Publications


2017

Chakraborty, N. Muhie S, Kumar R, Gautam A, Srinivasan S, Sowe B, Dimitrov G, Miller SA, Jett M and Hammamieh R. Contributions of polyunsaturated fatty acids (PUFA) on cerebral neurobiology: an integrated omics approach with epigenomic focus. Journal of Nutritional Biochemistry 2017 42: 84-94.


2016

Brennan, L. M., Widder, M. W., McAleer, M. K., Mayo, M. W., Greis, A. P., van der Schalie, W. H.. Preparation and Testing of Impedance-based Fluidic Biochips with RTgill-W1 Cells for Rapid Evaluation of Drinking Water Samples for Toxicity. J. Vis. Exp. (109), e53555, doi:10.3791/53555 (2016).

Cheppudira BP, Trevino A, Petz LN, Christy RJ, and Clifford JL. Anti-nerve growth factor antibody attenuates chronic morphine treatment-induced tolerance in the rat. BMC Anesthesiology, 16:73, 2016.

Gautam A, Kumar R, Dimitrov G, Hoke A, Hammamieh R, Jett M. Identification of extracellular miRNA in archived serum samples by next-generation sequencing from RNA extracted using multiple methods. Mol Biol Rep. 2016 Aug 10 PubMed PMID 27510798.

Hammamieh R, Muhie S, Borschel R, Gautam A, Miller SA, Chakraborty N, Jett M. Temporal Progression of Pneumonic Plague in Blood of Nonhuman Primate: A Transcriptomic Analysis. PLoS One. 2016 Mar 22;11(3):e0151788.

Hunninghake JC, Skabelund AJ, Morris MJ. Chronic left lower lobe pulmonary infiltrates during military deployment. Military Medicine. 2016 Aug; 181(8):e955-8. (PMID:27483542).

Koontz JM, Kumsher DM, Kelly Iii R, Stallings JD. Effect of 2 Bedding Materials on Ammonia Levels in Individually Ventilated Cages. J Am Assoc Lab Anim Sci. 2016;55(1):25-8. PMID: 26817976.

Lee YS, Lewis JA, Ippolito DL, Hussainzada N, Lein PJ, Jackson DA, Stallings JD. Repeated exposure to neurotoxic levels of chlorpyrifos alters hippocampal expression of neurotrophins and neuropeptides. Toxicology. 2016 Jan 18;340:53-62. doi: 10.1016/j.tox.2016.01.001. Epub 2016 Jan 13. PMID: 26775027.

Loh GA, Bell DG, Morris MJ. Evaluation of pulmonary symptoms following military deployment. Current Pulmonology Reports. 2016 June; 5 (2)86-93.

McIntyre MK, Clifford JL, Maani CV, and Burmeister DM. Animal models of pain: implications for burn associated pain. Burns, 42:1161-1172, 2016.

Morris MJ, Rawlins FA, Forbes DA, Skabelund AJ, Lucero PF. Deployment-related Respiratory Issues. US Army Med Dep J. 2016 Apr-Sep; (2-16):173-8. PubMed PMID: 27215888.

Salas MM, Clifford JL, Hayden JR, Iadarola MJ, and Averitt DL. Local Resiniferatoxin Induces Long-Lasting Analgesia in a Rat Model of Full Thickness Thermal Injury. Pain Medicine, In press, 2016.

Sobieszczyk M, Perkins M, Cohee BM, Costantoth CB, Mabe DL, Liotta R, Abraham JH, Holley PR, Sherner J, Holley AB. Service members returning from Iraq or Afghanistan with respiratory complaints have a high prevalence of obstruction on spirometry. Respiratory Medicine 2016; 118: 84-87.


2015

Bui-Nguyen TM, Baer CE, Lewis JA, Yang D, Lein PJ, Jackson DA. DA Dichlorvos exposure results in large scale disruption of energy metabolism in the liver of the zebrafish, Danio rerio. BMC Genomics. 2015 Oct 24;16(1):853. doi: 10.1186/s12864-015-1941-2.

Gautam A, D'Arpa P, Donohue DE, Muhie S, Chakraborty N, Luke BT, Grapov D, Carroll EE, Meyerhoff JL, Hammamieh R, Jett M. Acute and chronic plasma metabolomic and liver transcriptomic stress effects in a mouse model with features of post-traumatic stress disorder. PLoS One. 2015 Jan 28;10(1):e0117092. doi: 10.1371/journal.pone.0117092. eCollection 2015. PubMed PMID: 25629821; PubMed Central PMCID: PMC4309402.

Hammamieh R, Chakraborty N, Lin Y, Shupp JW, Miller SA, Morris S, Jett M. Characterization of the interaction of staphylococcal enterotoxin B with CD1d expressed in human renal proximal tubule epithelial cells. BMC Microbiol. 2015 Feb 4;15(1):12. doi: 10.1186/s12866-015-0344-5. PubMed PMID: 25649790; PubMed Central PMCID: PMC4327782.

Ippolito DL, AbdulHameed MD, Tawa GJ, Baer CE, Permenter MG, McDyre BC, Dennis WE, Boyle MH, Hobbs CA, Streicker MA, Snowden BS, Lewis JA, Wallqvist A, Stallings JD. Gene expression patterns associated with histopathology in toxic liver fibrosis. Toxicol Sci. 2015 Sep 22. pii: kfv214. [Epub ahead of print].

Muhie S, Gautam A, Meyerhoff J, Chakraborty N, Hammamieh R, Jett M. Brain transcriptome profiles in mouse model simulating features of post-traumatic stress disorder. Mol Brain. 2015 Feb 28;8(1):14. doi: 10.1186/s13041-015-0104-3. PubMed PMID: 25888136; PubMed Central PMCID: PMC4359441.

Porter, KL, FHY Green, RA Harley, V Vallyathan, SS Leonard, V Castranova, NL Waldron, DE Nelson, JA Lewis, and DA Jackson. Evaluation of the pulmonary toxicity of ambient particulate matter from Camp Victory, Iraq. Journal of Toxicology and Environmental Health, Part A. 2015;78(23-24):1385-408. doi: 10.1080/15287394.2015.1072611. Epub 2015 Nov 23.

Stallings JD, DL Ippolito, A Wallqvist, J Reifman. Host Response to Environmental Hazards: Using literature, bioinformatics, and computation to derive candidate biomarkers of toxic industrial chemical exposure. . STO Meeting Proceedings STO-MP-HFM-254. 2015 October 12, pp. 7-1 to 7-14.

Thakur GS, Daigle BJ Jr, Dean KR, Zhang Y, Rodriguez-Fernandez M, Hammamieh R, Yang R, Jett M, Palma J, Petzold LR, Doyle Iii FJ. Systems biology approach to understanding post-traumatic stress disorder. Mol Biosyst. 2015 Mar 17;11(4):980-93. doi: 10.1039/c4mb00404c. PubMed PMID: 25627823.


2014

AbdulHameed MDM, GJ Tawa, K Kumar, DL Ippolito, JA Lewis, JD Stallings and A Wallqvist. Systems level analysis and identification of pathways and networks associated with liver fibrosis. PLoS One Nov 7;9(11):e112193.

Baer CE, DL Ippolito, N Hussainzada, JA Lewis, DA Jackson and JD Stallings. Genome-wide gene expression profiling of acute metal exposures in male Zebrafish. Genomics Data. Dec;2:363-365.

Bui-Nguyen, T.M., W.E. Dennis, D.A. Jackson, J.D. Stallings and J.A. Lewis. Detection of dichlorvos adducts in a hepatocyte cell line. Proteome Research 13(8): 3583-95.

Bunch, K., D. Tinnemore, S. Huff, Z.S. Hoffer, R.O. Burney and J.D. Stallings. Expression patterns of progesterone receptor membrane components 1 and 2 in endometria from women with and without endometriosis. Reprod Sci 21(2): 190-197.

Chakraborty N, Gautam A, Muhie S, Miller SA, Jett M, Hammamieh R. An integrated omics analysis: impact of microgravity on host response to lipopolysaccharide in vitro. BMC Genomics. 2014 Aug 7;15:659. doi:10.1186/1471-2164-15-659. PubMed PMID: 25102863; PubMed Central PMCID:PMC4287545.

Cho JH, Lee I, Hammamieh R, Wang K, Baxter D, Scherler K, Etheridge A, Kulchenko A, Gautam A, Muhie S, Chakraborty N, Galas DJ, Jett M, Hood L. Molecular evidence of stress-induced acute heart injury in a mouse model simulating posttraumatic stress disorder. Proc Natl Acad Sci U S A. 2014 Feb 25;111(8):3188-93. doi: 10.1073/pnas.1400113111. Epub 2014 Feb 10. PubMed PMID:24516145; PubMed Central PMCID: PMC3939897.

Flood-Nichols, S.K., A.A. Kazanjian, D. Tinnemore, P.R. Gafken, Y. Ogata, P.G. Napolitano, J.D. Stallings and D.L. Ippolito. Aberrant glycosylation of plasma proteins in severe preeclampsoa promotes monocyte adhesion. Reprod Sci. 21(2):204-14.

Hammamieh R, Chakraborty N, Gautam A, Miller SA, Muhie S, Meyerhoff J, Jett M. Transcriptomic analysis of the effects of a fish oil enriched diet on murine brains. PLoS One. 2014 Mar 14;9(3):e90425. doi: 10.1371/journal.pone.0090425. eCollection 2014. PubMed PMID: 24632812; PubMed Central PMCID: PMC3954562.

Hussainzada, N., J.A. Lewis, C.E. Baer, D.L. Ippolito, D.A. Jackson, and J.D. Stallings. Whole adult organism transcriptional profiling of acute metal exposures in male Zebrafish. BMC Pharmacology and Toxicology 15 (1), 15.

Ippolito DL, CE Baer, WE Dennis, JA Lewis and JD Stallings. Alteration in circulating metabolites during and after heat stress in the conscious rat: Potential biomarkers of exposure and organ-specific injury. BMC Physiology Dec 24;14(1):14.

Kuempel ED, J Roberts, A Eastlake, A Stefaniak. Guidance on Nanomaterial Hazards and Risks. Draft report for USACEHR, with suggested modifications to the overall health risk assessment process for Army materiel. as described in ASTM E2552-08, NOV 2014.

Lassance-Soares RM, Sood S, Chakraborty N, Jhamnani S, Aghili N, Nashin H, Hammamieh R, Jett M, Epstein SE, Burnett MS. Chronic stress impairs collateral blood flow recovery in aged mice. J Cardiovasc Transl Res. 2014 Nov;7(8):749-55. doi: 10.1007/s12265-014-9592-2. Epub 2014 Oct 15. PubMed PMID: 25315467.

Linebach M, Murphy M, Hiner M, Staab R, Chakraborthy M, Jett M, Mendis C. Differentiating Gene Expression profiles in Staphylococcal Enterotoxin B and Lipopolysaccharide induced human PBMCs. Research and Development. 2014 November 27; 2.1.

Rakesh V, JD Stallings and J Reifman. A virtual rat for simulating environmental and exertional heat stress. J Appl Physiol Dec 1;117(11):1278-86.

Stallings JD, DL Ippolito, V Rakesh, CE Baer, WE Dennis, BG Helwig, DA Jackson, LR Leon, JA Lewis and J Reifman. Patterns of gene expression associated with recovery and injury in heat-stressed rats. BMC Genomics Dec 3;15(1):1058.

Tawa, G.T., M.D.M. AbdulHameed, X. Yu, K. Kumar, D.L. Ippolito, J.A. Lewis, J.D. Stallings and A. Wallqvist. Characterization of chemically induced liver injuries using gene co-expression modules. PLoS One Sep 16;9(9): e107230.

Trader, D.E. and W.H. van der Schalie. An Evaluation of the NIDS® ACE™ Test. USACEHR TR-14-01, Defense Technical Information Center, ADA60398730, June 2014.

Widder, M.W., L.M. Brennan, E. A. Hanft, M.E. Schrock, R.R. James and W.H. van der Schalie. Evaluation and refinement of a field-portable drinking water toxicity sensor utilizing electric cell-substrate impedance sensing (ECIS) and a fluidic biochip. J of Appl Tox, Online: 18 Sep 2014, DOI: 10.1002/jat.3017.


2013

Bacolla, A, Temiz NA, Ming Yi, Ivanic J, Cer, RZ, Donohue DE, Ball EV, Mudunuri US, Wang, G, Jain A, Volfovsky N, Luke BT, Stepehens RM, Cooper DN, Collins JR, and Vasquez. Guanine holes are prominent targets for mutation in cancer and inherited disease. PLOS Genetics 9:1-14.

Burns, MB, Lackey L, Carpenter MA, Rathore A, Land AM, Leonard B, Refsland EW, Kotandeniya D, Tretyakova N, Nikas JB, Yee D, Temiz NA, Donoue RM, McDougle M, Brown WL, Law EK, and Harris RS. APOBEC3B is an enzymatic source of mutation in breast cancer. Nature 494:366-370.

Causey, MW, Miller S, Hoffer Z, Hempel J, Stallings JD, Jin G, Alam H, and Martin M. Beneficial effects of histone deacetylase inhibition with severe hemorrhage and ischemia-reperfusion injury. Journal of Surgical Research 184:533-540.

Chowbina S, Hammamieh R, Kumar R, Chakraborty N, Yang R, Mudunuri U, Jett M, Palma JM, Stephens R. SysBioCube: A data warehouse and integrative data analysis platform facilitating systems biology studies of disorders of military relevance. AMIA Summits Translational Science Proceedings 34-38.

Curtis TM., Howard A, Gerlach BD, Brennan LM, Widder MW, van der Schalie WH, NTK, Vo, and Bols, NC. Suitability of invertebrate and vertebrate cells in a portable impedance-based toxicity sensor: Temperature mediated impacts on long-term survival. Toxicology in Vitro 27:2061-2066.

Flood-Nichols SK, Lutgendorf MA, Mesngon MT, Harroun AJ, Cesarini MS, Napolitano PG, Ippolito DL. Impaired lipid transport in gestational diabetes mellitus. Journal of Diabetes Research and Clinical Metabolism; doi: 10.724/2050-0866-2-22.

Flood-Nichols SK, Tinnemore D, Wingerd MA, Abu-Alya AI, Stallings JD, Ippolito DL. Longitudinal analysis of maternal apolipoproteins in pregnancy: A targeted proteomics approach. Molecular Cellular Proteomics 12:55-64.

Hammamieh R, Chakraborty N, Barmada M, Hellman H, Muhie S, Koterski J, Das R, and M Jett. Transcriptional profiling of human peripheral blood mononuclear cells exposed to Bacillus anthracis in vitro. Journal of Bioterrorism and Biodefense S3:014.

Lewis, JA, Gehman EA, Baer CE, and Jackson DA. Alterations in gene expression in Caenorhabditis elegans associated with organophosphate pesticide intoxication and recovery. BMC Genomics 14:291.

Morris, MJ, Oleszewski, RT, Sterner, JB, and Allan, PF. Vocal cord dysfunction related to combat deployment. Military Medicine 178:1208-1212.

Muhie, SR, Hammamieh R, Cummings, C, Yang D, and Jett M. Transcriptome characterization of immune suppression from battlefield-like stress. Genes and Immunology 14:19-34.

Permenter MG, Dennis WE, Sutto TE, Jackson DA, Lewis JA, Stallings JD. Exposure to cobalt causes transcriptomic and proteomic changes in two rat liver derived cell lines. PLoS One Dec 30.

Rakesh V, Stallings JD, Helwig BG, Leon LR, Jackson DA, and Reifman J. A 3-D mathematical model to identify organ-specific risks in rats during thermal stress. Journal of Applied Physiology 115:1822-1837.

Satterly SA, Martin M, Wingerd M, Hempel J, Hoffer Z, Stallings JD. Flutamide fails to reduce resuscitation requirements in a porcine ischemia-reperfusion model. Journal of Surgical Research 184:472-479.

Valiyaveettil M, Alamneh YA, Miller SA, Hammamieh R, Arun P, Wang Y, Wei Y, Oguntayo S, Long JB, Nambiar MP. Modulation of cholinergic pathways and inflammatory mediators in blast-induced traumatic brain injury. Chemical-Biological Interactions 203:371-375.

Yang R, Daigle BJ Jr, Muhie SY, Hammamieh R, Jett M, Petzold L, Doyle FJ 3rd. Core modular blood and brain biomarkers in social defeat mouse model for post-traumatic stress disorder. BMC Systems Biology 7:80. doi: 10.1186/1752-0509-7-80.


2012

Brennan, L.M., M.W. Widder, L.E.J. Lee, W.H. van der Schalie. Long-term storage and impedance-based water toxicity testing capabilities of fluidic biochips seeded with RTgill-W1 cells. Toxicology in Vitro 26:736-745.

Dorman, D.C., V. Mokashi, D.J. Wagner, A. Olabisi, B. Wong, O. Moss, E. Fornero, J. Centeno, D. Jackson, J. Lewis and G.D. Chapman. Biological responses in rats exposed to cigarette smoke and Middle East sand (dust). Inhalation Toxicology 24:109-124.

Hammamieh R., N. Chakraborty, T.C. De Lima, J. Meyerhoff, A. Gautam, S. Muhie, P. D'Arpa, L. Lumley, E. Carroll, and M. Jett. Murine model of repeated exposures to conspecific trained aggressors simulates features of post-traumatic stress disorder. Behavioural Brain Research 235:55-66.

Rose, C, J. Abraham, D. Harkins, R. Miller, M. Morris, L. Zacher, R. Meehan, A. Szema, J. Tolle, M. King, D. Jackson, J. Lewis, A. Stahl, M. Lyles, M. Hodgson, R. Teichman, W. Salihi, G. Matiwyoff, G. Meeker, S. Mormon, K. Bird, and C. Baird. Overview and recommendations for medical screening and diagnostic evaluation for post-deployment lung disease in returning US warfighters. Journal of Occupational and Environmental Medicine 54:746-751.

Schuster, B.E., L.E. Roszell, L.E. Murr, D.A. Ramirez, J.D. Demaree, B.R. Klotz, A.B. Rosencrance, W.E. Dennis, W. Bao, E.J. Perkins, J.F. Dillman, D.I. Bannan. In vivo corrosion, tumor outcome, and microarray gene expression for two types of muscle-implanted tungsten alloys. Toxicology and Applied Pharmacology 265(1):128-138.

Shupp, J.W., L.T. Moffatt, T. Nguyen, J.C. Ramella-Roman, R. Hammamieh, S.-A. Miller, E.J. Leto, D.Y. Jo, P.R. Randad, M. Jett, J.C. Jeng, and M.H. Jordan. Examination of local and systemic in vivo responses to electrical injury using an electrical burn delivery system. Journal of Burn Care and Research, 33:118-29.


2011

Gera, N., M. Hussain, R.C. Wright, and B.M. Rao. Highly stable binding proteins derived from the hyperthermophilic Sso7d scaffold. Journal of Molecular Biology, 409:601-16.

Morris, M.J., L.L. Zacher and D.A. Jackson. Investigating the respiratory health of deployed military personnel. Military Medicine, 176:1157-1164.

Permenter, M.G., J.A. Lewis, and D.A. Jackson. Exposure to nickel, chromium, or cadmium causes distinct changes in the gene expression patterns of a rat-liver derived cell line. PLoS ONE 6:e27730.

Porter K.L., A.W. Olmstead, D.M. Kumsher, W.E. Dennis, R.L. Sprando, G.W. Holcombe, J.J. Korte, A. Lindberg-Livingston, S.J. Degitz. Effects of 4-tert-Octylphenol on Xenopus tropicalis in a Long Term Exposure. Aquatic Toxicology 103:159-169. Epub 2011 Mar 4. ADA553581.


2010

Alkhalil A, R. Hammamieh, J. Hardick, M.A. Ichou, M. Jett, S. Ibrahim. Gene expression profiling of monkeypox virus-infected cells reveals novel interfaces for host-virus interactions. Virology Journal, 7:173.

Chao, C-C., X. Li, R. Hammamieh, B. O'Leary, M. Jett and W-M. Ching. Identification of early response genes in human peripheral leukocytes infected with orientia tsutsugamushi: The emergent of a unique gene expression profile for diagnosis of O. tsutsugamush infection. The Open Infectious Diseases Journal, 4:16-30.

Lewis, J.A., W.E. Dennis, J. Hadix, and D.A. Jackson. Analysis of secreted proteins as an in vitro model for discovery of liver toxicity markers. Journal of proteome research 9 (11), 5794-5802.