2017 Apr 01; 33(7):1081-1082. PMID: 28057677.
      View in: PubMed
    8. Thankaswamy-Kosalai S, Sen P, Nookaew I. Evaluation and assessment of read-mapping by multiple next-generation sequencing aligners based on genome-wide characteristics. Genomics. 2017 Jul; 109(3-4):186-191. PMID: 28286147.
      View in: PubMed
    9. Hu G, Di Paola L, Pullara F, Liang Z, Nookaew I. Network Proteomics: From Protein Structure to Protein-Protein Interaction. Biomed Res Int. 2017; 2017:8929613. PMID: 28299335.
      View in: PubMed
    10. Zhang Q, Jun SR, Leuze M, Ussery D, Nookaew I. Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer. Sci Rep. 2017 Jan 19; 7:40712. PMID: 28102365.
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    11. Soni NK, Ross AB, Scheers N, Savolainen OI, Nookaew I, Gabrielsson BG, Sandberg AS. Splenic Immune Response Is Down-Regulated in C57BL/6J Mice Fed Eicosapentaenoic Acid and Docosahexaenoic Acid Enriched High Fat Diet. Nutrients. 2017 Jan 10; 9(1). PMID: 28075380.
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    12. Poudel S, Giannone RJ, Rodriguez M, Raman B, Martin MZ, Engle NL, Mielenz JR, Nookaew I, Brown SD, Tschaplinski TJ, Ussery D, Hettich RL. Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass. Biotechnol Biofuels. 2017; 10:14. PMID: 28077967.
      View in: PubMed
    13. Olafsdottir TA, Lindqvist M, Nookaew I, Andersen P, Maertzdorf J, Persson J, Christensen D, Zhang Y, Anderson J, Khoomrung S, Sen P, Agger EM, Coler R, Carter D, Meinke A, Rappuoli R, Kaufmann SH, Reed SG, Harandi AM. Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants. Sci Rep. 2016 Dec 13; 6:39097. PMID: 27958370.
      View in: PubMed
    14. Karlsson R, Thorell K, Hosseini S, Kenny D, Sihlbom C, Sjöling Å, Karlsson A, Nookaew I. Comparative Analysis of Two Helicobacter pylori Strains using Genomics and Mass Spectrometry-Based Proteomics. Front Microbiol. 2016; 7:1757. PMID: 27891114.
      View in: PubMed
    15. Thompson RA, Dahal S, Garcia S, Nookaew I, Trinh CT. Exploring complex cellular phenotypes and model-guided strain design with a novel genome-scale metabolic model of Clostridium thermocellum DSM 1313 implementing an adjustable cellulosome. Biotechnol Biofuels. 2016; 9(1):194. PMID: 27602057; PMCID: PMC5012057.
    16. Soni NK, Ross AB, Scheers N, Savolainen OI, Nookaew I, Gabrielsson BG, Sandberg AS. Eicosapentaenoic and Docosahexaenoic Acid-Enriched High Fat Diet Delays Skeletal Muscle Degradation in Mice. Nutrients. 2016 Sep 03; 8(9). PMID: 27598198.
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    17. Nguy L, Shubbar E, Jernås M, Nookaew I, Lundgren J, Olsson B, Nilsson H, Guron G. Adenine-induced chronic renal failure in rats decreases aortic relaxation rate and alters expression of proteins involved in vascular smooth muscle calcium handling. Acta Physiol (Oxf). 2016 Dec; 218(4):250-264. PMID: 27239807.
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    18. Gatto F, Volpi N, Nilsson H, Nookaew I, Maruzzo M, Roma A, Johansson ME, Stierner U, Lundstam S, Basso U, Nielsen J. Glycosaminoglycan Profiling in Patients' Plasma and Urine Predicts the Occurrence of Metastatic Clear Cell Renal Cell Carcinoma. Cell Rep. 2016 May 24; 15(8):1822-36. PMID: 27184840.
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    19. Svahn SL, Väremo L, Gabrielsson BG, Peris E, Nookaew I, Grahnemo L, Sandberg AS, Wernstedt Asterholm I, Jansson JO, Nielsen J, Johansson ME. Six Tissue Transcriptomics Reveals Specific Immune Suppression in Spleen by Dietary Polyunsaturated Fatty Acids. PLoS One. 2016; 11(5):e0155099. PMID: 27166587; PMCID: PMC4864434.
    20. Timm CM, Pelletier DA, Jawdy SS, Gunter LE, Henning JA, Engle N, Aufrecht J, Gee E, Nookaew I, Yang Z, Lu TY, Tschaplinski TJ, Doktycz MJ, Tuskan GA, Weston DJ. Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System. Front Plant Sci. 2016; 7:497. PMID: 27200001; PMCID: PMC4845692.
    21. Thorell K, Hosseini S, Palacios Gonzáles RV, Chaotham C, Graham DY, Paszat L, Rabeneck L, Lundin SB, Nookaew I, Sjöling Å. Identification of a Latin American-specific BabA adhesin variant through whole genome sequencing of Helicobacter pylori patient isolates from Nicaragua. BMC Evol Biol. 2016 Feb 29; 16:53. PMID: 26928576; PMCID: PMC4770546.
    22. Pedersen L, Idorn M, Olofsson GH, Lauenborg B, Nookaew I, Hansen RH, Johannesen HH, Becker JC, Pedersen KS, Dethlefsen C, Nielsen J, Gehl J, Pedersen BK, Thor Straten P, Hojman P. Voluntary Running Suppresses Tumor Growth through Epinephrine- and IL-6-Dependent NK Cell Mobilization and Redistribution. Cell Metab. 2016 Mar 08; 23(3):554-62. PMID: 26895752.
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    23. Jernås M, Strömberg Célind F, Nookaew I, Mellgren K, Wadenvik H, Olsson B. Normalised immune expression in remission of paediatric ITP. Thromb Haemost. 2016 Jun 02; 115(6):1229-30. PMID: 26843317.
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    24. Jun SR, Wassenaar TM, Nookaew I, Hauser L, Wanchai V, Land M, Timm CM, Lu TY, Schadt CW, Doktycz MJ, Pelletier DA, Ussery DW. Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis. Appl Environ Microbiol. 2015 Oct 30; 82(1):375-83. PMID: 26519390; PMCID: PMC4702629.
    25. Abraham PE, Wang X, Ranjan P, Nookaew I, Zhang B, Tuskan GA, Hettich RL. Integrating mRNA and Protein Sequencing Enables the Detection and Quantitative Profiling of Natural Protein Sequence Variants of Populus trichocarpa. J Proteome Res. 2015 Dec 04; 14(12):5318-26. PMID: 26483142.
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    26. Zurawski JV, Conway JM, Lee LL, Simpson HJ, Izquierdo JA, Blumer-Schuette S, Nookaew I, Adams MW, Kelly RM. Comparative Analysis of Extremely Thermophilic Caldicellulosiruptor Species Reveals Common and Unique Cellular Strategies for Plant Biomass Utilization. Appl Environ Microbiol. 2015 Oct; 81(20):7159-70. PMID: 26253670; PMCID: PMC4579423.
    27. Pornputtapong N, Nookaew I, Nielsen J. Human metabolic atlas: an online resource for human metabolism. Database (Oxford). 2015; 2015:bav068. PMID: 26209309; PMCID: PMC4513696.
    28. Soni NK, Nookaew I, Sandberg AS, Gabrielsson BG. Eicosapentaenoic and docosahexaenoic acid-enriched high fat diet delays the development of fatty liver in mice. Lipids Health Dis. 2015 Jul 22; 14:74. PMID: 26193881; PMCID: PMC4509768.
    29. Jun SR, Leuze MR, Nookaew I, Uberbacher EC, Land M, Zhang Q, Wanchai V, Chai J, Nielsen M, Trolle T, Lund O, Buzard GS, Pedersen TD, Wassenaar TM, Ussery DW. Ebolavirus comparative genomics. FEMS Microbiol Rev. 2015 Sep; 39(5):764-78. PMID: 26175035; PMCID: PMC4551310.
    30. Väremo L, Scheele C, Broholm C, Mardinoglu A, Kampf C, Asplund A, Nookaew I, Uhlén M, Pedersen BK, Nielsen J. Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes. Cell Rep. 2015 May 12; 11(6):921-933. PMID: 25937284.
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    31. Goossens KV, Ielasi FS, Nookaew I, Stals I, Alonso-Sarduy L, Daenen L, Van Mulders SE, Stassen C, van Eijsden RG, Siewers V, Delvaux FR, Kasas S, Nielsen J, Devreese B, Willaert RG. Molecular mechanism of flocculation self-recognition in yeast and its role in mating and survival. MBio. 2015 Apr 14; 6(2). PMID: 25873380; PMCID: PMC4453552.
    32. Sommer F, Nookaew I, Sommer N, Fogelstrand P, Bäckhed F. Site-specific programming of the host epithelial transcriptome by the gut microbiota. Genome Biol. 2015 Mar 28; 16:62. PMID: 25887251; PMCID: PMC4404278.
    33. Land M, Hauser L, Jun SR, Nookaew I, Leuze MR, Ahn TH, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW. Insights from 20 years of bacterial genome sequencing. Funct Integr Genomics. 2015 Mar; 15(2):141-61. PMID: 25722247; PMCID: PMC4361730.
    34. Svahn SL, Grahnemo L, Pálsdóttir V, Nookaew I, Wendt K, Gabrielsson B, Schéle E, Benrick A, Andersson N, Nilsson S, Johansson ME, Jansson JO. Dietary polyunsaturated fatty acids increase survival and decrease bacterial load during septic Staphylococcus aureus infection and improve neutrophil function in mice. Infect Immun. 2015 Feb; 83(2):514-21. PMID: 25404025; PMCID: PMC4294267.
    35. Wanichthanarak K, Nookaew I, Petranovic D. yStreX: yeast stress expression database. Database (Oxford). 2014; 2014. PMID: 25024351; PMCID: PMC4095678.
    36. Karlsson FH, Nookaew I, Nielsen J. Metagenomic data utilization and analysis (MEDUSA) and construction of a global gut microbial gene catalogue. PLoS Comput Biol. 2014 Jul; 10(7):e1003706. PMID: 25010449; PMCID: PMC4091689.
    37. Pornputtapong N, Wanichthanarak K, Nilsson A, Nookaew I, Nielsen J. A dedicated database system for handling multi-level data in systems biology. Source Code Biol Med. 2014; 9:17. PMID: 25053973; PMCID: PMC4106218.
    38. Garcia-Albornoz M, Thankaswamy-Kosalai S, Nilsson A, Väremo L, Nookaew I, Nielsen J. BioMet Toolbox 2.0: genome-wide analysis of metabolism and omics data. Nucleic Acids Res. 2014 Jul; 42(Web Server issue):W175-81. PMID: 24792167; PMCID: PMC4086127.
    39. El-Semman IE, Karlsson FH, Shoaie S, Nookaew I, Soliman TH, Nielsen J. Genome-scale metabolic reconstructions of Bifidobacterium adolescentis L2-32 and Faecalibacterium prausnitzii A2-165 and their interaction. BMC Syst Biol. 2014 Apr 03; 8:41. PMID: 24708835; PMCID: PMC4108055.
    40. Gatto F, Nookaew I, Nielsen J. Chromosome 3p loss of heterozygosity is associated with a unique metabolic network in clear cell renal carcinoma. Proc Natl Acad Sci U S A. 2014 Mar 04; 111(9):E866-75. PMID: 24550497; PMCID: PMC3948310.
    41. Knuf C, Nookaew I, Remmers I, Khoomrung S, Brown S, Berry A, Nielsen J. Physiological characterization of the high malic acid-producing Aspergillus oryzae strain 2103a-68. Appl Microbiol Biotechnol. 2014 Apr; 98(8):3517-27. PMID: 24413918.
      View in: PubMed
    42. Vesth T, Ozen A, Andersen SC, Kaas RS, Lukjancenko O, Bohlin J, Nookaew I, Wassenaar TM, Ussery DW. Veillonella, Firmicutes: Microbes disguised as Gram negatives. Stand Genomic Sci. 2013 Dec 20; 9(2):431-48. PMID: 24976898; PMCID: PMC4062629.
    43. Jewett MC, Workman CT, Nookaew I, Pizarro FA, Agosin E, Hellgren LI, Nielsen J. Mapping condition-dependent regulation of lipid metabolism in Saccharomyces cerevisiae. G3 (Bethesda). 2013 Nov 06; 3(11):1979-95. PMID: 24062529; PMCID: PMC3815060.
    44. Hussain A, Olausson H, Nilsson S, Nookaew I, Khoomrung S, Andersson L, Koskela A, Tuukkanen J, Ohlsson C, Holmäng A. Maternal beef and postweaning herring diets increase bone mineral density and strength in mouse offspring. Exp Biol Med (Maywood). 2013 Dec; 238(12):1362-9. PMID: 24157588.
      View in: PubMed
    45. Chumnanpuen P, Nookaew I, Nielsen J. Integrated analysis, transcriptome-lipidome, reveals the effects of INO-level (INO2 and INO4) on lipid metabolism in yeast. BMC Syst Biol. 2013 Oct 16; 7 Suppl 3:S7. PMID: 24456840; PMCID: PMC3852131.
    46. Nookaew I, Thorell K, Worah K, Wang S, Hibberd ML, Sjövall H, Pettersson S, Nielsen J, Lundin SB. Transcriptome signatures in Helicobacter pylori-infected mucosa identifies acidic mammalian chitinase loss as a corpus atrophy marker. BMC Med Genomics. 2013 Oct 11; 6:41. PMID: 24119614; PMCID: PMC4015281.
    47. Jernås M, Malmeström C, Axelsson M, Nookaew I, Wadenvik H, Lycke J, Olsson B. MicroRNA regulate immune pathways in T-cells in multiple sclerosis (MS). BMC Immunol. 2013 Jul 29; 14:32. PMID: 23895517; PMCID: PMC3734042.
    48. Knuf C, Nookaew I, Brown SH, McCulloch M, Berry A, Nielsen J. Investigation of malic acid production in Aspergillus oryzae under nitrogen starvation conditions. Appl Environ Microbiol. 2013 Oct; 79(19):6050-8. PMID: 23892740; PMCID: PMC3811345.
    49. Jernås M, Hou Y, Strömberg Célind F, Shao L, Nookaew I, Wang Q, Ju X, Mellgren K, Wadenvik H, Hou M, Olsson B. Differences in gene expression and cytokine levels between newly diagnosed and chronic pediatric ITP. Blood. 2013 Sep 05; 122(10):1789-92. PMID: 23869085.
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    50. Hussain A, Nookaew I, Khoomrung S, Andersson L, Larsson I, Hulthén L, Jansson N, Jakubowicz R, Nilsson S, Sandberg AS, Nielsen J, Holmäng A. A maternal diet of fatty fish reduces body fat of offspring compared with a maternal diet of beef and a post-weaning diet of fish improves insulin sensitivity and lipid profile in adult C57BL/6 male mice. Acta Physiol (Oxf). 2013 Nov; 209(3):220-34. PMID: 23746286.
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    51. Karlsson FH, Tremaroli V, Nookaew I, Bergström G, Behre CJ, Fagerberg B, Nielsen J, Bäckhed F. Gut metagenome in European women with normal, impaired and diabetic glucose control. Nature. 2013 Jun 06; 498(7452):99-103. PMID: 23719380.
      View in: PubMed
    52. Khoomrung S, Chumnanpuen P, Jansa-Ard S, Ståhlman M, Nookaew I, Borén J, Nielsen J. Rapid quantification of yeast lipid using microwave-assisted total lipid extraction and HPLC-CAD. Anal Chem. 2013 May 21; 85(10):4912-9. PMID: 23634639.
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    53. Österlund T, Nookaew I, Bordel S, Nielsen J. Mapping condition-dependent regulation of metabolism in yeast through genome-scale modeling. BMC Syst Biol. 2013 Apr 30; 7:36. PMID: 23631471; PMCID: PMC3648345.
    54. Väremo L, Nookaew I, Nielsen J. Novel insights into obesity and diabetes through genome-scale metabolic modeling. Front Physiol. 2013; 4:92. PMID: 23630502; PMCID: PMC3635026.
    55. Agren R, Liu L, Shoaie S, Vongsangnak W, Nookaew I, Nielsen J. The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum. PLoS Comput Biol. 2013; 9(3):e1002980. PMID: 23555215; PMCID: PMC3605104.
    56. Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, Dobson P, Dunn WB, Endler L, Hala D, Hucka M, Hull D, Jameson D, Jamshidi N, Jonsson JJ, Juty N, Keating S, Nookaew I, Le Novère N, Malys N, Mazein A, Papin JA, Price ND, Selkov E, Sigurdsson MI, Simeonidis E, Sonnenschein N, Smallbone K, Sorokin A, van Beek JH, Weichart D, Goryanin I, Nielsen J, Westerhoff HV, Kell DB, Mendes P, Palsson BØ. A community-driven global reconstruction of human metabolism. Nat Biotechnol. 2013 May; 31(5):419-25. PMID: 23455439; PMCID: PMC3856361.
    57. Väremo L, Nielsen J, Nookaew I. Enriching the gene set analysis of genome-wide data by incorporating directionality of gene expression and combining statistical hypotheses and methods. Nucleic Acids Res. 2013 Apr; 41(8):4378-91. PMID: 23444143; PMCID: PMC3632109.
    58. Sanli K, Karlsson FH, Nookaew I, Nielsen J. FANTOM: Functional and taxonomic analysis of metagenomes. BMC Bioinformatics. 2013 Feb 01; 14:38. PMID: 23375020; PMCID: PMC3566963.
    59. Jernås M, Nookaew I, Wadenvik H, Olsson B. MicroRNA regulate immunological pathways in T-cells in immune thrombocytopenia (ITP). Blood. 2013 Mar 14; 121(11):2095-8. PMID: 23303824; PMCID: PMC3596969.
    60. Mardinoglu A, Agren R, Kampf C, Asplund A, Nookaew I, Jacobson P, Walley AJ, Froguel P, Carlsson LM, Uhlen M, Nielsen J. Integration of clinical data with a genome-scale metabolic model of the human adipocyte. Mol Syst Biol. 2013; 9:649. PMID: 23511207; PMCID: PMC3619940.
    61. Shoaie S, Karlsson F, Mardinoglu A, Nookaew I, Bordel S, Nielsen J. Understanding the interactions between bacteria in the human gut through metabolic modeling. Sci Rep. 2013; 3:2532. PMID: 23982459; PMCID: PMC3755282.
    62. Nookaew I, Svensson PA, Jacobson P, Jernås M, Taube M, Larsson I, Andersson-Assarsson JC, Sjöström L, Froguel P, Walley A, Nielsen J, Carlsson LM. Adipose tissue resting energy expenditure and expression of genes involved in mitochondrial function are higher in women than in men. J Clin Endocrinol Metab. 2013 Feb; 98(2):E370-8. PMID: 23264395; PMCID: PMC3633773.
    63. Jernås M, Nookaew I, Wadenvik H, Olsson B. Differential expression of T-cell genes in blood and bone marrow between ITP patients and controls. Thromb Haemost. 2013 Jan; 109(1):112-7. PMID: 23138397.
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    64. Papini M, Nookaew I, Uhlén M, Nielsen J. Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae. Microb Cell Fact. 2012 Oct 09; 11:136. PMID: 23043429; PMCID: PMC3528450.
    65. Nookaew I, Papini M, Pornputtapong N, Scalcinati G, Fagerberg L, Uhlén M, Nielsen J. A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae. Nucleic Acids Res. 2012 Nov 01; 40(20):10084-97. PMID: 22965124; PMCID: PMC3488244.
    66. Jernås M, Malmeström C, Axelsson M, Olsson C, Nookaew I, Wadenvik H, Zetterberg H, Blennow K, Lycke J, Rudemo M, Olsson B. MS risk genes are transcriptionally regulated in CSF leukocytes at relapse. Mult Scler. 2013 Apr; 19(4):403-10. PMID: 22907940.
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    67. Chumnanpuen P, Zhang J, Nookaew I, Nielsen J. Integrated analysis of transcriptome and lipid profiling reveals the co-influences of inositol-choline and Snf1 in controlling lipid biosynthesis in yeast. Mol Genet Genomics. 2012 Jul; 287(7):541-54. PMID: 22622761.
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    68. Agren R, Bordel S, Mardinoglu A, Pornputtapong N, Nookaew I, Nielsen J. Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT. PLoS Comput Biol. 2012; 8(5):e1002518. PMID: 22615553; PMCID: PMC3355067.
    69. Khoomrung S, Chumnanpuen P, Jansa-ard S, Nookaew I, Nielsen J. Fast and accurate preparation fatty acid methyl esters by microwave-assisted derivatization in the yeast Saccharomyces cerevisiae. Appl Microbiol Biotechnol. 2012 Jun; 94(6):1637-46. PMID: 22569641.
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    70. Caspeta L, Shoaie S, Agren R, Nookaew I, Nielsen J. Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in silico evaluation of their potentials. BMC Syst Biol. 2012 Apr 04; 6:24. PMID: 22472172; PMCID: PMC3364918.
    71. Papini M, Nookaew I, Siewers V, Nielsen J. Physiological characterization of recombinant Saccharomyces cerevisiae expressing the Aspergillus nidulans phosphoketolase pathway: validation of activity through 13C-based metabolic flux analysis. Appl Microbiol Biotechnol. 2012 Aug; 95(4):1001-10. PMID: 22367611.
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    72. Karlsson FH, Fåk F, Nookaew I, Tremaroli V, Fagerberg B, Petranovic D, Bäckhed F, Nielsen J. Symptomatic atherosclerosis is associated with an altered gut metagenome. Nat Commun. 2012; 3:1245. PMID: 23212374; PMCID: PMC3538954.
    73. Larsson E, Tremaroli V, Lee YS, Koren O, Nookaew I, Fricker A, Nielsen J, Ley RE, Bäckhed F. Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88. Gut. 2012 Aug; 61(8):1124-31. PMID: 22115825; PMCID: PMC3388726.
    74. Osterlund T, Nookaew I, Nielsen J. Fifteen years of large scale metabolic modeling of yeast: developments and impacts. Biotechnol Adv. 2012 Sep-Oct; 30(5):979-88. PMID: 21846501.
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    75. Lindqvist M, Nookaew I, Brinkenberg I, Samuelson E, Thörn K, Nielsen J, Harandi AM. Unraveling molecular signatures of immunostimulatory adjuvants in the female genital tract through systems biology. PLoS One. 2011; 6(6):e20448. PMID: 21666746; PMCID: PMC3110186.
    76. Karlsson FH, Nookaew I, Petranovic D, Nielsen J. Prospects for systems biology and modeling of the gut microbiome. Trends Biotechnol. 2011 Jun; 29(6):251-8. PMID: 21392838.
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    77. Karlsson FH, Ussery DW, Nielsen J, Nookaew I. A closer look at bacteroides: phylogenetic relationship and genomic implications of a life in the human gut. Microb Ecol. 2011 Apr; 61(3):473-85. PMID: 21222211.
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    78. Nookaew I, Olivares-Hernández R, Bhumiratana S, Nielsen J. Genome-scale metabolic models of Saccharomyces cerevisiae. Methods Mol Biol. 2011; 759:445-63. PMID: 21863502.
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    79. Bordel S, Nookaew I. Systems biology or just biology? A report of the 11th International Conference on Systems Biology. Biotechnol J. 2010 Dec; 5(12):1257-60. PMID: 21154729.
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    80. Papini M, Nookaew I, Scalcinati G, Siewers V, Nielsen J. Phosphoglycerate mutase knock-out mutant Saccharomyces cerevisiae: physiological investigation and transcriptome analysis. Biotechnol J. 2010 Oct; 5(10):1016-27. PMID: 20815084.
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    81. Nookaew I, Gabrielsson BG, Holmäng A, Sandberg AS, Nielsen J. Identifying molecular effects of diet through systems biology: influence of herring diet on sterol metabolism and protein turnover in mice. PLoS One. 2010 Aug 24; 5(8):e12361. PMID: 20808764; PMCID: PMC2927425.
    82. Cvijovic M, Olivares-Hernández R, Agren R, Dahr N, Vongsangnak W, Nookaew I, Patil KR, Nielsen J. BioMet Toolbox: genome-wide analysis of metabolism. Nucleic Acids Res. 2010 Jul; 38(Web Server issue):W144-9. PMID: 20483918; PMCID: PMC2896146.
    83. Vongsangnak W, Nookaew I, Salazar M, Nielsen J. Analysis of genome-wide coexpression and coevolution of Aspergillus oryzae and Aspergillus niger. OMICS. 2010 Apr; 14(2):165-75. PMID: 20337533.
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    84. Nookaew I, Jewett MC, Meechai A, Thammarongtham C, Laoteng K, Cheevadhanarak S, Nielsen J, Bhumiratana S. The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism. BMC Syst Biol. 2008 Aug 07; 2:71. PMID: 18687109; PMCID: PMC2542360.
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