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DNA damage Kills Bacterial Spores and Cells Exposed to 222 nm UV Radiation.

Taylor W, Camilleri E, Craft DL, Korza G, Rocha Granados M, Peterson J, Szczpaniak R, Weller SK, Moeller R, Douki T, Mok WWK, Setlow P.

Appl Environ Microbiol. 2020 Feb 7. pii: AEM.03039-19. doi: 10.1128/AEM.03039-19. [Epub ahead of print]


Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.

Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzós A, Herrmann C, Maruvka YE, Shen C, Amin SB, Bandopadhayay P, Bertl J, Boroevich KA, Busanovich J, Carlevaro-Fita J, Chakravarty D, Chan CWY, Craft D, Dhingra P, Diamanti K, Fonseca NA, Gonzalez-Perez A, Guo Q, Hamilton MP, Haradhvala NJ, Hong C, Isaev K, Johnson TA, Juul M, Kahles A, Kahraman A, Kim Y, Komorowski J, Kumar K, Kumar S, Lee D, Lehmann KV, Li Y, Liu EM, Lochovsky L, Park K, Pich O, Roberts ND, Saksena G, Schumacher SE, Sidiropoulos N, Sieverling L, Sinnott-Armstrong N, Stewart C, Tamborero D, Tubio JMC, Umer HM, Uusküla-Reimand L, Wadelius C, Wadi L, Yao X, Zhang CZ, Zhang J, Haber JE, Hobolth A, Imielinski M, Kellis M, Lawrence MS, von Mering C, Nakagawa H, Raphael BJ, Rubin MA, Sander C, Stein LD, Stuart JM, Tsunoda T, Wheeler DA, Johnson R, Reimand J, Gerstein M, Khurana E, Campbell PJ, López-Bigas N; PCAWG Drivers and Functional Interpretation Working Group; PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G; PCAWG Consortium.

Nature. 2020 Feb;578(7793):102-111. doi: 10.1038/s41586-020-1965-x. Epub 2020 Feb 5.


The influence of the probability density function on spectral quality in nonuniformly sampled multidimensional NMR.

Zambrello MA, Craft DL, Hoch JC, Rovnyak D, Schuyler AD.

J Magn Reson. 2020 Feb;311:106671. doi: 10.1016/j.jmr.2019.106671. Epub 2019 Dec 20.


Developing Nonuniform Sampling Strategies to Improve Sensitivity and Resolution in 1,1-ADEQUATE Experiments.

Roginkin MS, Ndukwe IE, Craft DL, Williamson RT, Reibarkh M, Martin GE, Rovnyak D.

Magn Reson Chem. 2020 Jan 8. doi: 10.1002/mrc.4995. [Epub ahead of print]


Technical Note: Improving VMAT delivery efficiency by optimizing the dynamic collimator trajectory.

Bokrantz R, van Amerongen JHM, Craft D.

Med Phys. 2019 Sep;46(9):3877-3882. doi: 10.1002/mp.13671. Epub 2019 Jul 17.


Adaptable microfluidic system for single-cell pathogen classification and antimicrobial susceptibility testing.

Li H, Torab P, Mach KE, Surrette C, England MR, Craft DW, Thomas NJ, Liao JC, Puleo C, Wong PK.

Proc Natl Acad Sci U S A. 2019 May 21;116(21):10270-10279. doi: 10.1073/pnas.1819569116. Epub 2019 May 8.


Impact of setup and range uncertainties on TCP and NTCP following VMAT or IMPT of oropharyngeal cancer patients.

Hamming-Vrieze O, Depauw N, Craft DL, Chan AW, Rasch CRN, Verheij M, Sonke JJ, Kooy HM.

Phys Med Biol. 2019 Apr 23;64(9):095001. doi: 10.1088/1361-6560/ab1459.


Simulation-assisted machine learning.

Deist TM, Patti A, Wang Z, Krane D, Sorenson T, Craft D.

Bioinformatics. 2019 Oct 15;35(20):4072-4080. doi: 10.1093/bioinformatics/btz199.


Development and validation of a 3D-printed bolus cap for total scalp irradiation.

Baltz GC, Chi PM, Wong PF, Wang C, Craft DF, Kry SF, Lin SSH, Garden AS, Smith SA, Howell RM.

J Appl Clin Med Phys. 2019 Mar;20(3):89-96. doi: 10.1002/acm2.12552. Epub 2019 Mar 1.


Nanotube assisted microwave electroporation for single cell pathogen identification and antimicrobial susceptibility testing.

Gao J, Li H, Torab P, Mach KE, Craft DW, Thomas NJ, Puleo CM, Liao JC, Wang TH, Wong PK.

Nanomedicine. 2019 Apr;17:246-253. doi: 10.1016/j.nano.2019.01.015. Epub 2019 Feb 20.


Campylobacter culture fails to correctly detect Campylobacter in 30% of positive patient stool specimens compared to non-cultural methods.

Buss JE, Cresse M, Doyle S, Buchan BW, Craft DW, Young S.

Eur J Clin Microbiol Infect Dis. 2019 Jun;38(6):1087-1093. doi: 10.1007/s10096-019-03499-x. Epub 2019 Feb 19.


Functional Movement Analysis Before and After Instrument-Assisted Soft Tissue Mobilization.

Gamboa AJ, Craft DR, Matos JA, Flink TS, Mokris RL.

Int J Exerc Sci. 2019 Jan 1;12(3):46-56. eCollection 2019.


Practical guidelines for handling head and neck computed tomography artifacts for quantitative image analysis.

Ger RB, Craft DF, Mackin DS, Zhou S, Layman RR, Jones AK, Elhalawani H, Fuller CD, Howell RM, Li H, Stafford RJ, Court LE.

Comput Med Imaging Graph. 2018 Nov;69:134-139. doi: 10.1016/j.compmedimag.2018.09.002. Epub 2018 Sep 15.


Establishing a Long-Term Model for Analysis and Improvement of Underfilled Blood Culture Volumes.

Zaleski M, Erdman P, Adams J, Michael A, Rudy A, Boesch R, Allison L, Mailander P, Hess W, Myers D, Craft D.

Am J Clin Pathol. 2019 Jan 7;151(2):164-170. doi: 10.1093/ajcp/aqy125.


The clinical target distribution: a probabilistic alternative to the clinical target volume.

Shusharina N, Craft D, Chen YL, Shih H, Bortfeld T.

Phys Med Biol. 2018 Jul 24;63(15):155001. doi: 10.1088/1361-6560/aacfb4.


3D printing technology will eventually eliminate the need of purchasing commercial phantoms for clinical medical physics QA procedures.

Ehler E, Craft D, Rong Y.

J Appl Clin Med Phys. 2018 Jul;19(4):8-12. doi: 10.1002/acm2.12392. Epub 2018 Jun 26. No abstract available.


Material matters: Analysis of density uncertainty in 3D printing and its consequences for radiation oncology.

Craft DF, Kry SF, Balter P, Salehpour M, Woodward W, Howell RM.

Med Phys. 2018 Apr;45(4):1614-1621. doi: 10.1002/mp.12839. Epub 2018 Mar 25.


Nonuniform sampling by quantiles.

Craft DL, Sonstrom RE, Rovnyak VG, Rovnyak D.

J Magn Reson. 2018 Mar;288:109-121. doi: 10.1016/j.jmr.2018.01.014. Epub 2018 Feb 13.


Optimizing highly noncoplanar VMAT trajectories: the NoVo method.

Langhans M, Unkelbach J, Bortfeld T, Craft D.

Phys Med Biol. 2018 Jan 16;63(2):025023. doi: 10.1088/1361-6560/aaa36d.


Multicriteria plan optimization in the hands of physicians: a pilot study in prostate cancer and brain tumors.

Müller BS, Shih HA, Efstathiou JA, Bortfeld T, Craft D.

Radiat Oncol. 2017 Nov 6;12(1):168. doi: 10.1186/s13014-017-0903-z.


The value of prior knowledge in machine learning of complex network systems.

Ferranti D, Krane D, Craft D.

Bioinformatics. 2017 Nov 15;33(22):3610-3618. doi: 10.1093/bioinformatics/btx438.


Preparation and fabrication of a full-scale, sagittal-sliced, 3D-printed, patient-specific radiotherapy phantom.

Craft DF, Howell RM.

J Appl Clin Med Phys. 2017 Sep;18(5):285-292. doi: 10.1002/acm2.12162. Epub 2017 Aug 30.


Viable bacteria persist on antibiotic spacers following two-stage revision for periprosthetic joint infection.

Ma D, Shanks RMQ, Davis CM 3rd, Craft DW, Wood TK, Hamlin BR, Urish KL.

J Orthop Res. 2018 Jan;36(1):452-458. doi: 10.1002/jor.23611. Epub 2017 Jun 28.


Fast approximate delivery of fluence maps for IMRT and VMAT.

Balvert M, Craft D.

Phys Med Biol. 2017 Feb 21;62(4):1225-1247. doi: 10.1088/1361-6560/aa56b6. Epub 2017 Jan 4.


Volumetric-modulated arc therapy using multicriteria optimization for body and extremity sarcoma.

Young MR, Craft DL, Colbert CM, Remillard K, Vanbenthuysen L, Wang Y.

J Appl Clin Med Phys. 2016 Nov 8;17(6):283-291. doi: 10.1120/jacmp.v17i6.6547.


The Price of Target Dose Uniformity.

Craft D, Khan F, Young M, Bortfeld T.

Int J Radiat Oncol Biol Phys. 2016 Nov 15;96(4):913-914. doi: 10.1016/j.ijrobp.2016.07.033. Epub 2016 Jul 30. No abstract available.


Severe Babesia microti Infection in an Immunocompetent Host in Pennsylvania.

Genda J, Negron EA, Lotfipour M, Balabhadra S, Desai DS, Craft DW, Katzman M.

J Investig Med High Impact Case Rep. 2016 Aug 22;4(3):2324709616663774. doi: 10.1177/2324709616663774. eCollection 2016 Jul-Sep.


A Teenager With Sacroileitis, Rash and Fever Caused by Streptobacillus moniliformis Bacteremia.

Gill NK, Craft D, Crook T, Dossett J.

Pediatr Infect Dis J. 2016 Dec;35(12):1364-1366.


Pathway-Informed Classification System (PICS) for Cancer Analysis Using Gene Expression Data.

Young MR, Craft DL.

Cancer Inform. 2016 Jul 27;15:151-61. doi: 10.4137/CIN.S40088. eCollection 2016.


A Greedy reassignment algorithm for the PBS minimum monitor unit constraint.

Lin Y, Kooy H, Craft D, Depauw N, Flanz J, Clasie B.

Phys Med Biol. 2016 Jun 21;61(12):4665-78. doi: 10.1088/0031-9155/61/12/4665. Epub 2016 Jun 1.


A Multiplex Electrochemical Biosensor for Bloodstream Infection Diagnosis.

Gao J, Jeffries L, Mach KE, Craft DW, Thomas NJ, Gau V, Liao JC, Wong PK.

SLAS Technol. 2017 Aug;22(4):466-474. doi: 10.1177/2211068216651232. Epub 2016 May 25.


Within the next five years, most radiotherapy treatment schedules will be designed using spatiotemporal optimization.

Kim M, Craft DL.

Med Phys. 2016 May;43(5):2009. doi: 10.1118/1.4943383. No abstract available.


Detection of Nicotiana DNA in Tobacco Products Using a Novel Multiplex Real-Time PCR Assay.

Korchinski KL, Land AD, Craft DL, Brzezinski JL.

J AOAC Int. 2016 Jul;99(4):1038-1042. doi: 10.5740/jaoacint.16-0008. Epub 2016 May 3.


Antibiotic-tolerant Staphylococcus aureus Biofilm Persists on Arthroplasty Materials.

Urish KL, DeMuth PW, Kwan BW, Craft DW, Ma D, Haider H, Tuan RS, Wood TK, Davis CM 3rd.

Clin Orthop Relat Res. 2016 Jul;474(7):1649-56. doi: 10.1007/s11999-016-4720-8.


Multi-criteria optimization achieves superior normal tissue sparing in a planning study of intensity-modulated radiation therapy for RTOG 1308-eligible non-small cell lung cancer patients.

Kamran SC, Mueller BS, Paetzold P, Dunlap J, Niemierko A, Bortfeld T, Willers H, Craft D.

Radiother Oncol. 2016 Mar;118(3):515-20. doi: 10.1016/j.radonc.2015.12.028. Epub 2016 Jan 28.


Building an Antimicrobial Stewardship Program: Cooperative Roles for Pharmacists, Infectious Diseases Specialists, and Clinical Microbiologists.

Kim J, Craft DW, Katzman M.

Lab Med. 2015 Summer;46(3):e65-71. doi: 10.1309/LMC0SHRJBY0ONHI9.


Degradation and Stabilization of Peptide Hormones in Human Blood Specimens.

Yi J, Warunek D, Craft D.

PLoS One. 2015 Jul 29;10(7):e0134427. doi: 10.1371/journal.pone.0134427. eCollection 2015.


Carbamate and pyrethroid resistance in the akron strain of Anopheles gambiae.

Mutunga JM, Anderson TD, Craft DT, Gross AD, Swale DR, Tong F, Wong DM, Carlier PR, Bloomquist JR.

Pestic Biochem Physiol. 2015 Jun;121:116-21. doi: 10.1016/j.pestbp.2015.03.001. Epub 2015 Mar 9.


Optimization approaches to volumetric modulated arc therapy planning.

Unkelbach J, Bortfeld T, Craft D, Alber M, Bangert M, Bokrantz R, Chen D, Li R, Xing L, Men C, Nill S, Papp D, Romeijn E, Salari E.

Med Phys. 2015 Mar;42(3):1367-77. doi: 10.1118/1.4908224.


Shared data for intensity modulated radiation therapy (IMRT) optimization research: the CORT dataset.

Craft D, Bangert M, Long T, Papp D, Unkelbach J.

Gigascience. 2014 Dec 12;3(1):37. doi: 10.1186/2047-217X-3-37. eCollection 2014.


Three-dimensional conformal planning with low-segment multicriteria intensity modulated radiation therapy optimization.

Khan F, Craft D.

Pract Radiat Oncol. 2015 Mar-Apr;5(2):e103-11. doi: 10.1016/j.prro.2014.07.001. Epub 2014 Aug 21.


AB5075, a Highly Virulent Isolate of Acinetobacter baumannii, as a Model Strain for the Evaluation of Pathogenesis and Antimicrobial Treatments.

Jacobs AC, Thompson MG, Black CC, Kessler JL, Clark LP, McQueary CN, Gancz HY, Corey BW, Moon JK, Si Y, Owen MT, Hallock JD, Kwak YI, Summers A, Li CZ, Rasko DA, Penwell WF, Honnold CL, Wise MC, Waterman PE, Lesho EP, Stewart RL, Actis LA, Palys TJ, Craft DW, Zurawski DV.

mBio. 2014 May 27;5(3):e01076-14. doi: 10.1128/mBio.01076-14.


Exploiting tumor shrinkage through temporal optimization of radiotherapy.

Unkelbach J, Craft D, Hong T, Papp D, Ramakrishnan J, Salari E, Wolfgang J, Bortfeld T.

Phys Med Biol. 2014 Jun 21;59(12):3059-79. doi: 10.1088/0031-9155/59/12/3059. Epub 2014 May 19.


Bioterrorism: a laboratory who does it?

Craft DW, Lee PA, Rowlinson MC.

J Clin Microbiol. 2014 Jul;52(7):2290-8. doi: 10.1128/JCM.00359-14. Epub 2014 Mar 19. Review.


Plan averaging for multicriteria navigation of sliding window IMRT and VMAT.

Craft D, Papp D, Unkelbach J.

Med Phys. 2014 Feb;41(2):021709. doi: 10.1118/1.4859295.


Pulse lavage is inadequate at removal of biofilm from the surface of total knee arthroplasty materials.

Urish KL, DeMuth PW, Craft DW, Haider H, Davis CM 3rd.

J Arthroplasty. 2014 Jun;29(6):1128-32. doi: 10.1016/j.arth.2013.12.012. Epub 2013 Dec 16.


Multicriteria optimization informed VMAT planning.

Chen H, Craft DL, Gierga DP.

Med Dosim. 2014 Spring;39(1):64-73. doi: 10.1016/j.meddos.2013.10.001. Epub 2013 Dec 19.


Antimicrobial resistance determinants in Acinetobacter baumannii isolates taken from military treatment facilities.

Taitt CR, Leski TA, Stockelman MG, Craft DW, Zurawski DV, Kirkup BC, Vora GJ.

Antimicrob Agents Chemother. 2014;58(2):767-81. doi: 10.1128/AAC.01897-13. Epub 2013 Nov 18.


Guaranteed epsilon-optimal treatment plans with the minimum number of beams for stereotactic body radiation therapy.

Yarmand H, Winey B, Craft D.

Phys Med Biol. 2013 Sep 7;58(17):5931-44. doi: 10.1088/0031-9155/58/17/5931. Epub 2013 Aug 6.


Linear energy transfer-guided optimization in intensity modulated proton therapy: feasibility study and clinical potential.

Giantsoudi D, Grassberger C, Craft D, Niemierko A, Trofimov A, Paganetti H.

Int J Radiat Oncol Biol Phys. 2013 Sep 1;87(1):216-22. doi: 10.1016/j.ijrobp.2013.05.013. Epub 2013 Jun 19.

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