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Raptor genomes reveal evolutionary signatures of predatory and nocturnal lifestyles.

Cho YS, Jun JH, Kim JA, Kim HM, Chung O, Kang SG, Park JY, Kim HJ, Kim S, Kim HJ, Jang JH, Na KJ, Kim J, Park SG, Lee HY, Manica A, Mindell DP, Fuchs J, Edwards JS, Weber JA, Witt CC, Yeo JH, Kim S, Bhak J.

Genome Biol. 2019 Aug 29;20(1):181. doi: 10.1186/s13059-019-1793-1.


HIV and HCV augments inflammatory responses through increased TREM-1 expression and signaling in Kupffer and Myeloid cells.

Hyun J, McMahon RS, Lang AL, Edwards JS, Badilla AD, Greene ME, Stone GW, Pallikkuth S, Stevenson M, Dykxhoorn DM, Kottilil S, Pahwa S, Thomas E.

PLoS Pathog. 2019 Jul 1;15(7):e1007883. doi: 10.1371/journal.ppat.1007883. eCollection 2019 Jul.


The genome of the giant Nomura's jellyfish sheds light on the early evolution of active predation.

Kim HM, Weber JA, Lee N, Park SG, Cho YS, Bhak Y, Lee N, Jeon Y, Jeon S, Luria V, Karger A, Kirschner MW, Jo YJ, Woo S, Shin K, Chung O, Ryu JC, Yim HS, Lee JH, Edwards JS, Manica A, Bhak J, Yum S.

BMC Biol. 2019 Mar 29;17(1):28. doi: 10.1186/s12915-019-0643-7.


Anti-PD1 'SHR-1210' aberrantly targets pro-angiogenic receptors and this polyspecificity can be ablated by paratope refinement.

Finlay WJJ, Coleman JE, Edwards JS, Johnson KS.

MAbs. 2019 Jan;11(1):26-44. doi: 10.1080/19420862.2018.1550321. Epub 2018 Dec 12.


Sequential super-resolution imaging using DNA strand displacement.

Pallikkuth S, Martin C, Farzam F, Edwards JS, Lakin MR, Lidke DS, Lidke KA.

PLoS One. 2018 Aug 31;13(8):e0203291. doi: 10.1371/journal.pone.0203291. eCollection 2018.


Next-generation sequencing library construction on a surface.

Feng K, Costa J, Edwards JS.

BMC Genomics. 2018 May 30;19(1):416. doi: 10.1186/s12864-018-4797-4.


Risk of Post-Endoscopic Retrograde Cholangiopancreatography Pancreatitis After Double-Guidewire Biliary Cannulation in an Average-Risk Population.

Krill JT, DaVee T, Edwards JS, Slaughter JC, Yachimski PS.

Pancreas. 2018 Jul;47(6):748-752. doi: 10.1097/MPA.0000000000001070.


KoVariome: Korean National Standard Reference Variome database of whole genomes with comprehensive SNV, indel, CNV, and SV analyses.

Kim J, Weber JA, Jho S, Jang J, Jun J, Cho YS, Kim HM, Kim H, Kim Y, Chung O, Kim CG, Lee H, Kim BC, Han K, Koh I, Chae KS, Lee S, Edwards JS, Bhak J.

Sci Rep. 2018 Apr 4;8(1):5677. doi: 10.1038/s41598-018-23837-x.


Corrigendum: An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes.

Cho YS, Kim H, Kim HM, Jho S, Jun J, Lee YJ, Chae KS, Kim CG, Kim S, Eriksson A, Edwards JS, Lee S, Kim BC, Manica A, Oh TK, Church GM, Bhak J.

Nat Commun. 2017 Oct 9;8:16168. doi: 10.1038/ncomms16168.


An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes.

Cho YS, Kim H, Kim HM, Jho S, Jun J, Lee YJ, Chae KS, Kim CG, Kim S, Eriksson A, Edwards JS, Lee S, Kim BC, Manica A, Oh TK, Church GM, Bhak J.

Nat Commun. 2016 Nov 24;7:13637. doi: 10.1038/ncomms13637. Erratum in: Nat Commun. 2017 Oct 09;8:16168.


Comparison of carnivore, omnivore, and herbivore mammalian genomes with a new leopard assembly.

Kim S, Cho YS, Kim HM, Chung O, Kim H, Jho S, Seomun H, Kim J, Bang WY, Kim C, An J, Bae CH, Bhak Y, Jeon S, Yoon H, Kim Y, Jun J, Lee H, Cho S, Uphyrkina O, Kostyria A, Goodrich J, Miquelle D, Roelke M, Lewis J, Yurchenko A, Bankevich A, Cho J, Lee S, Edwards JS, Weber JA, Cook J, Kim S, Lee H, Manica A, Lee I, O'Brien SJ, Bhak J, Yeo JH.

Genome Biol. 2016 Oct 11;17(1):211.


Effect of Spatial Inhomogeneities on the Membrane Surface on Receptor Dimerization and Signal Initiation.

Kerketta R, Halász ÁM, Steinkamp MP, Wilson BS, Edwards JS.

Front Cell Dev Biol. 2016 Aug 12;4:81. doi: 10.3389/fcell.2016.00081. eCollection 2016.


ChIP-Seq analysis of the adult male mouse brain after developmental exposure to arsenic.

Tyler CR, Weber JA, Labrecque M, Hessinger JM, Edwards JS, Allan AM.

Data Brief. 2015 Sep 9;5:248-54. doi: 10.1016/j.dib.2015.08.037. eCollection 2015 Dec.


What do patients value in the hospital meal experience?

Hartwell HJ, Shepherd PA, Edwards JSA, Johns N.

Appetite. 2016 Jan 1;96:293-298. doi: 10.1016/j.appet.2015.09.023. Epub 2015 Sep 25.


Orchestration of ErbB3 signaling through heterointeractions and homointeractions.

McCabe Pryor M, Steinkamp MP, Halasz AM, Chen Y, Yang S, Smith MS, Zahoransky-Kohalmi G, Swift M, Xu XP, Hanein D, Volkmann N, Lidke DS, Edwards JS, Wilson BS.

Mol Biol Cell. 2015 Nov 5;26(22):4109-23. doi: 10.1091/mbc.E14-06-1114. Epub 2015 Sep 16. Erratum in: Mol Biol Cell. 2016 Feb 15;27(4):731. Hanien, Dorit [corrected to Hanein, Dorit].


Education, collaboration, and innovation: intelligent biology and medicine in the era of big data.

Ruan J, Jin V, Huang Y, Xu H, Edwards JS, Chen Y, Zhao Z.

BMC Genomics. 2015;16 Suppl 7:S1. doi: 10.1186/1471-2164-16-S7-S1. Epub 2015 Jun 11.


High-Quality Draft Genome Sequence of Actinobacterium Kibdelosporangium sp. MJ126-NF4, Producer of Type II Polyketide Azicemicins, Using Illumina and PacBio Technologies.

Ogasawara Y, Torrez-Martinez N, Aragon AD, Yackley BJ, Weber JA, Sundararajan A, Ramaraj T, Edwards JS, Melançon CE 3rd.

Genome Announc. 2015 Apr 2;3(2). pii: e00114-15. doi: 10.1128/genomeA.00114-15.


Whole genome sequence and analysis of the Marwari horse breed and its genetic origin.

Jun J, Cho YS, Hu H, Kim HM, Jho S, Gadhvi P, Park KM, Lim J, Paek WK, Han K, Manica A, Edwards JS, Bhak J.

BMC Genomics. 2014;15 Suppl 9:S4. doi: 10.1186/1471-2164-15-S9-S4. Epub 2014 Dec 8.


Integrated statistical and pathway approach to next-generation sequencing analysis: a family-based study of hypertension.

Edwards JS, Atlas SR, Wilson SM, Cooper CF, Luo L, Stidley CA.

BMC Proc. 2014 Jun 17;8(Suppl 1 Genetic Analysis Workshop 18Vanessa Olmo):S104. doi: 10.1186/1753-6561-8-S1-S104. eCollection 2014.


An arc control and protection system for the JET lower hybrid antenna based on an imaging system.

Figueiredo J, Mailloux J, Kirov K, Kinna D, Stamp M, Devaux S, Arnoux G, Edwards JS, Stephen AV, McCullen P, Hogben C; JET EFDA Contributors.

Rev Sci Instrum. 2014 Nov;85(11):11E806. doi: 10.1063/1.4889904.


Analytical solution of steady-state equations for chemical reaction networks with bilinear rate laws.

Halász AM, Lai HJ, McCabe Pryor M, Radhakrishnan K, Edwards JS.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Jul-Aug;10(4):957-69. doi: 10.1109/TCBB.2013.41.


Dynamic transition states of ErbB1 phosphorylation predicted by spatial stochastic modeling.

Pryor MM, Low-Nam ST, Halász AM, Lidke DS, Wilson BS, Edwards JS.

Biophys J. 2013 Sep 17;105(6):1533-43. doi: 10.1016/j.bpj.2013.07.056.


Hungry in hospital, well-fed in prison? A comparative analysis of food service systems.

Johns N, Edwards JS, Hartwell HJ.

Appetite. 2013 Sep;68:45-50. doi: 10.1016/j.appet.2013.04.006. Epub 2013 Apr 18.


Molecular basis of antibiotic multiresistance transfer in Staphylococcus aureus.

Edwards JS, Betts L, Frazier ML, Pollet RM, Kwong SM, Walton WG, Ballentine WK 3rd, Huang JJ, Habibi S, Del Campo M, Meier JL, Dervan PB, Firth N, Redinbo MR.

Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):2804-9. doi: 10.1073/pnas.1219701110. Epub 2013 Jan 28.


The impact of high density receptor clusters on VEGF signaling.

Chen Y, Short C, Halász AM, Edwards JS.

Electron Proc Theor Comput Sci. 2013;2013:37-52.


Dental surgery and anesthetic precautions of a patient with Down syndrome and juvenile rheumatoid arthritis: a case report.

Unkel JH, Edwards JS, Piscitelli WP, Tye GW.

Pediatr Dent. 2012 Nov-Dec;34(7):517-20.


Genomic analysis of Saccharomyces cerevisiae isolates that grow optimally with glucose as the sole carbon source.

Aragon AD, Torrez-Martinez N, Edwards JS.

Electrophoresis. 2012 Dec;33(23):3514-20. doi: 10.1002/elps.201200172. Epub 2012 Nov 8.


The shuttling scaffold model for prevention of yeast pheromone pathway misactivation.

Singh AP, Andries E, Edwards JS, Steinberg S.

Bull Math Biol. 2012 Dec;74(12):2861-74. doi: 10.1007/s11538-012-9785-2. Epub 2012 Oct 27.


The relationship between emotions and food consumption (macronutrient) in a foodservice college setting - a preliminary study.

Hartwell HJ, Edwards JS, Brown L.

Int J Food Sci Nutr. 2013 May;64(3):261-8. doi: 10.3109/09637486.2012.734288. Epub 2012 Oct 17.


Turnover-dependent covalent inactivation of Staphylococcus aureus coenzyme A-disulfide reductase by coenzyme A-mimetics: mechanistic and structural insights.

Wallace BD, Edwards JS, Wallen JR, Moolman WJ, van der Westhuyzen R, Strauss E, Redinbo MR, Claiborne A.

Biochemistry. 2012 Oct 2;51(39):7699-711. doi: 10.1021/bi301026c. Epub 2012 Sep 19.


Mathematical simulation of membrane protein clustering for efficient signal transduction.

Radhakrishnan K, Halász Á, McCabe MM, Edwards JS, Wilson BS.

Ann Biomed Eng. 2012 Nov;40(11):2307-18. doi: 10.1007/s10439-012-0599-z. Epub 2012 Jun 6. Review.


Mosquitoes and other arthropod macro fauna associated with tank bromeliads in a Peruvian cloud forest.

Parker DM, Zavortink TJ, Billo TJ, Valdez U, Edwards JS.

J Am Mosq Control Assoc. 2012 Mar;28(1):45-6.


An adaptive coarse graining method for signal transduction in three dimensions.

Archuleta MN, McDermott JE, Edwards JS, Resat H.

Fundam Inform. 2012;118(4). doi: 10.3233/FI-2012-720.


Sequencing by ligation variation with endonuclease V digestion and deoxyinosine-containing query oligonucleotides.

Ho A, Murphy M, Wilson S, Atlas SR, Edwards JS.

BMC Genomics. 2011 Dec 12;12:598. doi: 10.1186/1471-2164-12-598.


Single molecule analysis of c-myb alternative splicing reveals novel classifiers for precursor B-ALL.

Zhou YE, O'Rourke JP, Edwards JS, Ness SA.

PLoS One. 2011;6(8):e22880. doi: 10.1371/journal.pone.0022880. Epub 2011 Aug 11.


Immobilization of active human carboxylesterase 1 in biomimetic silica nanoparticles.

Edwards JS, Kumbhar A, Roberts A, Hemmert AC, Edwards CC, Potter PM, Redinbo MR.

Biotechnol Prog. 2011 May-Jun;27(3):863-9. doi: 10.1002/btpr.604. Epub 2011 Apr 20.


Nerve agent hydrolysis activity designed into a human drug metabolism enzyme.

Hemmert AC, Otto TC, Chica RA, Wierdl M, Edwards JS, Lewis SM, Edwards CC, Tsurkan L, Cadieux CL, Kasten SA, Cashman JR, Mayo SL, Potter PM, Cerasoli DM, Redinbo MR.

PLoS One. 2011 Mar 18;6(3):e17441. doi: 10.1371/journal.pone.0017441. Erratum in: PLoS One. 2012;7(1). doi:10.1371/annotation/c5953f27-95f8-4a1b-a46c-639d90e182ac. Lewis, Steven L [corrected to Lewis, Steven M].


Monte Carlo simulations of plasma membrane corral-induced EGFR clustering.

Costa MN, Radhakrishnan K, Edwards JS.

J Biotechnol. 2011 Feb 10;151(3):261-70. doi: 10.1016/j.jbiotec.2010.12.009. Epub 2010 Dec 15.


Sensitivity analysis predicts that the ERK-pMEK interaction regulates ERK nuclear translocation.

Radhakrishnan K, Edwards JS, Lidke DS, Jovin TM, Wilson BS, Oliver JM.

IET Syst Biol. 2009 Sep;3(5):329-41. doi: 10.1049/iet-syb.2009.0010.


Predicting chemical impacts on vertebrate endocrine systems.

Nichols JW, Breen M, Denver RJ, Distefano JJ 3rd, Edwards JS, Hoke RA, Volz DC, Zhang X.

Environ Toxicol Chem. 2011 Jan;30(1):39-51. doi: 10.1002/etc.376.


Quantitative understanding of cell signaling: the importance of membrane organization.

Radhakrishnan K, Halász A, Vlachos D, Edwards JS.

Curr Opin Biotechnol. 2010 Oct;21(5):677-82. doi: 10.1016/j.copbio.2010.08.006. Epub 2010 Sep 9. Review.


Changes in food neophobia and dietary habits of international students.

Edwards JS, Hartwell HL, Brown L.

J Hum Nutr Diet. 2010 Jun;23(3):301-11. doi: 10.1111/j.1365-277X.2010.01066.x.


Dual primer emulsion PCR for next- generation DNA sequencing.

Xu MY, Aragon AD, Mascarenas MR, Torrez-Martinez N, Edwards JS.

Biotechniques. 2010 May;48(5):409-12. doi: 10.2144/000113423.


Spatio-temporal modeling of signaling protein recruitment to EGFR.

Hsieh MY, Yang S, Raymond-Stinz MA, Edwards JS, Wilson BS.

BMC Syst Biol. 2010 May 6;4:57. doi: 10.1186/1752-0509-4-57.


A probabilistic framework for microarray data analysis: fundamental probability models and statistical inference.

Ogunnaike BA, Gelmi CA, Edwards JS.

J Theor Biol. 2010 May 21;264(2):211-22. doi: 10.1016/j.jtbi.2010.02.021. Epub 2010 Feb 17.


Coupled stochastic spatial and non-spatial simulations of ErbB1 signaling pathways demonstrate the importance of spatial organization in signal transduction.

Costa MN, Radhakrishnan K, Wilson BS, Vlachos DG, Edwards JS.

PLoS One. 2009 Jul 23;4(7):e6316. doi: 10.1371/journal.pone.0006316.


Stochastic simulations of ErbB homo and heterodimerisation: potential impacts of receptor conformational state and spatial segregation.

Hsieh MY, Yang S, Raymond-Stinz MA, Steinberg S, Vlachos DG, Shu W, Wilson B, Edwards JS.

IET Syst Biol. 2008 Sep;2(5):256-72. doi: 10.1049/iet-syb:20070073.


Selected papers from the First q-bio Conference on Cellular Information Processing.

Nemenman I, Hlavacek WS, Edwards JS, Faeder JR, Jiang Y, Wall ME.

IET Syst Biol. 2008 Sep;2(5):203-5. doi: 10.1049/iet-syb:20089018. No abstract available.


Parallel analysis of tetramerization domain mutants of the human p53 protein using PCR colonies.

Merritt J, Roberts KG, Butz JA, Edwards JS.

Genomic Med. 2007;1(3-4):113-24. doi: 10.1007/s11568-007-9011-8. Epub 2007 Sep 5.


Multiple-locus variable-number tandem-repeat analysis as a tool for subtyping Listeria monocytogenes strains.

Sperry KE, Kathariou S, Edwards JS, Wolf LA.

J Clin Microbiol. 2008 Apr;46(4):1435-50. doi: 10.1128/JCM.02207-07. Epub 2008 Feb 6. Erratum in: J Clin Microbiol. 2009 Jun;47(6):1984.

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