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Items: 1 to 50 of 110

1.

Genetic Aberration Analysis in Thai Colorectal Adenoma and Early-Stage Adenocarcinoma Patients by Whole-Exome Sequencing.

Intarajak T, Udomchaiprasertkul W, Bunyoo C, Yimnoon J, Soonklang K, Wiriyaukaradecha K, Lamlertthon W, Sricharunrat T, Chaiwiriyawong W, Siriphongpreeda B, Sutheeworapong S, Kusonmano K, Kittichotirat W, Thammarongtham C, Jenjaroenpun P, Wongsurawat T, Nookaew I, Auewarakul C, Cheevadhanarak S.

Cancers (Basel). 2019 Jul 12;11(7). pii: E977. doi: 10.3390/cancers11070977.

2.

Genomic characterization of mumps viruses from a large-scale mumps outbreak in Arkansas, 2016.

Alkam D, Jenjaroenpun P, Wongsurawat T, Udaondo Z, Patumcharoenpol P, Robeson M, Haselow D, Mason W, Nookaew I, Ussery D, Jun SR.

Infect Genet Evol. 2019 Jul 15;75:103965. doi: 10.1016/j.meegid.2019.103965. [Epub ahead of print]

PMID:
31319177
3.

Crosshatch nanofiber networks of tunable interfiber spacing induce plasticity in cell migration and cytoskeletal response.

Jana A, Nookaew I, Singh J, Behkam B, Franco AT, Nain AS.

FASEB J. 2019 Jun 24:fj201900131R. doi: 10.1096/fj.201900131R. [Epub ahead of print]

PMID:
31225977
4.

Dietary Polyunsaturated Fatty Acids Promote Neutrophil Accumulation in the Spleen by Altering Chemotaxis and Delaying Cell Death.

Svahn SL, Gutiérrez S, Ulleryd MA, Nookaew I, Osla V, Beckman F, Nilsson S, Karlsson A, Jansson JO, Johansson ME.

Infect Immun. 2019 Jul 23;87(8). pii: e00270-19. doi: 10.1128/IAI.00270-19. Print 2019 Aug.

PMID:
31085706
5.

Decaffeinated Green Tea Extract Does Not Elicit Hepatotoxic Effects and Modulates the Gut Microbiome in Lean B6C3F₁ Mice.

Gurley BJ, Miousse IR, Nookaew I, Ewing LE, Skinner CM, Jenjaroenpun P, Wongsurawat T, Kennon-McGill S, Avula B, Bae JY, McGill MR, Ussery D, Khan IA, Koturbash I.

Nutrients. 2019 Apr 3;11(4). pii: E776. doi: 10.3390/nu11040776.

6.

Draft Genome Sequences of 48 Vancomycin-Resistant Enterococcus faecium Strains Isolated from Inpatients with Bacteremia and Urinary Tract Infection.

Udaondo Z, Wongsurawat T, Jenjaroenpun P, Anderson C, Lopez J, Mohan M, Tytarenko R, Walker B, Nookaew I, Ussery D, Kothari A, Jun SR.

Microbiol Resour Announc. 2019 Apr 11;8(15). pii: e00222-19. doi: 10.1128/MRA.00222-19.

7.

Simplified Intestinal Microbiota to Study Microbe-Diet-Host Interactions in a Mouse Model.

Kovatcheva-Datchary P, Shoaie S, Lee S, Wahlström A, Nookaew I, Hallen A, Perkins R, Nielsen J, Bäckhed F.

Cell Rep. 2019 Mar 26;26(13):3772-3783.e6. doi: 10.1016/j.celrep.2019.02.090.

8.

Rapid Sequencing of Multiple RNA Viruses in Their Native Form.

Wongsurawat T, Jenjaroenpun P, Taylor MK, Lee J, Tolardo AL, Parvathareddy J, Kandel S, Wadley TD, Kaewnapan B, Athipanyasilp N, Skidmore A, Chung D, Chaimayo C, Whitt M, Kantakamalakul W, Sutthent R, Horthongkham N, Ussery DW, Jonsson CB, Nookaew I.

Front Microbiol. 2019 Feb 25;10:260. doi: 10.3389/fmicb.2019.00260. eCollection 2019.

9.

Complete Genome and Plasmid Sequences of Escherichia coli Type Strain ATCC 11775.

Wadley TD, Jenjaroenpun P, Wongsurawat T, Ussery DW, Nookaew I.

Microbiol Resour Announc. 2019 Feb 28;8(9). pii: e00046-19. doi: 10.1128/MRA.00046-19. eCollection 2019 Feb.

10.

The bile salt glycocholate induces global changes in gene and protein expression and activates virulence in enterotoxigenic Escherichia coli.

Joffre E, Nicklasson M, Álvarez-Carretero S, Xiao X, Sun L, Nookaew I, Zhu B, Sjöling Å.

Sci Rep. 2019 Jan 14;9(1):108. doi: 10.1038/s41598-018-36414-z.

11.

Sample storage conditions induce post-collection biases in microbiome profiles.

Jenkins SV, Vang KB, Gies A, Griffin RJ, Jun SR, Nookaew I, Dings RPM.

BMC Microbiol. 2018 Dec 27;18(1):227. doi: 10.1186/s12866-018-1359-5.

12.

Genome Sequences of Zika Virus Strains Recovered from Amniotic Fluid, Placenta, and Fetal Brain of a Microcephaly Patient in Thailand, 2017.

Wongsurawat T, Jenjaroenpun P, Athipanyasilp N, Kaewnapan B, Leelahakorn N, Angkasekwinai N, Kantakamalakul W, Sutthent R, Ussery DW, Horthongkham N, Nookaew I.

Microbiol Resour Announc. 2018 Sep 20;7(11). pii: e01020-18. doi: 10.1128/MRA.01020-18. eCollection 2018 Sep.

13.

PARP1 Is Up-Regulated in Non-small Cell Lung Cancer Tissues in the Presence of the Cyanobacterial Toxin Microcystin.

Apopa PL, Alley L, Penney RB, Arnaoutakis K, Steliga MA, Jeffus S, Bircan E, Gopalan B, Jin J, Patumcharoenpol P, Jenjaroenpun P, Wongsurawat T, Shah N, Boysen G, Ussery D, Nookaew I, Fagan P, Bebek G, Orloff MS.

Front Microbiol. 2018 Aug 6;9:1757. doi: 10.3389/fmicb.2018.01757. eCollection 2018.

14.

Diabetes-associated alterations in the cecal microbiome and metabolome are independent of diet or environment in the UC Davis Type 2 Diabetes Mellitus Rat model.

Piccolo BD, Graham JL, Stanhope KL, Nookaew I, Mercer KE, Chintapalli SV, Wankhade UD, Shankar K, Havel PJ, Adams SH.

Am J Physiol Endocrinol Metab. 2018 Nov 1;315(5):E961-E972. doi: 10.1152/ajpendo.00203.2018. Epub 2018 Jul 17.

15.

Case of Microcephaly after Congenital Infection with Asian Lineage Zika Virus, Thailand.

Wongsurawat T, Athipanyasilp N, Jenjaroenpun P, Jun SR, Kaewnapan B, Wassenaar TM, Leelahakorn N, Angkasekwinai N, Kantakamalakul W, Ussery DW, Sutthent R, Nookaew I, Horthongkham N.

Emerg Infect Dis. 2018 Sep;24(9). doi: 10.3201/eid2409.180416. Epub 2018 Sep 17.

16.

Transcriptome alterations of vascular smooth muscle cells in aortic wall of myocardial infarction patients.

Wongsurawat T, Woo CC, Giannakakis A, Lin XY, Cheow ESH, Lee CN, Richards M, Sze SK, Nookaew I, Kuznetsov VA, Sorokin V.

Data Brief. 2018 Feb 6;17:1112-1135. doi: 10.1016/j.dib.2018.01.108. eCollection 2018 Apr.

17.

The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate.

Poudel S, Giannone RJ, Basen M, Nookaew I, Poole FL 2nd, Kelly RM, Adams MWW, Hettich RL.

Biotechnol Biofuels. 2018 Mar 23;11:80. doi: 10.1186/s13068-018-1076-1. eCollection 2018.

18.

Genome-Based Comparison of Clostridioides difficile: Average Amino Acid Identity Analysis of Core Genomes.

Cabal A, Jun SR, Jenjaroenpun P, Wanchai V, Nookaew I, Wongsurawat T, Burgess MJ, Kothari A, Wassenaar TM, Ussery DW.

Microb Ecol. 2018 Oct;76(3):801-813. doi: 10.1007/s00248-018-1155-7. Epub 2018 Feb 14.

19.

Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome.

Timm CM, Carter KR, Carrell AA, Jun SR, Jawdy SS, Vélez JM, Gunter LE, Yang Z, Nookaew I, Engle NL, Lu TS, Schadt CW, Tschaplinski TJ, Doktycz MJ, Tuskan GA, Pelletier DA, Weston DJ.

mSystems. 2018 Jan 23;3(1). pii: e00070-17. doi: 10.1128/mSystems.00070-17. eCollection 2018 Jan-Feb.

20.

Distinctive molecular signature and activated signaling pathways in aortic smooth muscle cells of patients with myocardial infarction.

Wongsurawat T, Woo CC, Giannakakis A, Lin XY, Cheow ESH, Lee CN, Richards M, Sze SK, Nookaew I, Kuznetsov VA, Sorokin V.

Atherosclerosis. 2018 Apr;271:237-244. doi: 10.1016/j.atherosclerosis.2018.01.024. Epub 2018 Jan 31.

21.

Complete genomic and transcriptional landscape analysis using third-generation sequencing: a case study of Saccharomyces cerevisiae CEN.PK113-7D.

Jenjaroenpun P, Wongsurawat T, Pereira R, Patumcharoenpol P, Ussery DW, Nielsen J, Nookaew I.

Nucleic Acids Res. 2018 Apr 20;46(7):e38. doi: 10.1093/nar/gky014.

22.

dBBQs: dataBase of Bacterial Quality scores.

Wanchai V, Patumcharoenpol P, Nookaew I, Ussery D.

BMC Bioinformatics. 2017 Dec 28;18(Suppl 14):483. doi: 10.1186/s12859-017-1900-9.

23.

Suggested mechanisms for Zika virus causing microcephaly: what do the genomes tell us?

Jun SR, Wassenaar TM, Wanchai V, Patumcharoenpol P, Nookaew I, Ussery DW.

BMC Bioinformatics. 2017 Dec 28;18(Suppl 14):471. doi: 10.1186/s12859-017-1894-3.

24.

Low-complexity microbiota in the duodenum of children with newly diagnosed ulcerative colitis.

Sjöberg F, Barkman C, Nookaew I, Östman S, Adlerberth I, Saalman R, Wold AE.

PLoS One. 2017 Oct 19;12(10):e0186178. doi: 10.1371/journal.pone.0186178. eCollection 2017.

25.

Single-cell gene expression analysis reveals regulators of distinct cell subpopulations among developing human neurons.

Wang J, Jenjaroenpun P, Bhinge A, Angarica VE, Del Sol A, Nookaew I, Kuznetsov VA, Stanton LW.

Genome Res. 2017 Nov;27(11):1783-1794. doi: 10.1101/gr.223313.117. Epub 2017 Oct 13.

26.

Genome Characterization of Oleaginous Aspergillus oryzae BCC7051: A Potential Fungal-Based Platform for Lipid Production.

Thammarongtham C, Nookaew I, Vorapreeda T, Srisuk T, Land ML, Jeennor S, Laoteng K.

Curr Microbiol. 2018 Jan;75(1):57-70. doi: 10.1007/s00284-017-1350-7. Epub 2017 Sep 1.

PMID:
28865010
27.

Three Complete Genome Sequences of Genotype G Mumps Virus from the 2016 Outbreak in Arkansas, USA.

Alkam D, Wongsurawat T, Jenjaroenpun P, Connor S, Hobbs C, Wassenaar TM, Jun SR, Nookaew I, Ussery D.

Genome Announc. 2017 Aug 10;5(32). pii: e00555-17. doi: 10.1128/genomeA.00555-17.

28.

Metabolomics and Integrative Omics for the Development of Thai Traditional Medicine.

Khoomrung S, Wanichthanarak K, Nookaew I, Thamsermsang O, Seubnooch P, Laohapand T, Akarasereenont P.

Front Pharmacol. 2017 Jul 18;8:474. doi: 10.3389/fphar.2017.00474. eCollection 2017. Review.

29.

Assessment of genome annotation using gene function similarity within the gene neighborhood.

Jun SR, Nookaew I, Hauser L, Gorin A.

BMC Bioinformatics. 2017 Jul 19;18(1):345. doi: 10.1186/s12859-017-1761-2.

30.

In Vivo Analysis of the Viable Microbiota and Helicobacter pylori Transcriptome in Gastric Infection and Early Stages of Carcinogenesis.

Thorell K, Bengtsson-Palme J, Liu OH, Palacios Gonzales RV, Nookaew I, Rabeneck L, Paszat L, Graham DY, Nielsen J, Lundin SB, Sjöling Å.

Infect Immun. 2017 Sep 20;85(10). pii: e00031-17. doi: 10.1128/IAI.00031-17. Print 2017 Oct.

31.

Network Proteomics: From Protein Structure to Protein-Protein Interaction.

Hu G, Di Paola L, Pullara F, Liang Z, Nookaew I.

Biomed Res Int. 2017;2017:8929613. doi: 10.1155/2017/8929613. Epub 2017 Feb 16. No abstract available.

32.

Evaluation and assessment of read-mapping by multiple next-generation sequencing aligners based on genome-wide characteristics.

Thankaswamy-Kosalai S, Sen P, Nookaew I.

Genomics. 2017 Jul;109(3-4):186-191. doi: 10.1016/j.ygeno.2017.03.001. Epub 2017 Mar 9.

33.

Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer.

Zhang Q, Jun SR, Leuze M, Ussery D, Nookaew I.

Sci Rep. 2017 Jan 19;7:40712. doi: 10.1038/srep40712.

34.

Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass.

Poudel S, Giannone RJ, Rodriguez M Jr, Raman B, Martin MZ, Engle NL, Mielenz JR, Nookaew I, Brown SD, Tschaplinski TJ, Ussery D, Hettich RL.

Biotechnol Biofuels. 2017 Jan 10;10:14. doi: 10.1186/s13068-016-0697-5. eCollection 2017.

35.

Splenic Immune Response Is Down-Regulated in C57BL/6J Mice Fed Eicosapentaenoic Acid and Docosahexaenoic Acid Enriched High Fat Diet.

Soni NK, Ross AB, Scheers N, Savolainen OI, Nookaew I, Gabrielsson BG, Sandberg AS.

Nutrients. 2017 Jan 10;9(1). pii: E50. doi: 10.3390/nu9010050.

36.

PanViz: interactive visualization of the structure of functionally annotated pangenomes.

Pedersen TL, Nookaew I, Wayne Ussery D, Månsson M.

Bioinformatics. 2017 Apr 1;33(7):1081-1082. doi: 10.1093/bioinformatics/btw761.

37.

Comparative Systems Analyses Reveal Molecular Signatures of Clinically tested Vaccine Adjuvants.

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.

Sci Rep. 2016 Dec 13;6:39097. doi: 10.1038/srep39097.

38.

Comparative Analysis of Two Helicobacter pylori Strains using Genomics and Mass Spectrometry-Based Proteomics.

Karlsson R, Thorell K, Hosseini S, Kenny D, Sihlbom C, Sjöling Å, Karlsson A, Nookaew I.

Front Microbiol. 2016 Nov 11;7:1757. eCollection 2016.

39.

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.

Thompson RA, Dahal S, Garcia S, Nookaew I, Trinh CT.

Biotechnol Biofuels. 2016 Sep 6;9(1):194. doi: 10.1186/s13068-016-0607-x. eCollection 2016.

40.

Eicosapentaenoic and Docosahexaenoic Acid-Enriched High Fat Diet Delays Skeletal Muscle Degradation in Mice.

Soni NK, Ross AB, Scheers N, Savolainen OI, Nookaew I, Gabrielsson BG, Sandberg AS.

Nutrients. 2016 Sep 3;8(9). pii: E543. doi: 10.3390/nu8090543.

41.

Adenine-induced chronic renal failure in rats decreases aortic relaxation rate and alters expression of proteins involved in vascular smooth muscle calcium handling.

Nguy L, Shubbar E, Jernås M, Nookaew I, Lundgren J, Olsson B, Nilsson H, Guron G.

Acta Physiol (Oxf). 2016 Dec;218(4):250-264. doi: 10.1111/apha.12724. Epub 2016 Jun 19.

PMID:
27239807
42.

Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System.

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.

Front Plant Sci. 2016 Apr 26;7:497. doi: 10.3389/fpls.2016.00497. eCollection 2016.

43.

Glycosaminoglycan Profiling in Patients' Plasma and Urine Predicts the Occurrence of Metastatic Clear Cell Renal Cell Carcinoma.

Gatto F, Volpi N, Nilsson H, Nookaew I, Maruzzo M, Roma A, Johansson ME, Stierner U, Lundstam S, Basso U, Nielsen J.

Cell Rep. 2016 May 24;15(8):1822-36. doi: 10.1016/j.celrep.2016.04.056. Epub 2016 May 12.

44.

Six Tissue Transcriptomics Reveals Specific Immune Suppression in Spleen by Dietary Polyunsaturated Fatty Acids.

Svahn SL, Väremo L, Gabrielsson BG, Peris E, Nookaew I, Grahnemo L, Sandberg AS, Wernstedt Asterholm I, Jansson JO, Nielsen J, Johansson ME.

PLoS One. 2016 May 11;11(5):e0155099. doi: 10.1371/journal.pone.0155099. eCollection 2016.

45.

Identification of a Latin American-specific BabA adhesin variant through whole genome sequencing of Helicobacter pylori patient isolates from Nicaragua.

Thorell K, Hosseini S, Palacios Gonzáles RV, Chaotham C, Graham DY, Paszat L, Rabeneck L, Lundin SB, Nookaew I, Sjöling Å.

BMC Evol Biol. 2016 Feb 29;16:53. doi: 10.1186/s12862-016-0619-y.

46.

Voluntary Running Suppresses Tumor Growth through Epinephrine- and IL-6-Dependent NK Cell Mobilization and Redistribution.

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.

Cell Metab. 2016 Mar 8;23(3):554-62. doi: 10.1016/j.cmet.2016.01.011. Epub 2016 Feb 16.

47.

Proteome- and Transcriptome-Driven Reconstruction of the Human Myocyte Metabolic Network and Its Use for Identification of Markers for Diabetes.

Väremo L, Scheele C, Broholm C, Mardinoglu A, Kampf C, Asplund A, Nookaew I, Uhlén M, Pedersen BK, Nielsen J.

Cell Rep. 2016 Feb 16;14(6):1567. doi: 10.1016/j.celrep.2016.01.054. Epub 2016 Feb 16. No abstract available.

48.

Normalised immune expression in remission of paediatric ITP.

Jernås M, Strömberg Célind F, Nookaew I, Mellgren K, Wadenvik H, Olsson B.

Thromb Haemost. 2016 Jun 2;115(6):1229-30. doi: 10.1160/TH15-12-0976. Epub 2016 Feb 4. No abstract available.

PMID:
26843317
49.

Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis.

Jun SR, Wassenaar TM, Nookaew I, Hauser L, Wanchai V, Land M, Timm CM, Lu TY, Schadt CW, Doktycz MJ, Pelletier DA, Ussery DW.

Appl Environ Microbiol. 2015 Oct 30;82(1):375-83. doi: 10.1128/AEM.02612-15. Print 2016 Jan 1.

50.

Integrating mRNA and Protein Sequencing Enables the Detection and Quantitative Profiling of Natural Protein Sequence Variants of Populus trichocarpa.

Abraham PE, Wang X, Ranjan P, Nookaew I, Zhang B, Tuskan GA, Hettich RL.

J Proteome Res. 2015 Dec 4;14(12):5318-26. doi: 10.1021/acs.jproteome.5b00823. Epub 2015 Oct 30.

PMID:
26483142

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