Peer-reviewed publications and book/chapters
Journals References
PMID: 23146145
PMCID: PMC3533927
Badwaik VD, Vangala LM, Pender DS, Willis CB, Aguilar ZP, Gonzalez MS, Paripelly R, Dakshinamurthy R. Size-dependent antimicrobial properties of sugar-encapsulated gold nanoparticles synthesized by a green method. Nanoscale Res Lett. 2012 Nov 12;7(1):623. doi: 10.1186/1556-276X-7-623.
PMID: 23750695Bardgett ME, Henry-Franks J, Colemire K, Juneau K, Stevens R, Griffith MS. Adult rats treated with risperidone during development are hyperactive. Experimental and Clinical Psychopharmacology. (in press).
PMID: 22795155Barker AM, Mathu-Muju KR, Nash DA, Li HF, Bush HM. Practice patterns of general dentists treating children in Kentucky: implications for access to care. Pediatr Dent., 34(3):220-5.
PMID: 22444875Bonfield, K*, E. Amato*, *A. Bankemper, *H. Agard, *J. Steller, *J. Keeler, *D. Roy, *A. McCallum, S. Paula, and L. Ma. 2012. Development of a new class of aromatase inhibitors: design, synthesis and inhibitory activity of 3-phenylchroman-4-one (isoflavanone) derivatives. Bioorganic and Medicinal Chemistry. 2012 Apr 15;20(8):2603-13. doi: 10.1016/j.bmc.2012.02.042. Epub 2012 Feb 27.
PMID: 22795153Bowen JL, Mathu-Muju KR, Nash DA, Chance KB, Bush HM, Li HF. (2012) Pediatric and general dentists' attitudes toward pulp therapy for primary teeth. Peditr Dent., 34(3):210-5.
PMID: 22493684
PMCID: PMC3320903
Breheny P, Chalise P, Batzler A, Wang L, Fridley BL. (2012) Genetic association studies of copy-number variation: should assignment of copy number states precede testing? PLoS One, 2012;7(4):e34262. doi: 10.1371/journal.pone.0034262. Epub 2012 Apr 6..
PMID: 22684999Brunner E, Bathke AC, Placzek M. (2012) Estimation of Box's ε for low- and high-dimensional repeated measures designs with unequal covariance matrices. Biom J., 2012 May;54(3):301-16. doi: 10.1002/bimj.201100160.
 C. A. Cason,* T. A. Fabre,* A. Buhrlage,* K. L. Haik, H. A. Bullen. Low-level Detection of poly(amidoamine) PAMAM D>2012endrimers using Immunoimaging Scanning Probe Microscopy. International Journal of Analytical Chemistry, 2012, Article ID 341260, 1-8.
 Carlson, K. (in press). The role of only in contrasts in and out of context. Discourse Processes. [manuscript accepted in December 2012]
PMID: 22154558
PMCID: PMC3251925
Chen D, Ma L, Kanalas JJ, Gao J, Pawlik J, Jimenez ME, Walter MA, Peterson JW, Gilbertson SR, Schein CH. Structure-based redesign of an edema toxin inhibitor. Bioorganic & Medicinal Chemistry, 2012, 20, 368-376.
PMID: 22580179
PMCID: PMC3404268
Chen Y, Curran CP, Nebert DW, Patel KV, Williams MT, Vorhees CV. Effect of chronic glutathione deficiency on the behavioral phenotype of Gclm(-/-) knockout mice. Neurotoxicol Teratol. 2012 Jul;34(4):450-7. doi: 10.1016/ Epub 2012 May 10.
PMID: 22795157Chicka MC, Dembo JB, Mathu-Muju KR, Nash DA, Bush HM. (2012) Adverse events during pediatric dental anesthesia and sedation: a review of closed malpractice insurance claims. Pediatr Dent., 34(3):231-8.
PMID: 22274952Chimge, N.O., Makeyev, A.V., Waigel, S.J., Enkhmandakh, B., and Bayarsaihan, D. (2012) PI3K/Akt-dependent functions of TFII-I transcription factors in mouse embryonic stem cells. J. Cell Biochem. 113:1122-1131.
PMID: 22946631
PMCID: PMC3491635
Coker AL, Follingstad D, Garcia LS, Williams CM, Crawford TN, Bush HM. (2012) Association of intimate partner violence and childhood sexual abuse with cancer-related well-being in women. J. Womens Health, 21(11):1180-8.
PMID: 22935098
PMCID: PMC3518762
Curran CP, Altenhofen E, Ashworth A, Brown A, Kamau-Cheggeh C, Curran M, Evans A, Floyd R, Fowler J, Garber H, Hays B, Kraemer S, Lang A, Mynhier A, Samuels A, Strohmaier C. Ahrd Cyp1a2(-/-) mice show increased susceptibility to PCB-induced developmental neurotoxicity. Neurotoxicology. 2012 Dec;33(6):1436-42. doi: 10.1016/j.neuro.2012.08.005. Epub 2012 Aug 23.
PMID: 23307643Curran CP, Lau C, Schellpfeffer MA, Stodgell CJ, Carney EW. The Teratology Society 2012-2017 strategic plan: Pushing the boundaries. Birth Defects Res A Clin Mol Teratol. 2013 Jan;97(1):2-7. doi: 10.1002/bdra.23109.
 D.S. Pender, L.M. Vangala, V.D. Badwaik, and D. Rajalingam. A New Class of Gold Nanoantibiotics- Direct Coating of Ampicillin on Gold Nanoparticles. Pharmacetical Nanotechnology. 2013 (in press).
 D.S. Pender, L.M. Vangala, V.D. Badwaik, T. Sangoi, C.B. Willis and D. Rajalingam. Bactericidal Activity of Surface Modifiable Starch-Encapsulated Gold Nanoparticles. Frontiers in Bioscienes. 2013 (in press).
PMID: 22967706Egger ME, Scoggins CR, Martin RC 2nd, Stromberg AJ, Quillo AR, McMasters KM, Callender GG. (2013) “The lymph node ratio has limited prognostic significance in melanoma.” J Surg Res. 2013 Jan;179(1):10-7. doi: 10.1016/j.jss.2012.08.050. Epub 2012 Sep 5.

PMID: 22748538

Egger ME, Tabler BL, Dunki-Jacobs EM, Callender GG, Scoggins CR, Martin RC 2nd, Quillo AR, Stromberg AJ, McMasters KM. Clinicopathologic and survival differences between upper and lower extremity melanomas. Am Surg. 2012 Jul;78(7):779-87.

PMID: 22720090
PMCID: PMC3374786

Ellison AM, Butler ED, Hicks EJ, Naczi RF, Calie PJ, Bell CD, Davis CC. Phylogeny and biogeography of the carnivorous plant family Sarraceniaceae. PLoS One. 2012;7(6):e39291. doi: 10.1371/journal.pone.0039291. Epub 2012 Jun 13.
PMID: 22573883
PMCID: PMC3386223
Eno CO, Eckenrode EF, Olberding KE, Zhao G, White C, Li C. Distinct roles of mitochondria- and ER-localized Bcl-xL in apoptosis resistance and Ca2+ homeostasis. Mol Biol Cell. 2012 Jul;23(13):2605-18. doi: 10.1091/mbc.E12-02-0090. Epub 2012 May 9.

PMID: 22380599

Eno, C.O., Zhao, G., Olberding, K.E., and Li, C. (2012) The Bcl-2 Proteins Noxa and Bcl-XL Coordinately Regulate Oxidative Stress-induced Apoptosis. Biochem J. 444:69-78. (Zacharias, W. director of Microarray facility)
 Gearheart CM, Rouchka EC, Arazi B. DNA-based active logic design and its implications. Journal of Emerging Trends in Computing and Information Sciences, 3(5):756-766.
 German, J. S., Carlson, K., & Pierrehumbert, J. B. (in press). Reassignment of consonant allophones in rapid dialect acquisition. Journal of Phonetics. [manuscript accepted in December 2012]

PMID: 23334583
PMCID: PMC3592930

Gonzalez OA, John Novak M, Kirakodu S, Stromberg AJ, Shen S, Orraca L, Gonzalez-Martinez J, Ebersole JL. (2103) Effects of aging on apoptosis gene expression in oral mucosal tissues. Apoptosis, 2013 Mar;18(3):249-59. doi: 10.1007/s10495-013-0806-x.
PMID: 22697494
PMCID: PMC3475745
Hare JM, Adhikari S., Lambert KV, Hare AE, Grice A. The Acinetobacter regulatory protein UmuDAb cleaves in response to DNA damage with chimeric LexA/UmuD characteristics. FEMS Microbiol Lett, 2012 Sep;334(1):57-65. doi: 10.1111/j.1574-6968.2012.02618.x. Epub 2012 Jul 5.
 Hare, T., C. Wells, N. Johnson (2012) Determinants of Lung Cancer Disparities for Females and Males across Central Appalachia. Accepted Geographical Disparities of Lung Cancer Mortality across Central Appalachia. International Journal of Applied Geospatial Analysis. Papers of the Applied Geography Conference, Volume 35:202-211.

PMID: 22117008 
PMCID: PMC3352118

Hare JM, Bradley JA, Lin CL, Elam TJ. Diverse responses to UV light exposure in Acinetobacter include the capacity for DNA damage-induced mutagenesis in the opportunistic pathogens Acinetobacter baumannii and Acinetobacter ursingii. Microbiology. 2012 Mar;158(Pt 3):601-11. doi: 10.1099/mic.0.054668-0. Epub 2011 Nov 24.
PMID: 23230266
PMCID: PMC3571344
Hayden KE, Strome ED, Merrett SE, Lee HR, Rudd MK, Willard HF. Sequences Associated with Centromere Competency in the Human Genome. Mol Cell Biol. 2013 Feb;33(4):763-72. doi: 10.1128/MCB.01198-12. Epub 2012 Dec 10.
PMID: 22291605
PMCID: PMC3266874
Heaton MP, Clawson ML, Chitko-Mckown CG, Leymaster KA, Smith TP, Harhay GP, White SN, Herrmann-Hoesing LM, Mousel MR, Lewis GS, Kalbfleisch TS, Keen JE, Laegreid WW: Reduced lentivirus susceptibility in sheep with TMEM154 mutations. PLoS Genet. 2012 Jan;8(1):e1002467. doi: 10.1371/journal.pgen.1002467. Epub 2012 Jan 26.
PMID: 22291605
PMCID: PMC3266874
Heaton MP, Clawson ML, Chitko-Mckown CG, Leymaster KA, Smith TP, Harhay GP, White SN, Herrmann-Hoesing LM, Mousel MR, Lewis GS, Kalbfleisch TS, Keen JE, Laegreid WW. Reduced lentivirus susceptibility in sheep with TMEM154 mutations. PLoS Genet. 2012 Jan;8(1):e1002467. doi: 10.1371/journal.pgen.1002467. Epub 2012 Jan 26.
PMID: 22967826
PMCID: PMC3615716
Hoch JM, Mattacola CG, Bush HM, Medina McKeon JM, Hewett TE, Lattermann C. (2012) Longitudinal documentation of serum cartilage oligomeric matrix protein and patient-reported outcomes in collegiate soccer athletes over the course of an athletic season. Am. J. Sports. Med.,2012 Nov;40(11):2583-9. doi: 10.1177/0363546512458260. Epub 2012 Sep 11.

PMID: 23316162
PMCID: PMC3540763

Hougland MT, Harrison BJ, Magnuson DSK, Rouchka EC, Petruska JC. The transcriptional response of neurotrophins and their tyrosine kinase receptors in lumbar sensorimotor circuits to spinal cord contusion is affected by injury severity and survival time. Frontiers in Integrative Physiology. 2012;3:478. doi: 10.3389/fphys.2012.00478. Epub 2013 Jan 9.
PMID: 23155066
PMCID: PMC3553996
Hu Y, Huang Y, Du Y, Orellana CF, Singh D, Johnson AR, Monroy A, Kuan PF, Hammond SM, Makowski L, Randell SH, Chiang DY, Hayes DN, Jones C, Liu Y, Prins JF, Liu J. DiffSplice: the genome-wide detection of differential splicing events with RNA-seq. Nucleic Acids Res. 2013 Jan;41(2):e39. doi: 10.1093/nar/gks1026. Epub 2012 Nov 15.
PMID: 22368389
Mahdi RN, Rouchka EC. Codon usage bias as a function of generation time and life expectancy. Bioinformation, 8(3):158-162.
PMID: 22847449
PMCID: PMC3427087
Maloney KA, Sullivan LL, Matheny JE, Strome ED, Merrett SL, Ferris A, Sullivan BA. Functional epialleles at an endogenous human centromere. Proc Natl Acad Sci U S A. 2012 Aug 21;109(34):13704-9. doi: 10.1073/pnas.1203126109. Epub 2012 Jul 30.
PMID: 22724427
PMCID: PMC3459310
Marczinski CA, Fillmore MT, Henges AL, Ramsey MA, Young CR. Mixing an energy drink with an alcoholic beverage increase motivation for more alcohol in college students. Alcoholism: Clinical and Experimental Research in press. 2013 Feb;37(2):276-83. doi: 10.1111/j.1530-0277.2012.01868.x. Epub 2012 Jun 22.
PMID: 23384094
PMCID: PMC3618529
Marczinski CA, Fillmore MT. Letter to the editor in response to the alcohol mixed with energy drinks debate: Masking the facts! Alcoholism: Clinical and Experimental Research. 2013 Apr;37(4):706-8. doi: 10.1111/acer.12019. Epub 2013 Feb 5.
PMID: 23216417
PMCID: PMC3610858
Marczinski CA, Stamates, AL. Artificial sweeteners versus regular mixers increase breath alcohol concentrations in male and female social drinkers. Alcoholism: Clinical and Experimental Research. 2013 Apr;37(4):696-702. doi: 10.1111/acer.12039. Epub 2012 Dec 6.
PMID: 22258284
PMCID: PMC3367708
Marczinski CA. Perceptions of pandemic flu vaccines. Human Vaccines & Immunotherapeutics. 2012 Feb;8(2):275-8. doi: 10.4161/hv.18457. Epub 2012 Feb 1.
 Mefford, A.M. , Ayers, C.C., Rowland, N.S., and Rice, N.A. (2013) The phka1 deficient I/LnJ mouse exhibits endurance exercise deficiency with no compensatory changes in glycolytic gene expression. J. Physiol.and Biochem. (in review)
PMID: 22967011
PMCID: PMC3554462
Mohammad F, Flight RM, Harrison BJ, Petruska JC, Rouchka EC. (2012) “AbsIDconvert: An Absolute Approach for Converting Genetic Identifiers at Different Granularities. BMC Bioinformatics. 2012 Sep 12;13:229. doi: 10.1186/1471-2105-13-229.
PMID: 23213371
PMCID: PMC3507169
Monaghan JR, Athippozhy A, Seifert AW, Putta S, Stromberg AJ, Maden M, Gardiner DM, Voss SR. (2012) Gene expression patterns specific to the regenerating limb of the Mexican axolotl. Biol Open. 2012 Oct 15;1(10):937-48. doi: 10.1242/bio.20121594. Epub 2012 Jul 27.
PMID: 22437374Moser DK, Dickson V, Jaarsma T, Lee C, Stromberg A, Riegel B. Role of self-care in the patient with heart failure. Curr Cardiol Rep. 2012 Jun;14(3):265-75. doi: 10.1007/s11886-012-0267-9. Review.
PMID: 23201642
PMCID: PMC3678729
Ndinguri, Margaret. Peptide-Based Selective Inhibitors of Matrix Metalloproteinase-Mediated Activities. Molecules. 2012 Nov 30;17(12):14230-48. doi: 10.3390/molecules171214230.
PMID: 22252456Nickell MD, Breheny P, Stromberg AJ, McClintock TS. (2012) Genomics of mature and immature olfactory sensory neurons. J Comp Neurol, 520(12):2608-29.
PMID: 22658843Northrip KD, Bush HM, Li HF, Marsh J, Chen C, Guagliardo MF. (2012) Pediatric residents' knowledge of the community. Acad Pediatr., 12(4):350-6.
PMID: 22672542
PMCID: PMC3784256
Okamura D, Starr ME, Lee EY, Stromberg AJ, Evers BM, Saito H. Age-dependent vulnerability to experimental acute pancreatitis is associated with increased systemic inflammation and thrombosis. Aging Cell. 2012 Oct;11(5):760-9. doi: 10.1111/j.1474-9726.2012.00841.x. Epub 2012 Jul 4.
PMID: 22842457
PMCID: PMC3729937
R.D. Thurman, K.M. Kathir, D. Rajalingam and T.K.S. Kumar. Molecular Basis for the Kallmann Syndrome-Linked Fibroblast Growth Factor Receptor Mutation. Biochem Biophys Res Commun., 2012 Aug 31;425(3):673.


Rouchka EC, Flight RM, Moseley HNB. (2012) “Proceedings of the Eleventh Annual UT-ORNL-KBRIN Bioinformatics Summit 2012. BMC Bioinformatics. 13(Suppl 12):A1.
PMID: 23202316
PMCID: PMC3509708
Schein CH, Chen D, Ma L, Kanalas JJ, Gao J, Jimenez ME, Sower LE, Walter MA, Gilbertson SR, Peterson JW. Pharmacophore Selection and Redesign of Non-nucleotide Inhibitors of Anthrax Edema Factor. Toxins(Basel). 2012 Nov 8;4(11):1288-300. doi: 10.3390/toxins4111288.

PMID: 23393156
PMCID: PMC3633373

Schultheis PJ, Fleming SM, Clippinger AK, Lewis J, Tsunemi T, Giasson B, Dickson DW, Mazzulli JR, Bardgett ME, Haik KL, Ekhator O, Chava AK, Howard J, Gannon M, Hoffman E, Chen Y, Prasad V, Linn SC, Tamargo RJ, Westbroek W, Sidransky E, Krainc D, Shull GE. Atp13a2-Deficient Mice Exhibit Neuronal Ceroid Lipofuscinosis, Limited α-Synuclein Accumulation, and Age-Dependent Sensorimotor Deficits. Hum. Mol. Gen. 2013 May 15;22(10):2067-82. doi: 10.1093/hmg/ddt057. Epub 2013 Feb 7.
PMID: 22023227
PMCID: PMC3376460
Shin DM, Liu R, Wu W, Waigel SJ, Zacharias W, Ratajczak MZ, Kucia M. Global gene expression analysis of very small embryonic-like stem cells reveals that the Ezh2-dependent bivalent domain mechanism contributes to their pluripotent state. Stem Cells Dev.2012 Jul 1;21(10):1639-52. doi: 10.1089/scd.2011.0389. Epub 2012 Jan 4.
PMID: 22493339
PMCID: PMC3372139
Smith KL, Li Y, Breheny P, Cook RF, Henney PJ, Sells S, Pronost S, Lu Z, Crossley BM, Timoney PJ, Balasuriya UB. New real-time PCR assay using allelic discrimination for detection and differentiation of equine herpesvirus-1 strains with A2254 and G2254 polymorphisms. J Clin Microbiol. 2012 Jun;50(6):1981-8. doi: 10.1128/JCM.00135-12. Epub 2012 Apr 4.
 Smith, M.E., Wang, Y.*, and Sun. H. The time-course of the effects of growth hormone during zebrafish (Danio rerio) auditory hair cell regeneration. Journal of Comparative Neurology.
PMID: 24056923Sristava, Ajay (2013) A Protocol for Genetic Induction and Visualization of Benign and Invasive Tumors in Cephalic Complexes of Drosophila melanogaster. JOVE 2013
PMID: 22446319
PMCID: PMC3374306
Starnes JH, Thornbury DW, Novikova OS, Rehmeyer CJ, Farman ML. Telomere-targeted retrotransposons in the rice blast fungus Magnaporthe oryzae: agents of telomere instability. Genetics. 2012 Jun;191(2):389-406. doi: 10.1534/genetics.111.137950. Epub 2012 Mar 23.
PMID: 23279636
PMCID: PMC3633415
Starr ME, Hu Y, Stromberg AJ, Carmical JR, Wood TG, Evers BM, Saito H. (2012) Gene expression profile of mouse white adipose tissue during inflammatory stress: age-dependent upregulation of major procoagulant factors. Aging Cell. 2013 Apr;12(2):194-206. doi: 10.1111/acel.12040. Epub 2013 Jan 30.
PMID: 22719926
States JC, Singh AV, Knudsen TB, Rouchka EC, Ngalame NO, Beier JI, Arteel GE, Miller H, Piao Y, Ko MSH. Prenatal arsenic exposure alters gene expression in the adult liver to a proinflammatory state contributing to accelerated atherosclerosis. PLoS One, 7(6):e38713. doi:10.1371/journal.pone.0038713
PMID: 23182020
PMCID: PMC3499896
Sugimoto D, Myer GD, Bush HM, Klugman MF, Medina McKeon JM, Hewett TE. Compliance with neuromuscular training and anterior cruciate ligament injury risk reduction in female athletes: a meta-analysis. J. Athl. Train. 2012;47(6):714-23. doi: 10.4085/1062-6050-47.6.10.
PMID: 23073945
PMCID: PMC3534753
Talbert J, Blumenschein K, Burke A, Stromberg A, Freeman P. Pseudoephedrine sales and seizures of clandestine methamphetamine laboratories in Kentucky. JAMA. 2012 Oct 17;308(15):1524-6. doi: 10.1001/jama.2012.12992.
 Thompson, M., Stone, R., Ochs, D, Litvan, I. (2013) Primary Health Care Providers Knowledge Gaps on Parkinsons Disease, Educational Gerontology.

PMID: 23533589
PMCID: PMC3606392

Uribe, P.M.*, Sun, H., Wang, K., Asuncion, J.D., Wang, Q., Steyger, P.S., Smith, M.E., and Matsui, J.I. Aminoglycoside-induced hair cell death of inner ear organs causes functional deficits in adult zebrafish (Danio rerio). PLoS One. 2013;8(3):e58755. doi: 10.1371/journal.pone.0058755. Epub 2013 Mar 22.
PMID: 23056502
PMCID: PMC3467276
Xiao D, Ohlendorf J, Chen Y, Taylor DD, Rai SN, Waigel S, Zacharias W, Hao H, McMasters KM. Identifying mRNA, microRNA and protein profiles of melanoma exosomes. PLoS One. 2012;7(10):e46874. doi: 10.1371/journal.pone.0046874. Epub 2012 Oct 9.
PMID: 23520469
PMCID: PMC3592852
Yoo M, Khaled M, Gibbs KM, Kim J, Kowalewski B, Dierks T, Schachner M. Arylsulfatase B improves locomotor function after mouse spinal cord injury. PLoS One, 2013;8(3):e57415. doi: 10.1371/journal.pone.0057415. Epub 2013 Mar 8.
 Smith, M.E. 2012. Predicting hearing loss in fishes. Pp. 259-262. In: The Effects of Noise on Aquatic Life. Popper, A.N. and Hawkins, A. (Eds.). Springer-Verlag.
 Li, X., Klinge, C.M., and Datta, S. (2012) Novel and Alternative Bioinformatics Approaches to Understand miRNA-mRNA Interactome in Cancer Research. In: Systems Biology in Cancer Research and Drug Discovery, Part 3, 267-288. A.S. Azmi (Ed.) Springer Science+Business Media Dortrecht 2012. DOI: 10.1007/978-94-007-4819-4_11. (Zacharias, W. director of Microarray facility)