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Gallstone Pancreatitis: Admission Versus Normal Cholecystectomy-a Randomized Trial (Gallstone PANC Trial).

Mueck KM, Wei S, Pedroza C, Bernardi K, Jackson ML, Liang MK, Ko TC, Tyson JE, Kao LS.

Ann Surg. 2019 Sep;270(3):519-527. doi: 10.1097/SLA.0000000000003424.


Type II Secretion Promotes Bacterial Growth within the Legionella-Containing Vacuole in Infected Amoebae.

White RC, Truchan HK, Zheng H, Tyson JY, Cianciotto NP.

Infect Immun. 2019 Aug 12. pii: IAI.00374-19. doi: 10.1128/IAI.00374-19. [Epub ahead of print]


JigCell Model Connector: building large molecular network models from components.

Jones TC Jr, Hoops S, Watson LT, Palmisano A, Tyson JJ, Shaffer CA.

Simulation. 2018 Nov;94(11):993-1008. doi: 10.1177/0037549717754121. Epub 2018 Feb 14.


A stochastic model of size control in the budding yeast cell cycle.

Ahmadian M, Tyson JJ, Cao Y.

BMC Bioinformatics. 2019 Jun 20;20(Suppl 12):322. doi: 10.1186/s12859-019-2839-9.


Zika Virus: Relevance to the State of Hawai'i.

Lew WJ, Tsai WY, Balaraman V, Liow KK, Tyson J, Wang WK.

Hawaii J Med Public Health. 2019 Apr;78(4):123-127.


Systems biology: perspectives on multiscale modeling in research on endocrine-related cancers.

Clarke R, Tyson JJ, Tan M, Baumann WT, Jin L, Xuan J, Wang Y.

Endocr Relat Cancer. 2019 Apr 1. pii: ERC-18-0309.R1. doi: 10.1530/ERC-18-0309. [Epub ahead of print] Review.


Neonatal Intensive Care Variation in Medicaid-Insured Newborns: A Population-Based Study.

Goodman DC, Ganduglia-Cazaban C, Franzini L, Stukel TA, Wasserman JR, Murphy MA, Kim Y, Mowitz ME, Tyson JE, Doherty JR, Little GA.

J Pediatr. 2019 Jun;209:44-51.e2. doi: 10.1016/j.jpeds.2019.02.014. Epub 2019 Apr 5.


Efficiently Encoding Complex Biochemical Models with the Multistate Model Builder (MSMB).

Palmisano A, Hoops S, Watson LT, Jones TC Jr, Tyson JJ, Shaffer CA.

Methods Mol Biol. 2019;1945:119-139. doi: 10.1007/978-1-4939-9102-0_5.


Engulfment, persistence and fate of Bdellovibrio bacteriovorus predators inside human phagocytic cells informs their future therapeutic potential.

Raghunathan D, Radford PM, Gell C, Negus D, Moore C, Till R, Tighe PJ, Wheatley SP, Martinez-Pomares L, Sockett RE, Tyson J.

Sci Rep. 2019 Mar 12;9(1):4293. doi: 10.1038/s41598-019-40223-3.


Treating Hypertension in Children With n-of-1 Trials.

Samuel JP, Tyson JE, Green C, Bell CS, Pedroza C, Molony D, Samuels J.

Pediatrics. 2019 Apr;143(4). pii: e20181818. doi: 10.1542/peds.2018-1818. Epub 2019 Mar 6.


Does care in a specialised stroke prevention clinic improve poststroke blood pressure control: a protocol for a randomised comparative effectiveness study.

Sharrief AZ, Hinojosa E, Cooksey G, Okpala MN, Avritscher EB, Pedroza C, Denny MC, Samuels J, Tyson JE, Savitz SI.

BMJ Open. 2019 Feb 19;9(2):e024695. doi: 10.1136/bmjopen-2018-024695.


High in-hospital blood pressure variability and severe disability or death in primary intracerebral hemorrhage patients.

Meeks JR, Bambhroliya AB, Meyer EG, Slaughter KB, Fraher CJ, Sharrief AZ, Bowry R, Ahmed WO, Tyson JE, Miller CC, Warach S, Khan BA, McCullough LD, Savitz SI, Vahidy FS.

Int J Stroke. 2019 Jan 25:1747493019827763. doi: 10.1177/1747493019827763. [Epub ahead of print]


Response to a different view concerning the NICHD neonatal research network late hypothermia trial.

Laptook A, Tyson JE, Pedroza C, Shankaran S, Bell EF, Goldberg R, Ambalavanan N, Munoz B, Das A.

Acta Paediatr. 2019 Apr;108(4):772-773. doi: 10.1111/apa.14725. Epub 2019 Feb 10. No abstract available.


Estimates and Temporal Trend for US Nationwide 30-Day Hospital Readmission Among Patients With Ischemic and Hemorrhagic Stroke.

Bambhroliya AB, Donnelly JP, Thomas EJ, Tyson JE, Miller CC, McCullough LD, Savitz SI, Vahidy FS.

JAMA Netw Open. 2018 Aug 3;1(4):e181190. doi: 10.1001/jamanetworkopen.2018.1190.


Using Machine Learning to Identify Change in Surgical Decision Making in Current Use of Damage Control Laparotomy.

Harvin JA, Green CE, Pedroza C, Tyson JE, Moore LJ, Wade CE, Holcomb JB, Kao LS.

J Am Coll Surg. 2019 Mar;228(3):255-264. doi: 10.1016/j.jamcollsurg.2018.12.025. Epub 2019 Jan 9.


Examining diabetic heel ulcers through an ecological lens: microbial community dynamics associated with healing and infection.

Sloan TJ, Turton JC, Tyson J, Musgrove A, Fleming VM, Lister MM, Loose MW, Sockett RE, Diggle M, Game FL, Jeffcoate W.

J Med Microbiol. 2019 Feb;68(2):230-240. doi: 10.1099/jmm.0.000907. Epub 2019 Jan 9.


Ectopic Activation of the Spindle Assembly Checkpoint Signaling Cascade Reveals Its Biochemical Design.

Chen C, Whitney IP, Banerjee A, Sacristan C, Sekhri P, Kern DM, Fontan A, Kops GJPL, Tyson JJ, Cheeseman IM, Joglekar AP.

Curr Biol. 2019 Jan 7;29(1):104-119.e10. doi: 10.1016/j.cub.2018.11.054. Epub 2018 Dec 27.


Post-Trial Sustainability and Scalability of the Benefits of a Medical Home for High-Risk Children with Medical Complexity.

Avritscher EBC, Mosquera RA, Tyson JE, Pedroza C, Samuels CL, Harris TS, Gomez-Rubio A, Navarro FA, Moody SB, Beyda RM.

J Pediatr. 2019 Mar;206:232-239.e3. doi: 10.1016/j.jpeds.2018.10.035. Epub 2018 Dec 4.


Genome Sequencing of Sub-Arctic Mesomycetozoean Sphaeroforma sirkka Strain B5, Performed with the Oxford Nanopore minION and Illumina HiSeq Systems.

Ducluzeau AL, Tyson JR, Collins RE, Snutch TP, Hassett BT.

Microbiol Resour Announc. 2018 Oct 18;7(15). pii: e00848-18. doi: 10.1128/MRA.00848-18. eCollection 2018 Oct.


Genetic variants associated with patent ductus arteriosus in extremely preterm infants.

Dagle JM, Ryckman KK, Spracklen CN, Momany AM, Cotten CM, Levy J, Page GP, Bell EF, Carlo WA, Shankaran S, Goldberg RN, Ehrenkranz RA, Tyson JE, Stoll BJ, Murray JC; Eunice Kennedy Shriver National Institute of Child Health and Human Development Neonatal Research Network.

J Perinatol. 2019 Mar;39(3):401-408. doi: 10.1038/s41372-018-0285-6. Epub 2018 Dec 5.


Modeling the dynamic behavior of biochemical regulatory networks.

Tyson JJ, Laomettachit T, Kraikivski P.

J Theor Biol. 2019 Feb 7;462:514-527. doi: 10.1016/j.jtbi.2018.11.034. Epub 2018 Nov 28. Review.


Deciphering the Dynamics of Interlocked Feedback Loops in a Model of the Mammalian Circadian Clock.

Battogtokh D, Tyson JJ.

Biophys J. 2018 Nov 20;115(10):2055-2066. doi: 10.1016/j.bpj.2018.10.005. Epub 2018 Oct 11.


Combination of Nonstructural Protein 1-Based Enzyme-Linked Immunosorbent Assays Can Detect and Distinguish Various Dengue Virus and Zika Virus Infections.

Tyson J, Tsai WY, Tsai JJ, Brites C, Mässgård L, Ha Youn H, Pedroso C, Drexler JF, Stramer SL, Balmaseda A, Harris E, Wang WK.

J Clin Microbiol. 2019 Jan 30;57(2). pii: e01464-18. doi: 10.1128/JCM.01464-18. Print 2019 Feb.


Seroprevalence of dengue virus in two districts of Kaohsiung City after the largest dengue outbreak in Taiwan since World War II.

Tsai JJ, Liu CK, Tsai WY, Liu LT, Tyson J, Tsai CY, Lin PC, Wang WK.

PLoS Negl Trop Dis. 2018 Oct 24;12(10):e0006879. doi: 10.1371/journal.pntd.0006879. eCollection 2018 Oct.


Dilution and titration of cell-cycle regulators may control cell size in budding yeast.

Heldt FS, Lunstone R, Tyson JJ, Novák B.

PLoS Comput Biol. 2018 Oct 24;14(10):e1006548. doi: 10.1371/journal.pcbi.1006548. eCollection 2018 Oct.


Mathematical Analysis of Cytokine-Induced Differentiation of Granulocyte-Monocyte Progenitor Cells.

Weston BR, Li L, Tyson JJ.

Front Immunol. 2018 Sep 18;9:2048. doi: 10.3389/fimmu.2018.02048. eCollection 2018.


Genome Stability during Cell Proliferation: A Systems Analysis of the Molecular Mechanisms Controlling Progression through the Eukaryotic Cell Cycle.

Novák B, Heldt FS, Tyson JJ.

Curr Opin Syst Biol. 2018 Jun;9:22-31. doi: 10.1016/j.coisb.2018.02.004. Epub 2018 Feb 22.


Multi-modal Analgesic Strategies for Trauma (MAST): protocol for a pragmatic randomized trial.

Harvin JA, Green CE, Vincent LE, Motley KL, Podbielski J, Miller CC, Tyson JE, Holcomb JB, Wade CE, Kao LS.

Trauma Surg Acute Care Open. 2018 Aug 19;3(1):e000192. doi: 10.1136/tsaco-2018-000192. eCollection 2018.


The Effect of Comprehensive Medical Care on the Long-Term Outcomes of Children Discharged from the NICU with Tracheostomy.

De Jesus-Rojas W, Mosquera RA, Samuels C, Eapen J, Gonzales T, Harris T, McKay S, Boricha F, Pedroza C, Aneji C, Khan A, Jon C, McBeth K, Stark J, Yadav A, Tyson JE.

Open Respir Med J. 2018 Jul 31;12:39-49. doi: 10.2174/1874306401812010039. eCollection 2018.


Randomized Quality Improvement Trial of Opting-In Versus Opting-Out to Increase Influenza Vaccination Rates during Pregnancy.

Wootton SH, Blackwell SC, Saade G, Berens PD, Hutchinson M, Green CE, Sridhar S, Elam KM, Tyson JE.

AJP Rep. 2018 Jul;8(3):e161-e167. doi: 10.1055/s-0038-1668566. Epub 2018 Aug 28.


A novel panel of short mononucleotide repeats linked to informative polymorphisms enabling effective high volume low cost discrimination between mismatch repair deficient and proficient tumours.

Redford L, Alhilal G, Needham S, O'Brien O, Coaker J, Tyson J, Amorim LM, Middleton I, Izuogu O, Arends M, Oniscu A, Alonso ÁM, Laguna SM, Gallon R, Sheth H, Santibanez-Koref M, Jackson MS, Burn J.

PLoS One. 2018 Aug 29;13(8):e0203052. doi: 10.1371/journal.pone.0203052. eCollection 2018.


Quasi-Newton Stochastic Optimization Algorithm for Parameter Estimation of a Stochastic Model of the Budding Yeast Cell Cycle.

Chen M, Amos BD, Watson LT, Tyson JJ, Cao Y, Shaffer CA, Trosset MW, Oguz C, Kakoti G.

IEEE/ACM Trans Comput Biol Bioinform. 2019 Jan-Feb;16(1):301-311. doi: 10.1109/TCBB.2017.2773083. Epub 2017 Nov 14.


Training, Education, and Curriculum Development for the Pediatric Psychiatry Emergency Service.

Egolf A, Hoffman P, Mroczkowski MM, Prager LM, Tyson JW Jr, Donise K.

Child Adolesc Psychiatr Clin N Am. 2018 Jul;27(3):501-509. doi: 10.1016/j.chc.2018.02.006. Epub 2018 Apr 12. Review.


Use of Urea Wash ELISA to Distinguish Zika and Dengue Virus Infections.

Tsai WY, Youn HH, Tyson J, Brites C, Tsai JJ, Pedroso C, Drexler JF, Balmaseda A, Harris E, Wang WK.

Emerg Infect Dis. 2018 Jul;24(7):1355-1359. doi: 10.3201/eid2407.171170.


Protocol for a randomized trial of the effect of timing of cholecystectomy during initial admission for predicted mild gallstone pancreatitis at a safety-net hospital.

Mueck KM, Wei S, Liang MK, Ko TC, Tyson JE, Kao LS.

Trauma Surg Acute Care Open. 2018 Jan 20;3(1):e000152. doi: 10.1136/tsaco-2017-000152. eCollection 2018.


Type II Secretion-Dependent Aminopeptidase LapA and Acyltransferase PlaC Are Redundant for Nutrient Acquisition during Legionella pneumophila Intracellular Infection of Amoebas.

White RC, Gunderson FF, Tyson JY, Richardson KH, Portlock TJ, Garnett JA, Cianciotto NP.

MBio. 2018 Apr 17;9(2). pii: e00528-18. doi: 10.1128/mBio.00528-18.


The current landscape of nucleic acid tests for filovirus detection.

Clark DJ, Tyson J, Sails AD, Krishna S, Staines HM.

J Clin Virol. 2018 Jun;103:27-36. doi: 10.1016/j.jcv.2018.03.005. Epub 2018 Mar 22. Review.


Peripheral nerve injury increases contribution of L-type calcium channels to synaptic transmission in spinal lamina II: Role of α2δ-1 subunits.

Alles SR, Garcia E, Balasubramanyan S, Jones K, Tyson JR, Joy T, Snutch TP, Smith PA.

Mol Pain. 2018 Jan-Dec;14:1744806918765806. doi: 10.1177/1744806918765806.


Rationale and Design of a Statewide Cohort to examine efficient resource utilization for patients with Intracerebral hemorrhage (EnRICH).

Vahidy FS, Meyer EG, Bambhroliya AB, Meeks JR, Begley CE, Wu TC, Tyson JE, Miller CC, Bowry R, Ahmed WO, Gealogo GA, McCullough LD, Warach S, Savitz SI.

BMC Neurol. 2018 Mar 21;18(1):31. doi: 10.1186/s12883-018-1036-1.


CaV 3.2 drives sustained burst-firing, which is critical for absence seizure propagation in reticular thalamic neurons.

Cain SM, Tyson JR, Choi HB, Ko R, Lin PJC, LeDue JM, Powell KL, Bernier LP, Rungta RL, Yang Y, Cullis PR, O'Brien TJ, MacVicar BA, Snutch TP.

Epilepsia. 2018 Apr;59(4):778-791. doi: 10.1111/epi.14018. Epub 2018 Feb 21.


Modeling the interactions of sense and antisense Period transcripts in the mammalian circadian clock network.

Battogtokh D, Kojima S, Tyson JJ.

PLoS Comput Biol. 2018 Feb 15;14(2):e1005957. doi: 10.1371/journal.pcbi.1005957. eCollection 2018 Feb.


CrossPlan: systematic planning of genetic crosses to validate mathematical models.

Pratapa A, Adames N, Kraikivski P, Franzese N, Tyson JJ, Peccoud J, Murali TM.

Bioinformatics. 2018 Jul 1;34(13):2237-2244. doi: 10.1093/bioinformatics/bty072.


Nanopore sequencing and assembly of a human genome with ultra-long reads.

Jain M, Koren S, Miga KH, Quick J, Rand AC, Sasani TA, Tyson JR, Beggs AD, Dilthey AT, Fiddes IT, Malla S, Marriott H, Nieto T, O'Grady J, Olsen HE, Pedersen BS, Rhie A, Richardson H, Quinlan AR, Snutch TP, Tee L, Paten B, Phillippy AM, Simpson JT, Loman NJ, Loose M.

Nat Biotechnol. 2018 Apr;36(4):338-345. doi: 10.1038/nbt.4060. Epub 2018 Jan 29.


MinION-based long-read sequencing and assembly extends the Caenorhabditis elegans reference genome.

Tyson JR, O'Neil NJ, Jain M, Olsen HE, Hieter P, Snutch TP.

Genome Res. 2018 Feb;28(2):266-274. doi: 10.1101/gr.221184.117. Epub 2017 Dec 22.


Office blood pressure measurement alone often misclassifies treatment status in children with primary hypertension.

Samuel JP, Bell CS, Hebert SA, Varughese A, Samuels JA, Tyson JE.

Blood Press Monit. 2017 Dec;22(6):328-332. doi: 10.1097/MBP.0000000000000299.


Effect of Therapeutic Hypothermia Initiated After 6 Hours of Age on Death or Disability Among Newborns With Hypoxic-Ischemic Encephalopathy: A Randomized Clinical Trial.

Laptook AR, Shankaran S, Tyson JE, Munoz B, Bell EF, Goldberg RN, Parikh NA, Ambalavanan N, Pedroza C, Pappas A, Das A, Chaudhary AS, Ehrenkranz RA, Hensman AM, Van Meurs KP, Chalak LF, Khan AM, Hamrick SEG, Sokol GM, Walsh MC, Poindexter BB, Faix RG, Watterberg KL, Frantz ID 3rd, Guillet R, Devaskar U, Truog WE, Chock VY, Wyckoff MH, McGowan EC, Carlton DP, Harmon HM, Brumbaugh JE, Cotten CM, Sánchez PJ, Hibbs AM, Higgins RD; Eunice Kennedy Shriver National Institute of Child Health and Human Development Neonatal Research Network.

JAMA. 2017 Oct 24;318(16):1550-1560. doi: 10.1001/jama.2017.14972. Erratum in: JAMA. 2018 Mar 13;319(10 ):1051. Khan AM [added].


Distinguishing Secondary Dengue Virus Infection From Zika Virus Infection With Previous Dengue by a Combination of 3 Simple Serological Tests.

Tsai WY, Youn HH, Brites C, Tsai JJ, Tyson J, Pedroso C, Drexler JF, Stone M, Simmons G, Busch MP, Lanteri M, Stramer SL, Balmaseda A, Harris E, Wang WK.

Clin Infect Dis. 2017 Nov 13;65(11):1829-1836. doi: 10.1093/cid/cix672.


GraphSpace: stimulating interdisciplinary collaborations in network biology.

Bharadwaj A, Singh DP, Ritz A, Tegge AN, Poirel CL, Kraikivski P, Adames N, Luther K, Kale SD, Peccoud J, Tyson JJ, Murali TM.

Bioinformatics. 2017 Oct 1;33(19):3134-3136. doi: 10.1093/bioinformatics/btx382.


Cell-cycle transitions: a common role for stoichiometric inhibitors.

Hopkins M, Tyson JJ, Novák B.

Mol Biol Cell. 2017 Nov 7;28(23):3437-3446. doi: 10.1091/mbc.E17-06-0349. Epub 2017 Sep 20.


Predator Versus Pathogen: How Does Predatory Bdellovibrio bacteriovorus Interface with the Challenges of Killing Gram-Negative Pathogens in a Host Setting?

Negus D, Moore C, Baker M, Raghunathan D, Tyson J, Sockett RE.

Annu Rev Microbiol. 2017 Sep 8;71:441-457. doi: 10.1146/annurev-micro-090816-093618. Review.


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