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Clinical outcomes following advanced respiratory motion management (respiratory gating or dynamic tumor tracking) with stereotactic body radiation therapy for stage I non-small-cell lung cancer.

Aridgides P, Nsouli T, Chaudhari R, Kincaid R, Rosenbaum PF, Tanny S, Mix M, Bogart J.

Lung Cancer (Auckl). 2018 Nov 5;9:103-110. doi: 10.2147/LCTT.S175168. eCollection 2018.


Antenatal breastfeeding self-efficacy and breastfeeding outcomes among mothers participating in a feasibility breastfeeding-support intervention.

O'Sullivan EJ, Alberdi G, Scully H, Kelly N, Kincaid R, Murtagh R, Murray S, McGuinness D, Clive A, Brosnan M, Sheehy L, Dunn E, McAuliffe FM.

Ir J Med Sci. 2019 May;188(2):569-578. doi: 10.1007/s11845-018-1884-0. Epub 2018 Aug 21.


Identification of virus-encoded microRNAs in divergent Papillomaviruses.

Chirayil R, Kincaid RP, Dahlke C, Kuny CV, Dälken N, Spohn M, Lawson B, Grundhoff A, Sullivan CS.

PLoS Pathog. 2018 Jul 26;14(7):e1007156. doi: 10.1371/journal.ppat.1007156. eCollection 2018 Jul.


RNA triphosphatase DUSP11 enables exonuclease XRN-mediated restriction of hepatitis C virus.

Kincaid RP, Lam VL, Chirayil RP, Randall G, Sullivan CS.

Proc Natl Acad Sci U S A. 2018 Aug 7;115(32):8197-8202. doi: 10.1073/pnas.1802326115. Epub 2018 Jul 23.


Optimization of a microfluidics-based next generation sequencing assay for clinical oncology diagnostics.

Henzler C, Schomaker M, Yang R, Lambert AP, LaRue R, Kincaid R, Beckman K, Kemmer T, Wilson J, Yohe S, Thyagarajan B, Nelson AC.

Ann Transl Med. 2018 May;6(9):162. doi: 10.21037/atm.2018.05.07.


The Murine Polyomavirus MicroRNA Locus Is Required To Promote Viruria during the Acute Phase of Infection.

Burke JM, Bass CR, Kincaid RP, Ulug ET, Sullivan CS.

J Virol. 2018 Jul 31;92(16). pii: e02131-17. doi: 10.1128/JVI.02131-17. Print 2018 Aug 15.


Evaluation of respiratory motion-corrected cone-beam CT at end expiration in abdominal radiotherapy sites: a prospective study.

Kincaid RE Jr, Hertanto AE, Hu YC, Wu AJ, Goodman KA, Pham HD, Yorke ED, Zhang Q, Chen Q, Mageras GS.

Acta Oncol. 2018 Aug;57(8):1017-1024. doi: 10.1080/0284186X.2018.1427885. Epub 2018 Jan 19.


A feasibility study of a multidimensional breastfeeding-support intervention in Ireland.

Alberdi G, O'Sullivan EJ, Scully H, Kelly N, Kincaid R, Murtagh R, Murray S, McGuinness D, Clive A, Brosnan M, Sheehy L, Dunn E, McAuliffe FM.

Midwifery. 2018 Mar;58:86-92. doi: 10.1016/j.midw.2017.12.018. Epub 2017 Dec 24.


MMTV does not encode viral microRNAs but alters the levels of cancer-associated host microRNAs.

Kincaid RP, Panicker NG, Lozano MM, Sullivan CS, Dudley JP, Mustafa F.

Virology. 2018 Jan 1;513:180-187. doi: 10.1016/j.virol.2017.09.030. Epub 2017 Nov 5.


Optimal detection of clinically relevant mutations in colorectal carcinoma: sample pooling overcomes intra-tumoral heterogeneity.

Nelson AC, Boone J, Cartwright D, Thyagarajan B, Kincaid R, Lambert AP, Karnuth K, Henzler C, Yohe S.

Mod Pathol. 2018 Feb;31(2):343-349. doi: 10.1038/modpathol.2017.120. Epub 2017 Oct 13.


Expression of short hairpin RNAs using the compact architecture of retroviral microRNA genes.

Burke JM, Kincaid RP, Aloisio F, Welch N, Sullivan CS.

Nucleic Acids Res. 2017 Sep 29;45(17):e154. doi: 10.1093/nar/gkx653.


Temporal Effects on Internal Fluorescence Emissions Associated with Aflatoxin Contamination from Corn Kernel Cross-Sections Inoculated with Toxigenic and Atoxigenic Aspergillus flavus.

Hruska Z, Yao H, Kincaid R, Brown RL, Bhatnagar D, Cleveland TE.

Front Microbiol. 2017 Sep 15;8:1718. doi: 10.3389/fmicb.2017.01718. eCollection 2017.


A novel use of QR code stickers after orthopaedic cast application.

Gough AT, Fieraru G, Gaffney P, Butler M, Kincaid RJ, Middleton RG.

Ann R Coll Surg Engl. 2017 Jul;99(6):476-478. doi: 10.1308/rcsann.2017.0070.


Lessons Learned from In Vivo Studies of a Viral Noncoding RNA.

Kincaid RP, Sullivan CS.

mSphere. 2016 Mar 2;1(2). pii: e00026-16. doi: 10.1128/mSphere.00026-16. eCollection 2016 Mar-Apr.


Correction for Chen et al., Divergent MicroRNA Targetomes of Closely Related Circulating Strains of a Polyomavirus.

Chen CJ, Cox JE, Kincaid RP, Martinez A, Sullivan CS.

J Virol. 2016 Jan 28;90(4):2157-8. doi: 10.1128/JVI.02954-15. Print 2016 Feb 15. No abstract available.


Arthropod Vectors and Disease Transmission: Translational Aspects.

Leitner WW, Wali T, Kincaid R, Costero-Saint Denis A.

PLoS Negl Trop Dis. 2015 Nov 19;9(11):e0004107. doi: 10.1371/journal.pntd.0004107. eCollection 2015 Nov. No abstract available.


Identification, validation, and characterization of noncanonical miRNAs.

Burke JM, Kuny CV, Kincaid RP, Sullivan CS.

Methods. 2015 Dec;91:57-68. doi: 10.1016/j.ymeth.2015.07.013. Epub 2015 Jul 22.


Identification of tri-phosphatase activity in the biogenesis of retroviral microRNAs and RNAP III-generated shRNAs.

Burke JM, Bass CR, Kincaid RP, Sullivan CS.

Nucleic Acids Res. 2014 Dec 16;42(22):13949-62. doi: 10.1093/nar/gku1247. Epub 2014 Nov 26.


Evaluation of tumor localization in respiration motion-corrected cone-beam CT: prospective study in lung.

Dzyubak O, Kincaid R, Hertanto A, Hu YC, Pham H, Rimner A, Yorke E, Zhang Q, Mageras GS.

Med Phys. 2014 Oct;41(10):101918. doi: 10.1118/1.4896101.


Naturally arising strains of polyomaviruses with severely attenuated microRNA expression.

Chen CJ, Burke JM, Kincaid RP, Azarm KD, Mireles N, Butel JS, Sullivan CS.

J Virol. 2014 Nov;88(21):12683-93. doi: 10.1128/JVI.01933-14. Epub 2014 Aug 20.


A central role for the primary microRNA stem in guiding the position and efficiency of Drosha processing of a viral pri-miRNA.

Burke JM, Kelenis DP, Kincaid RP, Sullivan CS.

RNA. 2014 Jul;20(7):1068-77. doi: 10.1261/rna.044537.114. Epub 2014 May 22.


Co-inoculation of aflatoxigenic and non-aflatoxigenic strains of Aspergillus flavus to study fungal invasion, colonization, and competition in maize kernels.

Hruska Z, Rajasekaran K, Yao H, Kincaid R, Darlington D, Brown RL, Bhatnagar D, Cleveland TE.

Front Microbiol. 2014 Mar 27;5:122. doi: 10.3389/fmicb.2014.00122. eCollection 2014.


Noncanonical microRNA (miRNA) biogenesis gives rise to retroviral mimics of lymphoproliferative and immunosuppressive host miRNAs.

Kincaid RP, Chen Y, Cox JE, Rethwilm A, Sullivan CS.

MBio. 2014 Apr 8;5(2):e00074. doi: 10.1128/mBio.00074-14.


Directed evolution of the substrate specificity of biotin ligase.

Lu WC, Levy M, Kincaid R, Ellington AD.

Biotechnol Bioeng. 2014 Jun;111(6):1071-81. doi: 10.1002/bit.25176. Epub 2014 Jan 25.


A human torque teno virus encodes a microRNA that inhibits interferon signaling.

Kincaid RP, Burke JM, Cox JC, de Villiers EM, Sullivan CS.

PLoS Pathog. 2013;9(12):e1003818. doi: 10.1371/journal.ppat.1003818. Epub 2013 Dec 19.


Reciprocal inhibition between intracellular antiviral signaling and the RNAi machinery in mammalian cells.

Seo GJ, Kincaid RP, Phanaksri T, Burke JM, Pare JM, Cox JE, Hsiang TY, Krug RM, Sullivan CS.

Cell Host Microbe. 2013 Oct 16;14(4):435-45. doi: 10.1016/j.chom.2013.09.002. Epub 2013 Sep 26.


Comprehensive mapping and analysis of Kaposi's sarcoma-associated herpesvirus 3' UTRs identify differential posttranscriptional control of gene expression in lytic versus latent infection.

McClure LV, Kincaid RP, Burke JM, Grundhoff A, Sullivan CS.

J Virol. 2013 Dec;87(23):12838-49. doi: 10.1128/JVI.02374-13. Epub 2013 Sep 25.


Fluorescence imaging spectroscopy (FIS) for comparing spectra from corn ears naturally and artificially infected with aflatoxin producing fungus.

Hruska Z, Yao H, Kincaid R, Darlington D, Brown RL, Bhatnagar D, Cleveland TE.

J Food Sci. 2013 Aug;78(8):T1313-20. doi: 10.1111/1750-3841.12202.


Divergent MicroRNA targetomes of closely related circulating strains of a polyomavirus.

Chen CJ, Cox JE, Kincaid RP, Martinez A, Sullivan CS.

J Virol. 2013 Oct;87(20):11135-47. doi: 10.1128/JVI.01711-13. Epub 2013 Aug 7. Erratum in: J Virol. 2016 Feb 15;90(4):2157-8.


Investigation of gated cone-beam CT to reduce respiratory motion blurring.

Kincaid RE Jr, Yorke ED, Goodman KA, Rimner A, Wu AJ, Mageras GS.

Med Phys. 2013 Apr;40(4):041717. doi: 10.1118/1.4795336.


Virus-encoded microRNAs: an overview and a look to the future.

Kincaid RP, Sullivan CS.

PLoS Pathog. 2012 Dec;8(12):e1003018. doi: 10.1371/journal.ppat.1003018. Epub 2012 Dec 20. Review.


RIDDLE: reflective diffusion and local extension reveal functional associations for unannotated gene sets via proximity in a gene network.

Wang PI, Hwang S, Kincaid RP, Sullivan CS, Lee I, Marcotte EM.

Genome Biol. 2012 Dec 26;13(12):R125. doi: 10.1186/gb-2012-13-12-r125.


The use of double abdominal braces in knee replacement.

Woodacre T, Wilkinson L, Ball T, Kincaid RJ.

Ann R Coll Surg Engl. 2012 Sep;94(6):442-3. doi: 10.1308/003588412X13373405386015i. No abstract available.


Effectiveness of potassium carbonate sesquihydrate to increase dietary cation-anion difference in early lactation cows.

Harrison J, White R, Kincaid R, Block E, Jenkins T, St-Pierre N.

J Dairy Sci. 2012 Jul;95(7):3919-25. doi: 10.3168/jds.2011-4840.


SU-E-J-119: Comparative Evaluation of Respiratory Motion-Corrected Cone-Beam CT Images Derived from Treatment-Day Vs. Simulation-Day Respiration-Correlated CT Scans.

Dzyubak O, Kincaid R, Yorke E, Hertanto A, Hu Y, Rimner A, Zhang Q, Mageras G.

Med Phys. 2012 Jun;39(6Part7):3679-3680. doi: 10.1118/1.4734954.


Evaluation of deformable image registration and a motion model in CT images with limited features.

Liu F, Hu Y, Zhang Q, Kincaid R, Goodman KA, Mageras GS.

Phys Med Biol. 2012 May 7;57(9):2539-54. doi: 10.1088/0031-9155/57/9/2539. Epub 2012 Apr 11.


RNA virus microRNA that mimics a B-cell oncomiR.

Kincaid RP, Burke JM, Sullivan CS.

Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):3077-82. doi: 10.1073/pnas.1116107109. Epub 2012 Jan 30.


Insights into Polyomaviridae microRNA function derived from study of the bandicoot papillomatosis carcinomatosis viruses.

Chen CJ, Kincaid RP, Seo GJ, Bennett MD, Sullivan CS.

J Virol. 2011 May;85(9):4487-500. doi: 10.1128/JVI.02557-10. Epub 2011 Feb 23.


SignalLens: Focus+Context applied to electronic time series.

Kincaid R.

IEEE Trans Vis Comput Graph. 2010 Nov-Dec;16(6):900-7. doi: 10.1109/TVCG.2010.193.


Small RNA profiling reveals antisense transcription throughout the KSHV genome and novel small RNAs.

Lin YT, Kincaid RP, Arasappan D, Dowd SE, Hunicke-Smith SP, Sullivan CS.

RNA. 2010 Aug;16(8):1540-58. doi: 10.1261/rna.1967910. Epub 2010 Jun 21.


DNA-based fish species identification protocol.

Formosa R, Ravi H, Happe S, Huffman D, Novoradovskaya N, Kincaid R, Garrett S.

J Vis Exp. 2010 Apr 28;(38). pii: 1871. doi: 10.3791/1871.


Correlation and classification of single kernel fluorescence hyperspectral data with aflatoxin concentration in corn kernels inoculated with Aspergillus flavus spores.

Yao H, Hruska Z, Kincaid R, Brown R, Cleveland T, Bhatnagar D.

Food Addit Contam Part A Chem Anal Control Expo Risk Assess. 2010 May;27(5):701-9. doi: 10.1080/19440040903527368.


K(alpha) x-ray emission characterization of 100 Hz, 15 mJ femtosecond laser system with high contrast ratio.

Fourmaux S, Serbanescu C, Kincaid RE, Krol A, Kieffer JC.

Appl Phys B. 2008 Dec 12;94(4):569-575.


A K-alpha x-ray source using high energy and high repetition rate laser system for phase contrast imaging.

Serbanescu C, Fourmaux S, Kieffer JC, Kincaid R, Krol A.

Proc SPIE Int Soc Opt Eng. 2009 Jan 1;7451:745115.


Body weight loss in beef cows: II. Increased antioxidant messenger ribonucleic acid levels in skeletal muscle but not erythrocyte antioxidant activity.

Brennan KM, Terry EN, Michal JJ, Kincaid RL, Johnson KA.

J Anim Sci. 2009 Sep;87(9):2867-73. doi: 10.2527/jas.2008-1301. Epub 2009 May 22.


Cerebral: visualizing multiple experimental conditions on a graph with biological context.

Barsky A, Munzner T, Gardy J, Kincaid R.

IEEE Trans Vis Comput Graph. 2008 Nov-Dec;14(6):1253-60. doi: 10.1109/TVCG.2008.117.


VistaClara: an expression browser plug-in for Cytoscape.

Kincaid R, Kuchinsky A, Creech M.

Bioinformatics. 2008 Sep 15;24(18):2112-4. doi: 10.1093/bioinformatics/btn368. Epub 2008 Aug 4.


PROCAM Study: risk prediction for myocardial infarction using microfluidic high-density lipoprotein (HDL) subfractionation is independent of HDL cholesterol.

Mueller O, Chang E, Deng D, Franz T, Jing D, Kincaid R, Konigshofer Y, Kratzmeier M, McNulty M, Qian H, Schneider J, Schulte H, Seedorf U, Tian X, Van Cleve M, Yang D, Assmann G.

Clin Chem Lab Med. 2008;46(4):490-8. doi: 10.1515/CCLM.2008.117.


Heterologous protein expression is enhanced by harmonizing the codon usage frequencies of the target gene with those of the expression host.

Angov E, Hillier CJ, Kincaid RL, Lyon JA.

PLoS One. 2008 May 14;3(5):e2189. doi: 10.1371/journal.pone.0002189.

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