medical scientist training program

publications of current students and recent graduates

Plentz R, Park JS, Rhim AD, Abravanel D, Hezel AF, Sharma SV, Gurumurthy S, Deshpande V, Kenific C, Settleman J, Majumder PK, Stanger BZ, Bardeesy N. Inhibition of y-secretase activity inhibits tumor progression in a mouse model of pancreatic ductal adenocarcinoma. Gastroenterology. 2009 May;136(5):1741-9.e6.

Huang M, Liu X, Basu SS, Zhang L, Kushman ME, Harvey RG, Blair IA, Penning TM. Metabolism and Disposition of Benzo[a]pyrene-7,8-dione in Human Lung Cells by Liquid Chromatography Tandem Mass Spectrometry: Detection of an Adenine B[a]P-7,8-dione Adduct. Chem Res Toxicol. 2012 In Press.

Basu SS,
Mesaros,C, Gelhaus,SL, Blair, IA. Stable isotope labeling by essential nutrients in cell culture for the preparation of labeled coenzyme A and its thioesters. Anal Chem. 2011 Feb 15;83(4):1363-9.

Basu SS, Blair IA. Rotenone-Mediated Changes in Intracellular Coenzyme A Thioester Levels: Implications for Mitochondrial Dysfunction. Chem Res Toxicol. 2011. 24, 1630-1632

Caravaca JM, Donahue G, Becker JS, He X, Vinson C, Zaret KS. Bookmarking by specific and nonspecific binding of FoxA1 pioneer factor to mitotic chromosomes. Genes & Development. 2013 Jan;27(3):251-60.

Li P, McElligott S, Bergquist H, Schwartz JS, Doshi JA. Effect of the Medicare Part D coverage gap on medication use among patients with hypertension and hyperlipidemia. Ann Intern M. 2012, Jun 5;156(11):776-84

Puig A, McElligott S, Bergquist H, Doshi JA. Albuterol and levalbuterol use and spending in Medicare beneficiaries with chronic obstructive pulmonary disease. American Journal of Geriatric Pharmacotherapy. 8(6):571-582; 2010.

Carpenter EL, Haglund EA, Mace EM, Deng D, Martinez D, Wood AC, Chow AK, Weiser DA, Belcastro LT, Winter C, Bresler SC, Asgharzadeh S, Seeger RC, Zhao H, Guo R, Christensen JG, Orange JS, Pawel BR, Lemmon MA, Mosse YP. Antibody targeting of anaplastic lymphoma kinase induces cytotoxicity of human neuroblastoma. Oncogene. 2012 Nov 15;31(46):4888.

Bresler SC, Wood AC, Haglund EA, Courtright J, Belcastro LT, Plegaria, JS, Cole K,Toporocskaya Y, Zhao H, Carpenter EL, Christensen JG, Maris JM, Lemmon MA, Mosse YP. Differential inhibitor sensitivity of anaplastic lymphoma kinase variants found in neuroblastoma. Sci Transl Med. 2011 Nov 9;3(108):108ra114.

Epidemiology: General Principles and Practical Research Guidelines. Edited by Van den Broeck J and Brestoff JR, A forthcoming textbook to be published by Springer. Approx. 600 pages with 100 illustrations.

Brestoff JR, Van den Broeck J, Book Review: Epidemiological Research Terms and Concepts. Int J of Epidemiol, 2012. In press.

Van den Broeck J, Brestoff JR, Book Review: Up from Clinical Epidemiology and EBM (Evidence Based Medicine). Eur J Epidemiol, 2012. In press.

Brestoff JR and Van den Broeck J. Global Health and Nutrition. In: Encyclopedia of Global Studies. Ed. Jeurgensmeyer M and Anheier HK. Thousand Oaks: SAGE Reference, 2012. ISBN 9781412964296

Brestoff JR, Perry IJ, Van den Broeck J. Challenging the role of social norms regarding body weight as an explanation for weight and BMI misreporting bias: Development and application of a new approach to examining misreporting bias in surveys. BMC Public Health 11:331, 2011.

Brown SES, Ratcliffe SJ, Kahn JM, Halpern SD.  The Epidemiology of Intensive Care Unit Readmissions in the United States.  Am J Respir Crit Care Med. 2012 Jan 26.

Young M, Brown SES, Truog R, Halpern SD.  Rationing ICU Beds: Disclose or Disguise? Crit Care Med. 2011 Sep 15

Burke JF, Long NM, Zaghloul KA, Sharan AD, Sperling MR, Kahana MJ. Human intracranial high-frequency activity maps episodic memory formation in space and time. Neuroimage. 2013 Jul 1. pii: S1053-8119(13)00705-2.

Burke JF, Zaghloul KA, Jacobs J, Williams RB, Sperling MR, Sharan AD, and Kahana, MJ. Synchronous and asynchronous theta and gamma activity during episodic memory formation. The Journal of Neuroscience. 2013. 33(1), 292–304. doi:10.1523/JNEUROSCI.2057-12.2013

Busch JI, Martinez-Lage M, Ashbridge E, Grossman M, Van Deerlin V, Hu F, Lee VM, Trojanowski JQ, and Chen-Plotkin AS. "Expression of TMEM106B, the frontotemporal lobar degeneration-associated protein, in normal and diseased human brain." Acta Neuropathologica Communications 2013 Jul 11, 1:36doi:10.1186/2051-5960-1-36.

Chen-Plotkin AS, Unger TL, Gallagher MD, Bill E, Kwong LK, Volpicelli-Daley L, Busch JI, Akle S, Grossman M, Van Deerlin V, Trojanowski JQ, Lee VM. "TMEM106B, the risk gene for frontotemporal dementia, is regulated by the microRNA-132/212 cluster and affects progranulin pathways."J Neurosci. 2012 Aug 15;32(33):11213-27.

Kandalaft LE, Motz GT, Busch J, Coukos G. Angiogenesis and the Tumor Vasculature as Antitumor Immune Modulators: The Role of Vascular Endothelial Growth Factor and Endothelin.  Curr Top Microbiol Immunol. 2011;344:129-48.

Charlson ES, and Bittinger K, Chen J, Diamond J, Li H, Collman RG and Bushman FD. Assessing bacterial populations in the lung by replicate analysis of samples from the upper and lower respiratory tracts. PLoS One. 2012;7(9):e42786.

Charlson ES, Diamond J, Bittinger K, Fitzgerald AS, Yadav A, Haas A, Bushman FD and Collman RG. Lung-enriched organisms and aberrant bacterial and fungal respiratory microbiota following lung transplant. Am J Respir Crit Care Med. 2012 Sep 15;186(6):536-45.

Chen J, Bittinger K, Charlson ES, Hoffmann C, Lewis J, Wu GD, Collman RG, Bushman FD, Li H.  Associating microbiome composition with environmental covariates using generalized UniFrac distances. Bioinformatics. 2012 Aug 15;28(16):2106-13.

Knights D, Kuczynski J, Charlson ES, Zaneveld J, Mozer MC, Collman RG, Bushman FD, Knight R, Kelley ST. Bayesian community-wide culture-independent microbial source tracking. Nature Methods. 2011 Jul 17;8(9):761-3.

Charlson ES, Bittinger K, Haas AR, Fitzgerald AS, Frank I, Yadav A, Bushman FD, Collman RG. Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract. Am J Respir Crit Care Med. 2011 Jun 23.

Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, Sterk P, Arumugam M, Bailey M, Baumgartner L, Birren BW, Blaser MJ, Bonazzi V, Booth T, Bork P, Bushman FD, Buttigieg PL, Chain PS, Charlson ES, Costello EK, Huot-Creasy H, Dawyndt P, DeSantis T, Fierer N, Fuhrman JA, Gallery RE, Gevers D, Gibbs RA, San Gil I, Gonzalez A, Gordon JI, Guralnick R, Hankeln W, Highlander S, Hugenholtz P, Jansson J, Kau AL, Kelley ST, Kennedy J, Knights D, Koren O, Kuczynski J, Kyrpides N, Larsen R, Lauber CL, Legg T, Ley RE, Lozupone CA, Ludwig W, Lyons D, Maguire E, Methé BA, Meyer F, Muegge B, Nakielny S, Nelson KE, Nemergut D, Neufeld JD, Newbold LK, Oliver AE, Pace NR, Palanisamy G, Peplies J, Petrosino J, Proctor L, Pruesse E, Quast C, Raes J, Ratnasingham S, Ravel J, Relman DA, Assunta-Sansone S, Schloss PD, Schriml L, Sinha R, Smith MI, Sodergren E, Spo A, Stombaugh J, Tiedje JM, Ward DV, Weinstock GM, Wendel D, White O, Whiteley A, Wilke A, Wortman JR, Yatsunenko T, Glöckner FO. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol. 2011 May;29(5):415-20.

Charlson ES, Chen J, Custers-Allen R, Bittinger K, Li H, Sinha R, Hwang J, Bushman FD, Collman RG. Disordered microbial communities in the upper respiratory tract of cigarette smokers. PLoS One. 2010 Dec 20;5(12 ):e15216.

Bortnick A, Chernova I, Quinn WJ 3rd, Mugnier M, Cancro MP, Allman D. Long-lived plasma cells are induced early in response to T-cell independent and T-cell dependent antigens, J Immunol. 2012 Jun 1;188(11):5389-96

Tang J, Cho NW, Cui G, Manion EM, Shanbhag NM, Botuyan MV, Mer G, and Greenberg RA. Acetylation limits 53BP1 association with damaged chromatin to promote homologous recombination. Nat Struct Mol Biol. 2013 Feb 3.  

Barnett BE, Ciocca ML, Goenka R, Barnett LG, Wu J, Laufer TM, Burkhardt JK, Cancro MP, Reiner SL. Asymmetric B cell division in the germinal center reaction. Science. 2012 Jan 20;335(6066):342-4

Ciocca ML, Barnett BE, Burkhardt JK, Chang JT, Reiner SL. Cutting edge: Asymmetric memory T cell division in response to re-challenge. J Immunol. 2012 May 1;188(9):4145-8

Chang JT, Ciocca ML, Kinjyo I, Palanivel VR, McClurkin CE, Dejong CS, Mooney EC, Kim JS, Steinel NC, Oliaro J, Yin CC, Florea BI, Overkleeft HS, Berg LJ, Russell SM, Koretzky GA, Jordan MS, Reiner SL. Asymmetric proteasome segregation as a mechanism for unequal partitioning of the transcription factor T-bet during T lymphocyte division. Immunity. 2011 Apr 22;34(4):492-504.

Hara T, Koh K, Combs DJ, Sehgal A. Post-translational regulation and nuclear entry of TIMELESS and PERIOD are affected in  new timeless mutant. J Neurosci, 2011 31(27): 9982-90.

Crayton SH, Elias DR, Al Zaki A, Cheng Z, Tsourkas A. ICP-MS analysis of lanthanide-doped nanoparticles as a non-radiative, multiplex approach to quantify biodistribution and blood clearance. Biomaterials. 2012 Feb;33(5):1509-19

Crayton SH, Tsourkas A. pH-titratable superparamagnetic iron oxide for improved nanoparticle accumulation in acidic tumor microenvironments. ACS Nano. 2011 Dec 27;5(12):9592-601

Cristancho AG, Lazar MA. Forming functional fat: a growing understanding of adipocyte differentiation.Nature Reviews Molecular Cell Biology. 2011 Sep 28;12(11):722-34.

Cristancho AG, Schupp M, Lefterova MI, Cao S, Cohen DM, Chen CS, Steger DJ, Lazar MA. Repressor transcription factor 7-like 1 promotes adipogenic competency in precursor cells. Proceedings of the National Academy of Sciences. 2011 Sep 27;108(39):16271-6.

Schupp M, Cristancho AG, Lefterova MI, Hanniman EA, Briggs ER, Steger DJ, Qatanani M, Curtin JC, Schug J, Ochsner SA, McKenna NJ, Lazar MA. Re-expression of GATA2 cooperates with peroxisome proliferator-activated receptor-gamma depletion to revert the adipocyte phenotype. Journal of Biological Chemistry. 2009 Apr 3;284(14):9458-64.

Schupp M, Lefterova M, Janke J, Leitner K, Cristancho AG, Mullican SE, Szwergold N, Steger DJ, Curtin JC, Kim RJ, Suh M, Albert MR, Engeli S, Gudas LJ, and Lazar MA. Retinol Saturase Promotes Adipogenesis and Is Down-Regulated in Obesity. Proceedings of the National Academy of Sciences. 2009 Jan 27;106(4):1105-10.

Lefterova MI, Zhang Y, Steger DJ, Schupp M, Schug J, Cristancho A, Feng D, Zhuo D, Stoeckert, Jr CJ, Liu XS, and Lazar MA. PPAR and C/EBP Factors Orchestrate Adipocyte Biology Via Adjacent Binding on a Genome-Wide Scale. Genes and Development. 2008 Nov 1;22(21):2941-52.

Moise AR, Domínguez M, Alvarez S, Alvarez R, Schupp M, Cristancho AG, Kiser PD, de Lera AR, Lazar MA, Palczewski K. Stereospecificity of retinol saturase: absolute configuration, synthesis, and biological evaluation of dihydroretinoids. Journal of the American Chemical Society. 2008 Jan 30;130(4):1154-5.

Cross SA, Cook DR, Chi AWS, Vance PJ, Kolson LL, Wong BJ, Jordan-Sciutto KL, Kolson DL. Dimethyl fumarate, an immune modulator and inducer of the antioxidant response, suppresses HIV replication and macrophage-mediated neurotoxicity: a novel candidate for HIV neuroprotection. J Immunol. 2011 Nov 15;187(10):5015-25.

Cook DR, Gleichman AJ, Cross SA, Doshi S, Ho W, Jordan-Sciutto KL, Lynch DR, Kolson DL. NMDA receptor modulation by the neuropeptide apelin: implications for excitotoxic injury. J Neurochem. 2011 Sep;118(6):1113-23.

Cook DR*, Cross SA*, Soldan SS, Kolson DL. (2011). NeuroAIDS as an inflammatory disorder. In: The Neurology of AIDS, 3rd Ed. Oxford University Press, Oxford, England. (* these authors contributed equally to the work)

Daye D, Keller B, Conant EF, Chen J, Schnall MD, Maidment AD, Kontos D. Mammographic parenchymal patterns as an imaging marker of endogenous hormonal exposure: a preliminary study in a high-risk population. Acad Radiol. 2013 May;20(5):635-46. doi: 10.1016/j.acra.2012.12.016.

Li LZ, Kadlececk S, Xu HN, Daye D, Pullinger B, Profka H, Chodosh L, Rizi R.. Ratiometric analysis in hyperpolarized NMR (I): test of the two-site exchange model and the quantification of reaction rate constants.NMR Biomed. 2013 Apr 29. doi: 10.1002/nbm.2953.

Ashraf A, Gavenonis S, Daye D, Mies C, Rosen M, Kontos D.  A Multichannel Markov Random Field Framework for Tumor Segmentation with an Application to Classification of Gene Expression-based Breast Cancer Recurrence Risk. IEEE Trans Med Imaging. 2013 Apr;32(4):637-48. doi: 10.1109/TMI.2012.2219589.

Daye D, Wellen KE. Metabolic Metabolic reprogramming in cancer: unraveling the role of glutamine in tumorigenesis. Semin Cell Dev Biol. 2012 Jun;23(4):362-9

Ashraf AB, Gavenonis S, Daye D, Mies C, Feldman M, Rosen M, Kontos D. A multichannel Markov random field approach for automated segmentation of breast cancer tumor in DCE-MRI data using kinetic observation model. Med Image Comput Comput Assist Interv. 2011;14(Pt 3):546-53.

Parker ZF, Iyer SS,Wilen CB, Parrish NF, Chikere KC, Lee FH, Didigu CA, Berro R, Klasse PJ, Lee B, Moore JP, Shaw GM, Hahn BH, Doms RW. Transmitted/Founder and Chronic HIV-1 Envelope Proteins Are Distinguished by Differential Utilization of CCR5. J Virol. 2013 Mar;87(5):2401-11.

Tilton JC, Wilen CB, Didigu CA, Sinha R, Harrison JE, Agrawal-Gamse C, Henning EA, Bushman FD, Martin JN, Deeks SG, Doms RW. A maraviroc-resistant HIV-1 with narrow cross-resistance to other CCR5 antagonists depends on both N-terminal and extracellular loop domains of drug-bound CCR5. J Virol. 2010 Oct;84(20):10863-76

He J, Li H, Edmondson AC, Rader DJ, Li M.. A Gaussian copula approach for the analysis of secondary phenotypes in case-control genetic association studies. Biostatistics. 2012 Jul;13(3):497-508

Wang K, Edmondson AC, Li M, Wilensky R, Matthai W, Qasim A, Daveney J, Burnett MS, Pichard AD, Kent KM, Satler L, Lindsay JM, Waksman R, Knouff CW, Waterworth DM, Walker MC, Mooser V, Epstein SE, Grant SF, Reilly MP, Hakonarson H, Rader DJ. Pathway-wide association studies implicate multiple sterol transport and metabolism genes in regulating HDL cholesterol levels. Front Genet. 2011;2:41

Khetarpal SA*, Edmondson AC*, Raghavan A, Neeli H, Jin W, Badellino KO, Cupples LA, Demissie S, Manning A, DerOhannessian S, Wolfe ML, Kathiresan S, Rader DJ. Mining the LIPG Allelic Spectrum Reveals the Contribution of Rare and Common Regulatory Variants to HDL Cholesterol. PLoS Genet. 2011. 7:e1002393.

Edmondson AC, Braund PS, Stylianou IM, Khera AV, Nelson CP, Wolfe ML, DerOhannessian SL, Keating BJ, Qu L, He J, Tobin MD,Tomaszewski M, Baumert J, Klopp N, Döring A, Thorand B, Li M, Reilly MP, Koenig W, Samani NJ, Rader DJ. Dense genotyping of candidate gene loci identifies variants associated with high-density lipoprotein cholesterol. Circ Cardiovasc Genet. 2011. 4:145-155.

He J, Wang K, Edmondson AC, Rader DJ, Li C, Li M. Gene-based Interaction Analysis by Incorporating External Linkage Disequilibrium Information. Eur J Hum Genet. 2011.19:164-172.

Teslovich TM, Musunuru K, Smith AV, Edmondson AC, Stylianou IM, Koseki M, Pirruccello JP, Ripatti S, Chasman DI, Willer CJ, Johansen CT, Fouchier SW, Isaacs A, Peloso GM, Barbalic M, Ricketts SL, Bis JC, Aulchenko YS, Thorleifsson G, Feitosa MF, Chambers J, Orho-Melander M, Melander O, Johnson T, Li X, Guo X, Li M, Shin Cho Y, Jin Go M, Jin Kim Y, Lee JY, Park T, Kim K, Sim X, Twee-Hee Ong R, Croteau-Chonka DC, Lange LA, Smith JD, Song K, Hua Zhao J, Yuan X, Luan J, Lamina C, Ziegler A, Zhang W, Zee RY, Wright AF, Witteman JC, Wilson JF, Willemsen G, Wichmann HE, Whitfield JB, Waterworth DM, Wareham NJ, Waeber G, Vollenweider P, Voight BF, Vitart V, Uitterlinden AG, Uda M, Tuomilehto J, Thompson JR, Tanaka T, Surakka I, Stringham HM, Spector TD, Soranzo N, Smit JH, Sinisalo J, Silander K, Sijbrands EJ, Scuteri A, Scott J, Schlessinger D, Sanna S, Salomaa V, Saharinen J, Sabatti C, Ruokonen A, Rudan I, Rose LM, Roberts R, Rieder M, Psaty BM, Pramstaller PP, Pichler I, Perola M, Penninx BW, Pedersen NL, Pattaro C, Parker AN, Pare G, Oostra BA, O'Donnell CJ, Nieminen MS, Nickerson DA, Montgomery GW, Meitinger T, McPherson R, McCarthy MI, McArdle W, Masson D, Martin NG, Marroni F, Mangino M, Magnusson PK, Lucas G, Luben R, Loos RJ, Lokki ML, Lettre G, Langenberg C, Launer LJ, Lakatta EG, Laaksonen R, Kyvik KO, Kronenberg F, König IR, Khaw KT, Kaprio J, Kaplan LM, Johansson A, Jarvelin MR, Cecile J W Janssens A, Ingelsson E, Igl W, Kees Hovingh G, Hottenga JJ, Hofman A, Hicks AA, Hengstenberg C, Heid IM, Hayward C, Havulinna AS, Hastie ND, Harris TB, Haritunians T, Hall AS, Gyllensten U, Guiducci C, Groop LC, Gonzalez E, Gieger C, Freimer NB, Ferrucci L, Erdmann J, Elliott P, Ejebe KG, Döring A, Dominiczak AF, Demissie S, Deloukas P, de Geus EJ, de Faire U, Crawford G, Collins FS, Chen YD, Caulfield MJ, Campbell H, Burtt NP, Bonnycastle LL, Boomsma DI, Boekholdt SM, Bergman RN, Barroso I, Bandinelli S, Ballantyne CM, Assimes TL, Quertermous T, Altshuler D, Seielstad M, Wong TY, Tai ES, Feranil AB, Kuzawa CW, Adair LS, Taylor HA Jr, Borecki IB, Gabriel SB, Wilson JG, Holm H, Thorsteinsdottir U, Gudnason V, Krauss RM, Mohlke KL, Ordovas JM, Munroe PB, Kooner JS, Tall AR, Hegele RA, Kastelein JJ, Schadt EE, Rotter JI, Boerwinkle E, Strachan DP, Mooser V, Stefansson K, Reilly MP, Samani NJ, Schunkert H, Cupples LA, Sandhu MS, Ridker PM, Rader DJ, van Duijn CM, Peltonen L, Abecasis GR, Boehnke M, Kathiresan S. Biological, clinical and population relevance of 95 loci for blood lipids. Nature. 2010. 466:707-713.

Brown RJ, Edmondson AC, Griffon N, Hill TB, Fuki IV, Badellino KO, Li M, Wolfe ML, Reilly MP, Rader DJ. A naturally occurring variant of endothelial lipase associated with elevated HDL exhibits impaired synthesis. J Lipid Res. 2009 Sep;50(9):1910-6.

Jensen MK, Rimm EB, Mukamal KJ, Edmondson AC, Rader DJ, Vogel U, Tjonneland A, Sorensen TI, Schmidt EB, Overvad K. The T111I variant in the endothelial lipase gene and risk of coronary heart disease in three independent populations. Eur Heart J. 2009. 30:1584-1589.

Edmondson AC, Brown RJ, Kathiresan S, Cupples LA, Demissie S, Manning AK, Jensen MK, Rimm EB, Wang J, Rodrigues A, Bamba V, Khetarpal SA, Wolfe ML, DerOhannessian S, Li M, Reilly MP, Aberle J, Evans D, Hegele RA, Rader DJ. Loss-of-function variants in endothelial lipase are a cause of elevated HDL cholesterol in humans. J Clin Invest. 2009.119:1042-50.

Keating BJ, Tischfield S, Murray SS, Bhangale T, Price TS, Glessner JT, Galver L, Barrett JC, Grant SF, Farlow DN, Chandrupatla HR, Hansen M, Ajmal S, Papanicolaou GJ, Guo Y, Li M, Derohannessian S, de Bakker PI, Bailey SD, Montpetit A, Edmondson AC, Taylor K, Gai X, Wang SS, Fornage M, Shaikh T, Groop L, Boehnke M, Hall AS, Hattersley AT, Frackelton E, Patterson N, Chiang CW, Kim CE, Fabsitz RR, Ouwehand W, Price AL, Munroe P, Caulfield M, Drake T, Boerwinkle E, Reich D, Whitehead AS, Cappola TP, Samani NJ, Lusis AJ, Schadt E, Wilson JG, Koenig W, McCarthy MI, Kathiresan S, Gabriel SB, Hakonarson H, Anand SS, Reilly M, Engert JC, Nickerson DA, Rader DJ, Hirschhorn JN, Fitzgerald GA. Concept, design and implementation of a cardiovascular gene-centric 50 k SNP array for large-scale genomic association studies. PLoS ONE 2008. 3:e3583.

Edmondson AC and Rader DJ. Genome-Wide Approaches to Finding Novel Genes for Lipid Traits: the Start of a Long Road. Circ Cardiovasc Genet. 2008.1:3-6.

Li RC, Finkelman BS, Chen J, Booth SL, Bershaw L, Brensinger CM, Kimmel SE. Dietary Vitamin K Intake and Therapeutic Anticoagulation Control During the Initiation Phase of Warfarin Therapy: A Prospective Cohort Study. J Thromb Haemost. 2013 Mar; 110(1):195-6.

Finkelman BS, Rubinstein WS, Friedman S, Friebel TM, Rebbeck TR, et al, for the PROSE Consortium. Breast and Ovarian Cancer Risk and Risk Reduction in Jewish BRCA1/2 Mutation Carriers. J Clin Oncol. 2012 Apr; 30(12): 1321-28.

Finkelman BS
, Gage BF, Johnson JA, Brensinger CM, Kimmel SE. Genetic Warfarin Dosing: Tables vs. Algorithms. J Am Coll Cardiol. 2011 Feb 1;57(5):612-8.

Zhang Z, Kofonow JM, Finkelman BS, Doghramji L, Chiu AG, Kennedy DW, Cohen NA, Palmer JN. Clinical factors associated with bacterial biofilm formation in chronic rhinosinusitis. Otolaryngol Head Neck Surg. 2011 Mar;144(3):457-62.

Zhang Z, Linkin DR, Finkelman BS, O'Malley BW Jr, Thaler ER, Doghramji L, Kennedy DW, Cohen NA, Palmer JN. Asthma and biofilm-forming bacteria are independently associated with revision sinus surgeries for chronic rhinosinusitis. J Allergy Clin Immunol. 2011 Jul;128(1):221-223.e1.

Schelleman H, Brensinger CM, Chen J, Finkelman BS, Rieder MJ, Kimmel SE. (2010) New genetic variant that might improve warfarin dose prediction in African Americans. Br J Clin Pharmacol. 2010 Sep;70(3):393-9.

Friedman AB, Mendola TS. To Cover Their Child, One Couple Navigates A Health Insurance Maze In Pennsylvania. Health Aff May 2013 vol. 32 no. 5 994-997.

Friedman AB, Becker N.  Understanding the Individual Mandate's SCOTUS Pivot Points.  LDI Health Economist. April 2012.

Ezzati M, Horwitz ME, Thomas DS, Friedman AB, Roach R, Clark T, Murray CJ, Honigman B. Altitude, life expectancy and mortality from ischaemic heart disease, stroke, COPD and cancers: national population-based analysis of US counties. J Epidemiol Community Health. 2012 Jul;66(7):e17. doi: 10.1136/jech.2010.112938

Dionisio KL, Rooney MS, Arku RE, Friedman AB, Hughes AF, Vallarino J,  Agyei-Mensah S, Spengler JD, Ezzati M. Within-neighborhood patterns and sources of particle pollution: mobile monitoring and geographic information system analysis in four communities in Accra, Ghana. Environmental Health Perspectives 2010. 118(5):607-13.

Gandal MJ,Edgar JC, Klook K, Siegel SJ. Gamma synchrony: towards a translational biomarker for the treatment-resistant symptoms of schizophrenia. Neuropharmacology. 2012 Mar;62(3):1504-18. doi: 10.1016/j.neuropharm.2011.02.007

Gandal MJ
, Sisti J, Klook K, Leitman V, Liang Y, Thieu T, Ortinski P, Pierce CR, Saunders J, Anderson R, Ambler L, Jonak G, Gur R, Carlson GC, Siegel SJ.  GABAB-mediated rescue of altered excitatory-inhibitory balance, gamma synchrony and behavioral deficits following constitutive NMDAR-hypofunction. Transl Psychiatry. 2012 Jul 17;2:e142.

Gandal MJ, Anderson R, Billingslea E, Roberts TP, Carlson GC, Siegel SJ Mice with reduced NMDA receptor expression: more consistent with autism than schizophrenia? Genes Brain Behav. 2012 Aug;11(6):740-50

Saunders J, Gandal MJ, Siegel SJ NMDA antagonists recreate signal-to-noise ratio and timing perturbations present in schizophrenia. Neurobiol Dis. 2012 Apr;46(1):93-100

Liao W,Gandal MJ, Ehrlichman RS, Siegel SJ, Carlson GC. MeCP2+/- mouse model of RTT reproduces auditory phenotypes associated with Rett syndrome and replicate select EEG endophenotypes of autism spectrum disorder. Neurobiol Dis. 2012 Apr;46(1):88-92

Gandal MJ,Edgar JC, Klook K, Siegel SJ. Gamma synchrony: towards a translational biomarker for the treatment-resistant symptoms of schizophrenia. Neuropharmacology. 2012 Mar;62(3):1504-18.

Carlson GC, Talbot K, Halene TB,Gandal MJ, Kazi HA, Schlosser L, Gur RE, Arnold SE, Siegel SJ Dysbindin-1 mutant mice implicate reduced parvalbumin-cell mediated inhibition as a final common disease mechanism in schizophrenia. 2011 PNAS. 108(43):E962-70.

Mehta MM*, Gandal MJ*, Siegel SJ. mGluR5-antagonist mediated reversal of elevated stereotyped, repetitive behaviors in the VPA model of autism. PLoS One. 2011;6(10):e26077. *Equal contribution.

Lazarewicz MT, Ehrlichamn RS, Maxwell CR,Gandal MJ, Siegel SJ, Finkel LH. Ketamine modulates theta and gamma oscillations. J Cogn Neurosci.2010 22(7): 1452-64.

Amann LC,Gandal MJ, Lin R, Liang Y, Siegel SJ. In vitro – in vivo correlations of scalable PLGA / risperidone implants for the treatment of schizophrenia.Pharm Res.2010 27(8):1730-7

Amann LC,Gandal MJ, Halene TB, Ehrlichman RS, White SL, McCarren HS, Siegel SJ. Mouse behavioral endophenotypes for schizophrenia. Brain Res Bull. 2010 83(3-4):147-61

Roberts TPL, Khan S, Rey M, Monroe J, Cannon K, Blaskey L, Woldoff S, Qasmieh S,Gandal M, Schmidt G, Zarnow DM, Levy SE, Edgar JC. MEG Detection of Delayed Auditory Evoked Responses in Autism Spectrum Disorders: Towards an Imaging Biomarker for Autism. Autism Res2010 3(1):8-18.

Gandal MJ, Edgar JC, Ehrlichman RS, Mehta M, Roberts TP, Siegel SJ. Validating gamma oscillations and delayed auditory responses as translational biomarkers of autism. Biol Psychiatry2010 68(12):1100-6

Gandal MJ, Ehrlichman RS, Siegel SJ. A novel electrophysiological model of chemotherapy induced cognitive impairment in mice. Neuroscience. 2008157(1): 95-104

Ehrlichman RS,Gandal MJ, Maxwell CR, Lazarewicz M, Finkel LH, Contreras D, Turetsky BI, Siegel SJ N-methyl-D-aspartate receptor antagonist induced frequency oscillations in mice recreates the pattern of electrophysiological deficits in schizophrenia.Neuroscience2008 158(2): 705-12.

Gordon SM, Chaix J, Rupp LJ, Wu J, Madera S, Sun JC, Lindsten T, Reiner SL. The transcription factors T-bet and Eomes control key checkpoints of natural killer cell maturation. Immunity 2012 36, 55­–67.

Qui HZ, Hagymasi AT, Bandyopadhyay S, St Rose MC, Ramanarasimhaiah R, Ménoret A, Mittler RS, Gordon SM, Reiner SL, Vella AT, Adler AJ. CD134 plus CD137 dual costimulation induces Eomesodermin in CD4 T cells to program cytotoxic Th1 differentiation. J Immunol 2011 187, 3555–3564.

Gordon SM, Carty SA, Kim JS, Zou T, Smith-Garvin J, Alonzo ES, Haimm E, Sant'Angelo DB, Koretzky GA, Reiner SL, Jordan MS. Requirements for eomesodermin and promyelocytic leukemia zinc finger in the development of innate-like CD8+ T cells. J Immunol 2011 186, 4573–4578.

Kinjyo I, Gordon SM, Intlekofer AM, Dowdell K, Mooney EC, Caricchio R, Grupp SA, Teachey DT, Rao VK, Lindsten T, Reiner SL. Cutting edge: Lymphoproliferation caused by Fas deficiency is dependent on the transcription factor eomesodermin. J Immunol. 2010 Dec 15;185(12):7151-5.

Banerjee A, Gordon SM, Intlekofer AM, Paley MA, Mooney EC, Lindsten T, Wherry EJ, Reiner SL. Cutting edge: The transcription factor eomesodermin enables CD8+ T cells to compete for the memory cell niche. J Immunol 2010 185, 4988–4992.

Intlekofer AM, Banerjee A, Takemoto N, Gordon SM, Dejong CS, Shin H, Hunter CA, Wherry EJ, Lindsten T, Reiner SL. Anomalous type 17 response to viral infection by CD8+ T cells lacking T-bet and eomesodermin. Science 2008 321, 408–411.

Jamiolkowski RM, Guo LY, Li YR, Shaffer SM, Naji A. Islet transplantation in type I diabetes mellitus.  Yale J Biol Med. 2012 Mar; 85(1):37-43.

Singh N*, Gupta M*, Trivedi CM, Singh MK, Li L, Epstein JA. Murine craniofacial development requires Hdac3-mediated repression of Msx gene expression. Developmental Biol. 2013 May;377(2):333–44.

Shen CJ, Raghavan S, Xu Z, Baranski JD, Yu X, Wozniak MA, Miller JS, Gupta M, Buckbinder L, Chen CS. Decreased cell adhesion promotes angiogenesis in a Pyk2-dependent manner. Exp Cell Res. 2011 Aug 1;317(13):1860-71.

Anokye-Danso F, Trivedi CM, Juhr D, Gupta M, Cui Z, Tian Y, Zhang Y, Yang W, Gruber PJ, Epstein JA, Morrisey EE. Highly efficient miRNA-mediated reprogramming of mouse and human somatic cells to pluripotency. Cell Stem Cell. 2011 Apr 8;8(4):376-88.

Hergott CB, Mitra M, Guo J, Wu T, Miller JT, Iwatani Y, Gorelick RJ, Levin JG. Zinc finger function of HIV-1 nucleocapsid protein is required for removal of 5'-terminal genomic RNA fragments: a paradigm for RNA removal reactions in HIV-1 reverse transcription. Virus Res. 2013 Feb;171(2):346-55.

Boulaftali Y, Hess PR, Getz TM, Cholka A, Stolla M, Mackman N, Owens AP 3rd, Ware J, Kahn ML, Bergmeier W. Platelet ITAM signaling is critical for vascular integrity in inflammation. J Clin Invest. 2013 Jan 25.

Acton SE, Astarita JL, Malhotra D, Lukacs-Kornek V, Franz B, Hess PR, Jakus Z, Kuligowski M, Fletcher AL, Elpek KG, Bellemare-Pelletier A, Sceats L, Reynoso ED, Gonzalez SF, Graham DB, Chang J, Peters A, Woodruff M, Kim YA, Swat W, Morita T, Kuchroo V, Carroll MC, Kahn ML, Wucherpfennig KW, Turley SJ. Podoplanin-rich stromal networks induce dendritic cell motility via activation of the C-type lectin receptor CLEC-2. Immunity. 2012 Aug 24;37(2):276-89

Zlotoff DA, Zhang SL, De Obaldia ME, Hess PR, Todd SP, Logan TD, Bhandoola A. Delivery of progenitors to the thymus limits T-lineage reconstitution after bone marrow transplantation. Blood. 2011 Jun 9

Bertozzi CC, Schmaier AA, Mericko P, Hess PR,  Zou Z, Chen M, Chen C, Xu B, Lu M, Zhou D, Sebzda E, Santore MT, Merianos DJ, Stadtfeld M, Flake AW, Graf T, Skoda R, Maltzman JS, Koretzky GA, Kahn ML. Platelets regulate lymphatic vascular development through CLEC-2-SLP-76 signaling. Blood. 2010 Jul 29;116(4):661-70.

Signarvic RS, Cierniewska A, Stalker TJ, Fong KP, Chatterjee MS, Hess PR, Ma P, Diamond SL, Neubig RR, Brass LF. RGS/Gi2alpha interactions modulate platelet accumulation and thrombus formation at sites of vascular injury. Blood. 2010 Dec 23;116(26):6092-100.

Bertozzi CC, Hess PR, Kahn ML. Platelets: covert regulators of lymphatic development. Arterioscler Thromb Vasc Biol. 2010 Dec;30(12):2368-71.

Hill DA, Artis D. The influence of commensal bacteria-derived signals on basophil-associated allergic inflammation. Gut Microbes. 2013 Jan;4(1):76-83.

Dollive S, Peterfreund GL, Sherrill-Mix S, Bittinger K, Sinha R, Hoffmann C, Nabel CS, Hill DA, Artis D, Bachman MA, Custers-Allen R, Grunberg S, Wu GD, Lewis JD, Bushman FD. A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples. Genome Biol. 2012 Jul;13(7):R60

Hill DA, Siracusa MC, Abt MC, Kim BS, Kobuley D, Kubo M, Kambayashi T, Larosa DF, Renner ED, Orange JS, Bushman FD, Artis D. Commensal bacteria-derived signals regulate basophil hematopoiesis and allergic inflammation. Nat Med. 2012 Mar 25;18(4):538-46.

Carvalho LP, Petritus PM, Trochtenberg AL, Zaph C, Hill DA, Artis D, Scott P Lymph node hypertrophy following Leishmania major infection is dependent on TLR9. J Immunol. 2012 Feb 1;188(3):1394-401.

Siracusa MC, Saenz SA, Hill DA, Kim BS, Headley MB, Doering TA, Wherry EJ, Jessup HK, Siegel LA, Kambayashi T, Dudek EC, Kubo M, Cianferoni A, Spergel JM, Ziegler SF, Comeau MR, Artis D TSLP promotes interleukin-3-independent basophil haematopoiesis and type 2 inflammation. Nature. 2011 Aug 14;477(7363):229-33

Hill DA, Artis D. Intestinal bacteria and the regulation of immune cell homeostasis. Annual Reviews of Immunology. 2010 Apr;28:623-67. PMID: 20192812.

Hill DA, Hoffmann C, Abt MC, Du Y, Kobuley D, Kirn TJ, Bushman FD, Artis D Metagenomic analyses reveal antibiotic-induced temporal and spatial changes in intestinal microbiota with associated alterations in immune cell homeostasis. Mucosal Immunol. 2010 Mar;3(2):148-58

Hill DA, Artis D. Maintaining diplomatic relations between mammals and beneficial microbial communities. Science Signaling. 2009 Nov;2(98):77-79.

Hoffmann C, Hill DA, Minkah N, Kirn T, Troy A, Artis D, Bushman F.. Community-Wide Response of the Gut Microbiota to Enteropathogenic Citrobacter rodentium Infection Revealed by Deep Sequencing. Infect Immun. 2009 Oct;77(10):4668-78

Kassim SH, Li H, Vandenberghe LH, Hinderer C, Bell P, Marchadier D, Wilson A, Cromley D, Redon V, Yu H, Wilson JM, Rader DJ. Gene Therapy in a Humanized Mouse Model of Familial Hypercholesterolemia Leads to Marked Regression of Atherosclerosis.  PLoS One. 2010 Oct 19;5(10):e13424.

Mace EM, Wu WW, Ho T, Mann SS, Hsu HT, Orange JS. NK cell lytic granules are highly motile at the immunological synapse and require f-actin for post-degranulation persistence. J Immunol. 2012 Nov 15;189(10):4870-80

Moscato EH, Jain A, Peng X, Hughes EG, Dalmau J, Balice-Gordon RJ. Mechanisms underlying autoimmune synaptic encephalitis leading to disorders of memory, behavior and cognition: insights from molecular, cellular and synaptic studies. (2010) Eur J Neurosci 32(2):298-309

Kumar MA, Jain A, Dechant VE, Saito T, Rafael T, Aizawa H, Dysart KC, Katayama T, Ito Y, Araki N, Abe T, Balice-Gordon R, Dalmau J. Anti-N-methyl-D-aspartate receptor encephalitis during pregnancy. Arch Neurol 2010 67(7):884-7.

Dreses-Werringloer U, Lambert JC, Vingtdeux V, Zhao H, Vais H, Siebert A, Jain A, Koppel J, Rovelet-Lecrux A, Hannequin D, Pasquier F, Galimberti D, Scarpini E, Mann D, Lendon C, Campion D, Amouyel P, Davies P, Foskett JK, Campagne F, Marambaud P. A polymorphism in CALHM1 influences Ca2+ homeostasis, Abeta levels, and Alzheimer's disease risk. Cell 2008 133(7):1149-61.

Jamiolkowski RM, Guo LY,  Li YR, Shaffer SM, Naji A. Islet transplantation in type I diabetes mellitus. Yale J Biol Med. 2012 Mar;85(1):37-43.

Riese MJ, Wang L-CS, Moon EK, Joshi RP, Ranganathan A, June CH, et al. Enhanced effector responses in activated CD8+ T cells deficient in diacylglycerol kinases. Cancer Res. 2013 Apr 10.

Joshi RP, Koretzky GA. Diacylglycerol kinases: regulated controllers of T cell activation, function, and development. Int J Mol Sci. 2013;14(4):6649–73. Review.

Juntilla MM, Patil VD, Calamito M, Joshi RP, Birnbaum MJ, Koretzky GA.  AKT1 and AKT2 maintain hematopoietic stem cell function by regulating reactive oxygen species. Blood. 2010 May 20;115(20):4030-8.

Kadauke S, Picarelli A, Di Tola M, Parikh RK, Naylor P, Zhou WL, Bowman J, Bullock D, Tobi M. Letter: Adnab-9 as a potential non-invasive biomarker for prediction of malignancy in coeliac disease. Aliment Pharmacol Ther. 2013 Apr;37(7):761-2

Kadauke S, Blobel GA. Mitotic bookmarking by transcription factors. Epigenetics Chromatin. 2013 Apr 2;6(1):6

Kadauke S, Blobel GA. "Remembering" tissue-specific transcription patterns through mitosis. Cell Cycle. 2012 Nov 1;11(21):3911-2.

Kadauke S, Udugama MI, Pawlicki JM, Achtman JC, Jain DP, Cheng Y, Hardison RC, Blobel GA. Tissue-specific mitotic bookmarking by hematopoietic transcription factor GATA1. Cell. 2012 Aug 17;150(4):725-37.

Lamonica JM, Deng W, Kadauke S, Campbell AE, Gamsjaeger R, Wang H, Cheng Y, Billin AN, Hardison RC, Mackay JP, Blobel GA. Bromodomain protein Brd3 associates with acetylated GATA1 to promote its chromatin occupancy at erythroid target genes. Proc Natl Acad Sci U S A. 2011 May 31;108(22):E159-68.

Kadauke S
and Blobel GA. Chromatin loops in gene regulation. Biochim Biophys Acta. 2009 1789 (1):17-25

Blobel GA, Kadauke S, Wang E, Lau AW, Zuber J, Chou MM, Vakoc CR. A reconfigured pattern of MLL occupancy within mitotic chromatin promotes rapid transcriptional reactivation following mitotic exit. Mol Cell. 2009 Dec 25;36(6):970-83.

Khandros E, Mollan TL, Yu X, Wang X, Yao Y, D'Souza J, Gell DA, Olson JS, Weiss MJ. Insights into hemoglobin assembly through in vivo mutagenesis of alpha-hemoglobin stabilizing protein. Journal of Biological Chemistry 2012 287(14):11325-11337.

Mollan TL, Khandros E, Weiss MJ, Olson JS. The kinetics of alpha-globin binding to alpha hemoglobin stabilizing protein (AHSP) indicate preferential stabilization of a hemichrome folding intermediate. Journal of Biological Chemistry 2012 287(14):11338-11352

KhandrosE, Thom CS, D'Souza J, Weiss MJ. Integrated protein quality control pathways regulate free α globin in murine β-thalassemia. Blood. 2012 May 31;119(22):5265-75.

Kirino Y, Vourekas A, Khandros E, Mourelatos Z. Immunoprecipitation of piRNPs and Directional, Next Generation Sequencing of piRNAs. Methods in Molecular Biology 2011 725:281-293.

Khoo C, Yang J, Weinrott S, Kaestner KH, Naji A, Schug J, Stoffers DA. Research resource: The Pdx1 Cistrome of Pancreatic Islets. Molecular Endocrinology 2012 26(3):521-33.

Khoo C, Yang J, Rajpal G, Wang Y, Liu J, Arvan P, Stoffers DA. Endoplasmic Reticulum Oxidoreductin-1-Like b (ERO1lb) Regulates Susceptibility to Endoplasmic Reticulum Stress and is Induced by Insulin Flux in b-Cells. Endocrinology 2011 152(7):2599-608.

Sachdeva, MM, Claiborn, KC, Khoo, C, Yang, J, Groff, DN, Mirmira, RG, Stoffers, DA. Pdx1 (MODY4) regulates pancreatic beta cell susceptibility to ER stress. Proc Natl Acad Sci USA 2009 106(45):19090-5.

Pan, W, Choi, SC, Wang, H, Qin, Y, Volpicelli-Daley, L, Swan, L, Lucast, L, Khoo, C, Zhang, X, Li, L, Abrams, CS, Sokol, SY, Wu, D. Wnt3a-mediated formation of phosphatidylinositol 4,5-bisphosphate regulates LRP6 phosphorylation. Science 2008 321: 1350-53.

Lieberman SM, Kim JS, Corbo-Rodgers E, Kambayashi T, Maltzman JS, Behrens EM, Turka LA Site-specific accumulation of recently activated CD4+ Foxp3+ regulatory T cells following adoptive transfer.Eur J Immunol. 2012 Jun;42(6):1429-35.

Gordon S, Carty S, Kim JS, Zou T, Smith-Garvin JE, Alonzo ES, Haimm E, Sant’Angelo DB, Koretzky GA, Reiner SL, Jordan MS. Requirements for Eomesodermin and PLZF in the development of innate-like CD8+ T cells. J Immunol. 2011 186 (8): 4573-8.

Chang JT, Ciocca ML, Kinjyo I, Palanivel VR, McClurkin CE, Dejong CS, Mooney EC, Kim JS, Steinel NC, Oliaro J, Yin CC, Florea BI, Overkleeft HS, Berg LJ, Russell SM, Koretzky GA, Jordan MS, Reiner SL. Asymmetric proteasome segregation, regulated degradation, and the unequal inheritance of a fate determinant during cell division.  Immunity 2011 34 (4): 492-504. 

Kim JS, Smith-Garvin JE, Koretzky GA, Jordan MS. The requirements for natural Th17 cell development are distinct from those of conventional Th17 cells. J Exp Med 2011 208 (11): 2201-7.

Smith-Garvin JE, Burns JC, Gohil M, Zou T, Kim JS, Maltzman JS, Wherry EJ, Koretzky GA, Jordan MS. T cell receptor signals direct the composition and function of the memory CD8+ T cell pool. Blood. 2010 116 (25): 5548-59.

Li P, Kim MM, Doshi JA. Comparison of the performance of the CMS Hierarchical Condition Category (CMS-HCC) risk adjuster with the Charlson and Elixhauser comorbidity measures in predicting mortality. BMC Health Serv Res. 2010 Aug 20;10:245.

Kim MM, Metlay J, Cohen A, Feldman H, Hennessy S, Kimmel S, Strom B, Doshi JA. Hospitalization costs associated with warfarin-related bleeding events among older community-dwelling adults. Pharmacoepidemiol Drug Saf. 2010 Jul;19(7):731-6.

Kim MM, Barnato AE, Angus DC, Fleisher LA, Kahn JM. The effect of multidisciplinary care teams on intensive care unit mortality. Arch Intern Med. 2010 Feb 22;170(4):369-76.

Sawamukai N, Satake A, Schmidt AM, Lamborn IT, Ojha P, Tanaka Y, Kambayashi T. Cell-autonomous role of TGFβ and IL-2 receptors in CD4+ and CD8+ inducible regulatory T-cell generation during GVHD.  Blood. 2012 Jun 7;119(23):5575-83.

Lazarus JE, Moughamian AJ, Tokito M, Holzbaur EL. Dynactin subunit p150Glued is a neuron-specific anti-catastrophe factor. In press at PLoS Biology.

Moughamian AJ, Osborn G, Lazarus JE, Holzbaur EL. End-binding proteins recruit dynactin to the microtubule plus-end through CLIP-170 for efficient transport initiation. In press at J Neurosci.

Zhang J, Twelvetrees AE, Lazarus JE, Blasier KR, Yao X, Inamda NA, Holzbaur EL, Pfister K, Xiang X. Establishing a novel transgenic mouse line for studying neuronal cytoplasmic dynein under normal and pathogenic conditions. Cytoskeleton. 2013 Apr;70(4):215-27.

Hendricks AG*, Lazarus JE*, Perlson, E, Gardner M, Odde D, Tokito M, Goldman YE, Holzbaur EL. Dynein tethers and stabilizes dynamic microtubule plus ends. Current Biology. 2012 Apr 10;22 (7): 632-7. * Denotes equal contribution.

Hendricks AG, Lazarus JE, Holzbaur EL. Dynein at odd angles? Nat Cell Biol. 2010 Dec;12(12):1126-8.

Dixit R, Barnett B, Lazarus JE, Tokito M, Goldman YE, Holzbaur EL. Microtubule plus-end tracking by CLIP-170 requires EB1. Proc Natl Acad Sci U S A. 2009 Jan 13;106(2):492-7.

Takeda N, Jain R, LeBoeuf MR, Wang Q, Lu MM, Epstein JA. Interconversion between intestinal stem cell populations in distinct niches. Science. 2011 Dec 9;334(6061):1420-4.

LeBoeuf M, Terrell A, Trivedi S, Sinha S, Epstein JA, Olson EN, Morrisey EE, Millar SE. Hdac1 and Hdac2 act redundantly to control p63 and p53 functions in epidermal progenitor cells. Dev Cell. 2010 Dec 14;19(6):807-18.

Vaites LP, Lee EK, Lian Z, Barbash O, Roy D, Wasik M, Klein-Szanto AJ, Rustgi AK, Diehl JA. The Fbx4 Tumor Suppressor Regulates Cyclin D1 Accumulation and Prevents Neoplastic Transformation. Mol Cell Biol. 2011 Nov;31(22):4513-23.

Barbash O, Lee EK, Diehl JA. Phosphorylation-dependent regulation of SCFFbx4 dimerization and activity involves a novel component, 14-3-3ε. Oncogene. 2011 Apr 28;30(17):1995-2002.

Lee EK, Diehl JA. Breast cancer go sMAD: Cyclin towards aggressive phenotypes. Cell Cycle.2011 Jan 15;10(2):187.

Hadziahmetovic M, Kumar U, Song Y, Grieco S, Song D, Li Y, Tobias JW, Dunaief JL. Microarray analysis of murine retinal light damage reveals changes in iron regulatory, complement, and antioxidant genes in the neurosensory retina and isolated RPE. Invest Ophthalmol Vis Sci. 2012 Aug 7;53(9):5231-41.

Lee T, Li YR, Chesi A, Hart MP, Ramos D, Jethava N, Hosangadi D, Epstein J, Hodges B, Bonini NM, Gitler AD.Ataxin-2 intermediate-length polyglutamine expansions in European ALS patients. Hum Mol Genet. 2011 May 1;20(9):1697-700

Lee T, Li YR, Chesi A, Hart MP, Ramos D, Jethava N, Hosangadi D, Epstein J, Hodges B, Bonini NM, Gitler AD. Evaluating the prevalence of polyglutamine repeat expansions in amyotrophic lateral sclerosis. Neurology.  2011 Jun 14;76(24):2062-5.

Lanktree MB, Guo Y, Murtaza M, Glessner JT, Bailey SD, Onland-Moret NC, Lettre G, Ongen H, Rajagopalan R, Johnson T, Shen H, Nelson CP, Klopp N, Baumert J, Padmanabhan S, Pankratz N, Pankow JS, Shah S, Taylor K, Barnard J, Peters BJ, Maloney CM, Lobmeyer MT, Stanton A, Zafarmand MH, Romaine SP, Mehta A, van Iperen EP, Gong Y, Price TS, Smith EN, Kim CE, Li YR,… Hakonarson H, Keating BJ. Meta-analysis of Dense Genecentric Association Studies Reveals Common and Uncommon Variants Associated with Height,” The American Journal of Human Genetics 2011 88:6-18.

Lin GL, Hankenson KD. Integration of BMP, Wnt, and Notch signaling pathways in osteoblast differentiation. J Cell Biochem. 2011 Dec; 112(12):3491-501.

Lippa AM, Goulian M. Perturbing the oxidizing environment of the periplasm stimulates the PhoQ/PhoP system in E. coli. J. Bacteriol. 2012. 194(6):1457-63.

Jiao J, Guan H, Lippa AM, Ricciardi RP. The N-terminus of Adenovirus 12 E1A Inhibits MHC Class I Expression by Preventing Phosphorylation of NF-κB p65 Ser276 Through Direct Binding. J. Virol. 2010. 84(15):7668-74.

Lippa AM, Goulian M. Feedback Inhibition in the PhoQ/PhoP Signaling System by a Membrane Peptide. PLoS Genetics. 2009. 5(12): e1000788.

Skuli N, Majmundar AJ, Krock BL, Mesquita RC, Mathew LK, Quinn ZL, Runge A, Liu L, Kim MN, Liang J, Schenkel S, Yodh AG, Keith B,Simon MC.  Endothelial Hypoxia Inducible Factor-2alpha (HIF-2α) regulates murine pathological angiogenesis and revascularization processes. The Journal of Cinical Investigation. 2012 Apr 2;122(4):1427-43.

Majmundar AJ, Skuli N, Mesquita RC, Kim MN, Yodh AG, Nguyen-McCarty M, Simon MC. O2 regulates skeletal muscle progenitor differentiation through PI3K/AKT signaling. Molecular and Cellular Biology. 2012 Jan;32(1):36-49.

Mesquita RC, Skuli N, Kim MN, Liang J, Schenkel S, Majmundar AJ, Simon MC, Yodh AG. Diffuse Optical Perfusion and Oxygenation Monitoring in a Mouse Model of Hindlimb Ischemia. Biomedical Optics Express. 2010 Nov 1;1(4):1173-1187.

Majmundar AJ, Wong WJ, Simon MC. Hypoxia-Inducible Factors and the Response to Hypoxic Stress. Molecular Cell. 2010 Oct 22;40(2):294-309. Review.

Bertout JA, Majmundar AJ, Gordan JD, Lam JC, Ditsworth D, Keith B, Brown EJ, Nathanson KL, Simon MC. HIF2alpha inhibition promotes p53 pathway activity, tumor cell death, and radiation responses. Proceedings of the National Academy of Sciences U S A. 2009 Aug 25;106(34):14391-6.

Nabel CS, Manning SA, Kohli RM. The curious chemical biology of cytosine: deamination, methylation, and oxidation as modulators of genomic potential.  ACS Chem Biol. 2012 Jan 20;7(1):20-30.

May RM, Okumura M, Hsu CJ, Bassiri H, Yang E, Rak G, Mace EM, Philip NH, Zhang W, Baumgart T, Orange JS, Nichols KE, Kambayashi T. Murine natural killer immunoreceptors use distinct proximal signaling complexes to direct cell function. Blood. 2013 Apr 18;121(16):3135-46.

Zou T, May RM, Koretzky GA. Understanding signal integration through targeted mutations of an adapter protein. FEBS Lett. 2010. 584(24): 4901-9.

Li RQ, McKinstry AR, Moore JT, Caltagarone BM, Eckenhoff MF, Eckenhoff RG, Kelz MB. Is hydrogen sulfide-induced suspended animation general anesthesia? J Pharmacol Exp Ther. 2012 Jun;341(3):735-42.

Pick J, Chen Y, Moore JT, Sun Y, Wyner A, Friedman EB, Kelz MB. Rapid eye movement sleep debt accrues in mice exposed to volatile anesthetics.  Anesthesiology 2011 115:702-712.

Moore JT, Kelz MB.  Brain anatomy of relevance to the anesthesiologist.  The Neuroscientific Foundations of Anesthesiology.  Eds. Mashour GA, Lydic R.  OUP.

Friedman E, Sun Y, Moore JT, Hung HT, Meng QC, Perera P, Joiner W, Thomas S, Eckenhoff R, Sehgal A, Kelz MB. A conserved behavioral state barrier impedes transitions between anesthetic-induced unconsciousness and wakefulness both in mice and flies.  PLoS One 2010 5(7):e11903.

Moore JT, Kelz MB. Opiates, sleep, and pain: The adenosinergic link. Anesthesiology 2009 111: 1175-6.

Kelz MB, Sun Y, Chen J, Meng QC, Moore JT, Veasey SC, Dixon S, Thornton M, Funato H, Yanagisawa M. An essential role for orexins in emergence from general anesthesia. PNAS 2008 105 (4): 1309-1314

Moughamian AJ, Holzbaur ELF. Dynactin is required for transport initiation from the distal axon. Neuron. 2012 Apr 26;74(2):331-43.

Moughamian AJ, Holzbaur ELF. Synaptic Vesicle Distribution by Conveyor Belt. Cell. 2012 Mar 2;148(5):849-51.

Moughamian A.J., Holzbaur E.L.F. (2012). Cytoplasmic Dynein Dysfunction and Neurodegenerative Disease, in: S.M. King (Ed.), Dyneins. Academic Press is an imprint of Elsevier, London, Waltham, San Diego, pp. 584-601.

Perlson E, Maday S, Fu MM, Moughamian AJ, Holzbaur ELF. Retrograde Axonal Transport: Pathways to Cell Death? Trends Neurosci. 2010 Jul;33(7):335-44.

Nakamoto M*, Moy RH*, Xu J, Yasunaga A, Shelly SS, Gold B, and Cherry S. Virus recognition by Toll-7 activates antiviral autophagy in Drosophila. Immunity. 2012 Apr 20;36(4):658-67. *equal contribution

Dollive S, Peterfreund GL, Sherrill-Mix S, Bittinger K, Sinha R, Hoffmann C, Nabel C, Hill DA, Artis D, Bachman MA, Custers-Allen R, Grunberg S, Wu GD, Lewis JD, Bushman FD. A tool kit for quantifying eukaryotic rRNA gene sequences from human microbiome samples. Genome Biol. 2012 Jul 3;13(7):R60.

Nabel CS, Jia H, Ye Y, Shen L, Goldschmidt HL, Stivers JT, Zhang Y, Kohli RM.AID/APOBEC deaminases disfavor modified cytosines implicated in DNA demethylation.Nat Chem Biol. 2012 Sep;8(9):751-8

Nabel CS
, Manning SA, Kohli RM. The curious chemical biology of cytosine: deamination, methylation, and oxidation as modulators of genomic potential.  ACS Chem Biol. 2012 Jan 20;7(1):20-30.

Nabel CS, Kohli RM. Demystifying DNA demethylation. Science.  2011 Sep 2;333(6047):1229-30.

Kim YJ, Lee HJ, Kim TM, Eisinger-Mathason TS, Zhang AY, Schmidt B, Karl DL, Nakazawa MS, Park PJ, Simon MC, Yoon SS. Overcoming evasive resistance from vascular endothelial growth factor a inhibition in sarcomas by genetic or pharmacologic targeting of hypoxia-inducible factor 1α. J Cancer. 2013 Jan 1;132(1):29-41.

Ocwieja KE, Sherrill-Mix S, Mukherjee R, Custers-Allen R, David P, Brown M, Wang S, Link DR, Olson J, Travers K, Schadt E, Bushman FD. Dynamic regulation of HIV-1 mRNA populations analyzed by single-molecule enrichment and long-read sequencing. Nucleic Acids Res. 2012 Nov 1;40(20):10345-55.

Schaller T, Ocwieja KE, Rasaiyaah J, Price AJ, Brady TL, Roth SL, Hué S, Fletcher AJ, Lee K, Kewalramani VN, Noursadeghi M, Jenner RG, James LC, Bushman FD, Towers GJ. HIV-1 Capsid-Cyclophilin Interactions Determine Nuclear Import Pathway, Integration Targeting and Replication Efficiency. PLoS Pathog. 2011 7(12): e1002439.

Gijsbers R, Vets S, De Rijck J, Ocwieja KE, Ronen K, Malani N, Bushman FD, Debyser Z. Role of the PWWP domain of lens epithelium-derived growth factor(LEDGF/p75) in lentiviral integration targeting. J Biol Chem. 2011 286(48): 41812-25.

Ocwieja KE, Brady TL, Ronen K, Huegel A, Roth SL, Schaller T, James LC, Towers GJ, Young JA, Chanda SK, König R, Malani N, Berry CC, Bushman FD. HIV integration targeting: a pathway involving Transportin-3 and the nuclear pore protein RanBP2. PLoS Pathog. 2011 7(3): e1001313.

Culyba MJ, Hwang Y, Hu JY, Minkah N, Ocwieja KE, and Bushman FD. Metal cofactors in the structure and activity of the fowlpox resolvase. J Mol Biol. 2010 399(1): 182-95.

Wen JW, Olsen AL, Perepelyuk M, Wells RG.Isolation of rat portal fibroblasts by in situ liver perfusion. J Vis Exp. 2012 Jun 29;(64).

Olsen AL, Sackey BK, Marcinkiewicz C, Boettiger D, Wells RG. Fibronectin EIIIA promotes hepatic stellate cell motility, not myofibroblast differentiation. Gastroenterology. 2012. 142(4):928-937.

Kuhs KAL, Toporovski R, Ginsberg AA, Olsen AL, Shedlock DJ, Morrow MP, Yan J, Wells RG, Weiner DB. Peripheral immunization induces functional intrahepatic Hepatitis C specific immunity following selective retention of vaccine-specific CD8 T cells by the liver. Hum Vaccin. 2011. 7(12):1326-35.

Olsen AL, Bloomer SA, Chan EP, Gaca MDA, Georges PC, Sackey B, Uemura M, Janmey PA, Wells RG. Hepatic stellate cells require a stiff environment for myofibroblastic differentiation. Am J Physiol Gastrointest Liver Physiol. 2011. 301(1):G110-8.

Olsen AL, Stachura DL, Weiss MJ. Designer blood: creating hematopoietic lineages from embryonic stem cells. Blood. 2006. 107(4):1265-75.

Paley MA, Gordon SM, Bikoff EK, Robertson EJ, Wherry EJ, Reiner SL.Technical Advance: Fluorescent reporter reveals insights into eomesodermin biology in cytotoxic lymphocytes. J Leukoc Biol. 2013 Feb;93(2):307-15

Doering TA, Crawford A, Angelosanto JM, Paley MA, Ziegler CG, Wherry EJ.Network analysis reveals centrally connected genes and pathways involved in CD8+ T cell exhaustion versus memory. Immunity. 2012 Dec 14;37(6):1130-44.

Paley MA, Kroy DC, Odorizzi PM, Johnnidis JB, Dolfi DV, Barnett BE, Bikoff EK, Robertson EJ, Lauer GM, Reiner SL, Wherry EJ.Progenitor and terminal subsets of CD8+ T cells cooperate to contain chronic viral infection. Science. 2012 Nov 30;338(6111):1220-5.

Abt MC, Osborne LC, Monticelli LA, Doering TA, Alenghat T, Sonnenberg GF, Paley MA, Antenus M, Williams KL, Erikson J, Wherry EJ, Artis D.Commensal bacteria calibrate the activation threshold of innate antiviral immunity. Immunity. 2012 Jul 27;37(1):158-70

Kao C, Oestreich KJ, Paley MA, Crawford A, Angelosanto JM, Ali MA, Intlekofer AM, Boss JM, Reiner SL, Weinmann AS, Wherry EJ. Transcription factor T-bet represses expression of the inhibitory receptor PD-1 and sustains virus-specific CD8+ T cell responses during chronic infection. Nat Immunol. 2011 May 29;12(7):663-71

Banerjee A, Gordon SM, Intlekofer AM, Paley MA, Mooney EC, Lindsten T, Wherry EJ, Reiner SL. Cutting edge: The transcription factor eomesodermin enables CD8+ T cells to compete for the memory cell niche. J Immunol. 2010 Nov 1;185(9):4988-92.

Paley MA, Wherry EJ. TCF-1 flips the switch on Eomes. Immunity. 2010 Aug 27;33(2):145-7.

Tsai V, Parker WE, Orlova KA, Baybis M, Chi AW, Berg BD, Birnbaum JF, Estevez J, Okochi K, Sarnat HB, Flores-Sarnat L, Aronica E, Crino PB. Fetal Brain mTOR Signaling Activation in Tuberous Sclerosis Complex. Cereb Cortex. 2012 Oct 18.

Hardesty DA, Sanborn MR, Parker WE, Storm PB. Perioperative seizure incidence and risk factors in 223 pediatric brain tumor patients without prior seizures. J Neurosurg Pediatr. 2011 Jun;7(6):609-15.

Parker WE, Orlova KA, Heuer GG, Baybis M, Aronica E, Frost M, Wong M, Crino PB. Enhanced epidermal growth factor, hepatocyte growth factor, and vascular endothelial growth factor expression in tuberous sclerosis complex. Am J Pathol. 2011 Jan;178(1):296-305.

Orlova KA, Parker WE, Heuer GG, Tsai V, Yoon J, Baybis M, Fenning RS, Strauss K, Crino PB. STRADalpha deficiency results in aberrant mTORC1 signaling during corticogenesis in humans and mice. J Clin Invest. 2010 May;120(5):1591-602.

Parker ZF, Iyer SS,Wilen CB, Parrish NF, Chikere KC, Lee FH, Didigu CA, Berro R, Klasse PJ, Lee B, Moore JP, Shaw GM, Hahn BH, Doms RW. Transmitted/Founder and Chronic HIV-1 Envelope Proteins Are Distinguished by Differential Utilization of CCR5. J Virol. 2013 Mar;87(5):2401-11.

Pandrea I, Parrish NF, Raehtz K, Gaufin T, Barbian HJ, Ma D, Kristoff J, Gautam R, Zhong F, Haret-Richter GS, Trichel A, Shaw GM, Hahn BH, Apetrei C. Mucosal simian immunodeficiency virus transmission in African green monkeys: susceptibility to infection is proportional to target cell availability at mucosal sites. J Virol. 2012 Apr;86(8):4158-68.

Parrish NF, Wilen CB, Banks LB, Iyer SS, Pfaff JM, Salazar-Gonzalez JF, Salazar MG, Decker JM, Parrish EH, Berg A, Hopper J, Hora B, Kumar A, Mahlokozera T, Yuan S, Coleman C, Vermeulen M, Ding H, Ochsenbauer C, Tilton JC, Permar SR, Kappes JC, Betts MR, Busch MP, Gao F, Montefiori D, Haynes BF, Shaw GM, Hahn BH, Doms RW. Transmitted/founder and chronic subtype C HIV-1 use CD4 and CCR5 receptors with equal efficiency and are not inhibited by blocking the integrin α4β7. PLoS Pathog. 2012;8(5):e1002686.

Choo AM, Geddes-Klein DM, Hockenberry A, Scarsella D, Mesfin MN, Singh P, Patel TP, Meaney DF.  NR2A and NR2B subunits differentially mediate MAP kinase signaling and mitochondrial morphology following excitotoxic insult. Neurochem Int. 2012 Apr;60(5):506-16.

Singh P, Doshi S, Spaethling JM, Hockenberry AJ, Patel TP, Geddes-Klein DM, Lynch DR, Meaney DF. N-methyl-D-aspartate receptor mechanosensitivity is governed by C terminus of NR2B subunit. J Biol Chem. 2012 Feb 3;287(6):4348-59.

Patel TP, Ventre SC, Meaney DF. Dynamic changes in neural circuit topology following mild mechanical injury in vitro.Ann Biomed Eng. 2012 Jan;40(1):23-36.

Volpicelli-Daley LA, Luk KC, Patel TP, Tanik SA, Riddle DM, Stieber A, Meaney DF, Trojanowski JQ, Lee VM. Exogenous α-synuclein fibrils induce Lewy body pathology leading to synaptic dysfunction and neuron death. Neuron. 2011 Oct 6;72(1):57-71.

Liu Z, Yang M, Peterfreund GL, Tsou AM, Selamoglu N, Daldal F, Zhong Z, Kan B, Zhu J. Vibrio cholerae anaerobic induction of virulence gene expression is controlled by thiol-based switches of virulence regulator AphB. Proc Natl Acad Sci U S A. 2011 Jan 11;108(2):810-5

Higa M, Petersen JE, Hooper J, Doms RW. Efficient Production of Hantaan and Puumala Pseudotypes for Viral Tropism and Neutralization Studies. Virology. 2012 Feb 20;423(2):134-42.

Wilen CB, Parrish NF, Pfaff JM, Decker JM, Henning EA, Haim H,Petersen JE, Wojcechowskyj JA, Sodroski J, Haynes BF, Montefiori DC, Tilton JC, Shaw GM, Hahn BH, Doms RW.  Phenotypic and Immunologic Comparison of Clade B Transmitted/Founder and Chronic HIV-1 Envelope Glycoproteins.  J Virol. 2011 Sep;85(17):8514-27.

Okeoma CM, Petersen J, Ross SR. Expression of Murine APOBEC3 Alleles in Different Mouse Strains and Their Effect on Mouse Mammary Tumor Virus Infection.  J Virol. 2009 Apr;83(7):3029-38.

Pilkinton DT, Hiraki T, Detre JA, Greenberg JH, and Reddy R. Absolute Cerebral Blood Flow Quantification with Pulsed Arterial Spin Labeling During Hyperoxia Corrected with the Simultaneous Measurement of the Longitudinal Relaxation Time of Arterial Blood.  Magn Reson Med. 2012 Jun;67(6):1556-65.

Pilkinton DT, Gaddam SR, and Reddy R. Characterization of Paramagnetic Effects of Molecular Oxygen on Blood Oxygenation Level-Dependent-Modulated Hyperoxic Contrast Studies of the Human Brain. Mag. Reson. Med. 2011. Sept;66 (3):794-801.

Pilkinton DT and Reddy R. Dependence of Cerebral Blood Flow and Oxygen Consumption on Hyperoxia-Induced Changes in the Longitudinal Relaxation Time. Proceedings of the International Society of Magnetic Resonance in Medicine, 2011.                  

Pilkinton DT, Hiraki T, Detre JA, Greenberg JH, and Reddy R. Absolute Cerebral Blood Flow Quantification with Arterial Spin Labeling During Hyperoxia Corrected with the Simultaneous Measurement of the Longitudinal Relaxation Time of Arterial Blood. Proceedings of the International Society of Magnetic Resonance in Medicine, 2011.

Pilkinton DT, Gaddam SR, and Reddy R.  Characterization of Paramagnetic Effects of Molecular Oxygen on Blood Oxygenation Level-Dependent-Modulated Hyperoxic Contrast Studies of the Human Brain. Proc. Intl. Mag. Reson. Med., 2011.

Pilkinton DT, Gaddam S, Elliott MA, and Reddy R. Negative Contrast Enhancement in T2*-weighted Images of the Human Brain During Hyperoxia. Proceedings of the International Society of Magnetic Resonance in Medicine, 2010.

Pilkinton DT, Gaddam S, Elliott MA, and Reddy R. Negative Contrast Measurement of Cerebral Blood Flow and Cerebral Blood Volume in Humans Using Washout of Hyperoxic Contrast.  Proceedings of the International Society of Magnetic Resonance in Medicine, 2010.

Pilkinton DT, Gaddam S, Elliott MA, and Reddy R. Negative Contrast High Resolution Cerebral Blood Volume Mapping in Humans at 7T with Hyperoxic Contrast.  Proceedings of the International Society of Magnetic Resonance in Medicine, 2010.

Pilkinton DT, Connick TJ, Magland JF, and Reddy R. Sodium MRI Multi-Echo Sequence for Simultaneous Ultra-Short Echo Imaging and T2L* Mapping at 7T with a 12 Channel Phased-Array Coil.  Proceedings of the International Society of Magnetic Resonance in Medicine, 2010.

Mellon EA, Pilkinton DT, Clark CM, Elliott MA, Witschey WR 2nd, Borthakur A, Reddy R. Sodium MR imaging detection of mild Alzheimer disease: preliminary study. AJNR Am J Neuroradiol. 2009 May;30(5):978-84.

Wise DR, Ward PS, Shay JE, Cross JR, Gruber JJ, Sachdeva UM, Platt JM, DeMatteo RG, Simon MC, Thompson CB. Hypoxia promotes isocitrate dehydrogenase-dependent carboxylation of α-ketoglutarate to citrate to support cell growth and viability. PNAS 2011 Dec 6;108(49).

Langham M, Englund E, Mohler E, Li C, Rodgers Z, Floyd T, and Wehrli FW. Integrated MRI Evaluation of Age- and Peripheral Artery Disease-related Vascular Functional Deficits. J Cardiov Magn Reson 2013, 15(17).

Finnberg NK, Hart LS, Dolloff NG, Rodgers ZB, Dicker DT, El-Deiry WS. High-resolution Imaging and Antitumor Effects of GFP(+) Bone Marrow-Derived Cells Homing to Syngeneic Mouse Colon Tumors.  Am J Pathol. 2011 Nov;179(5):2169-76.

Hasson D*, Panchenko T*, Salimian KJ*, Salman MU, Sekulic N, Alonso A, Warburton PE, Black BE: The octamer is the major form of CENP-A nucleosomes at human centromeres. Nature Structural and Molecular Biology. 2013; 20(6): 687-695. (*These authors contributed equally and are listed in alphabetical order)

Salimian KJ, Ballister ER, Smoak EM, Wood S, Panchenko T, Lampson MA, Black BE. Feedback control in sensing chromosome biorientation by the aurora B kinase. Curr Biol. 2011 Jul 12;21(13):1158-65

Bassett EA, Wood S, Salimian KJ, Ajith S, Foltz DR, Black BE. Epigenetic centromere specification directs aurora B accumulation but is insufficient to efficiently correct mitotic errors. J Cell Biol. 2010 Jul 26;190(2):177-85.

2011, Sandesara, Utpal and Wooten, Thomas. No One Had a Tongue to Speak: The Untold Story of One of History’s Deadliest Floods. Amherst (NY): Prometheus Books.

Kirino Y, Vourekas A, Sayed N, de Lima Alves F, Thomson T, Lasko P, Rappsilber J, Jongens TA, Mourelatos Z. Arginine methylation of Aubergine mediates Tudor binding and germ plasm localization. RNA. 2010 Jan;16(1):70-8.

Schoppy DW, Brown EJ. Chk'ing p53-deficient breast cancers. J Clin Invest. 2012 Apr 2;122(4):1202-5

Schoppy DW, Ragland RL, Gilad O, Shastri N, Peters AA, Murga M, Fernandez-Capetillo O, Diehl JA, Brown EJ. Oncogenic stress sensitizes murine cancers to hypomorphic suppression of ATR. J Clin Invest. 2012 Jan 3;122(1):241-52.

Gilad O, Nabet BY, Ragland RL, Schoppy DW, Smith KD, Durham AC, Brown EJ. Combining ATR suppression with oncogenic Ras synergistically increases genomic instability, causing synthetic lethality or tumorigenesis in a dosage-dependent manner. Cancer Res. 2010 Dec 1;70(23):9693-702

Schoppy DW, Ruzankina Y, Brown EJ. Removing all obstacles: A critical role for p53 in promoting tissue renewal. Cell Cycle. 2010 Apr 1;9(7):1313-9.

Ruzankina Y*, Schoppy DW*, Asare A, Clark CE, Vonderheide RH, Brown EJ. Tissue regenerative delays and synthetic lethality in adult mice after combined deletion of Atr and Trp53. Nat Genet. 2009 Oct;41(10):1144-9.

Guo L, Jamiolkowski R, Li Y, Shaffer S, Naji A.  Islet Cell Transplantation in Type I Diabetes.  Yale Journal of Biology and Medicine.  2012 Mar; 85(1): 37-43.

Wise DR, Ward PS, Shay JE, Cross JR, Gruber JJ, Sachdeva UM, Platt JM, DeMatteo RG, Simon MC, Thompson CB. Hypoxia promotes IDH2-dependent carboxylation of α ketoglutarate to citrate to support cell growth and viability. Proc. Natl. Acad. Sci. U.S.A. 2011 Dec 6;108(49):19611-6

Singh N*, Gupta M*, Trivedi CM, Singh MK, Li L, Epstein JA. Murine craniofacial development requires Hdac3-mediated repression of Msx gene expression. Developmental Biol. 2013 May;377(2):333–44.

Singh N, Trivedi CM, Lu M, Mullican SE, Lazar MA, Epstein JA. Histone deacetylase 3 regulates smooth muscle differentiation in neural crest cells and development of the cardiac outflow tract. Circ Res. 2011 Nov 11;109(11):1240-9

Sun Z, Singh N, Mullican SE, Everett LJ, Li L, Yuan L, Liu X, Epstein JA, Lazar MA. Diet-induced lethality due to deletion of the Hdac3 gene in heart and skeletal muscle. Journal of biological chemistry, 2011 Sep 23;286(38):33301-9

Hall JA, Grainger JR, Spencer SP, Belkaid Y.  The role of retinoic Acid in tolerance and immunity. Immunity. 2011 Jul 22;35(1):13-22.

Saenz SA, Siracusa MC, Perrigoue JG, Spencer SP, Urban JF Jr, Tocker JE, Budelsky AL, Kleinschek MA, Kastelein RA, Kambayashi T, Bhandoola A, Artis D.  IL25 elicits a multipotent progenitor cell population that promotes T(H)2 cytokine responses. Nature. 2010 Apr 29;464(7293):1362-6.

Stern AM, Hay AJ, Liu Z, Desland FA, Zhang J, Zhong Z, and Zhu J. The NorR regulon is critical for Vibrio cholerae resistance to nitric oxide and sustained colonization of the intestines. MBio. 2012 Apr 17;3(2):e00013-12

Stern AM, Hsiao A, and Zhu J. (2011) Negative regulation during bacterial infection. In Vasil M and Darwin A (Ed.), Regulation of Bacterial Virulence. American Society for Microbiology Press: Washington, DC. Book chapter (In press)

Xu X*, Stern AM*, Liu Z, Kan B, and Zhu J. Virulence regulator AphB enhances toxR transcription in Vibrio cholerae. BMC Microbiol. 2010 Jan 6;10:3.

Mei Y, Stonestrom A, Hou YM, Yang X. Apoptotic regulation and tRNA. Protein Cell. 2010 Sep;1(9):795-801. Review.

Mei Y, Yong J, Stonestrom A, Yang X. tRNA and cytochrome c in cell death and beyond. Cell Cycle. 2010 Aug 1;9(15):2936-9. Review.

Steger DJ, Lefterova MI, Ying L, Stonestrom AJ, Schupp M, Zhuo D, Vakoc AL, Kim JE, Chen J, Lazar MA, Blobel GA, Vakoc CR. DOT1L/KMT4 recruitment and H3K79 methylation are ubiquitously coupled with gene transcription in mammalian cells.  Mol Cell Biol. 2008 Apr;28(8):2825-39.

Ai D, Baez JM, Jiang H, Conlon DM, Hernandez-Ono A, Frank-Kamenetsky M, Milstein S, Fitzgerald K, Murphy AJ, Woo WH, Strong A, Ginsberg HN, Tabas I, Rader DJ, Tall AR. Activation of ER stress and mTORC1 suppresses hepatic sortilin-1 levels in obese mice. J Clin Invest. 2012 May 1;122(5):1677-87

Strong A, Rader DJ. Clinical Implications of Lipid Genetics for Cardiovascular Disease. Curr Cardiovasc Risk Rep. 2010 Oct;4(6):461-468.

Musunuru K, Strong A, Frank-Kamenetsky M, Lee NE, Ahfeldt T, Sachs KV, Li X, Li H, Kuperwasser N, Ruda VM, Pirruccello JP, Muchmore B, Prokunina-Olsson L, Hall JL, Schadt EE, Morales CR, Lund-Katz S, Phillips MC, Wong J, Cantley W, Racie T, Ejebe KG, Orho-Melander M, Melander O, Koteliansky V, Fitzgerald K, Krauss RM, Cowan CA, Kathiresan S, Rader DJ. From noncoding variant to phenotype via SORT1 at the 1p13 cholesterol locus.Nature. 2010 Aug 5;466(7307):714-9.

Khandros E, Thom CS, D’Souza J, Weiss MJ. Integrated protein quality-control pathways regulate free α-globin in murine β-thalassemia. Blood. 2012 May 31;119(22):5265-75

Finley LW, Zhang J, Ye J, Ward PS, Thompson CB. Snapshot: cancer metabolism pathways. Cell Metab. 2013 Mar 5;17(3):466-466.e2.

Ward PS, Lu C, Cross JR, Abdel-Wahab O, Levine RL, Schwartz GK, Thompson CB.The potential for isocitrate dehydrogenase mutations to produce 2-hydroxyglutarate depends on allele specificity and subcellular compartmentalization. J Biol Chem. 2013 Feb 8;288(6):3804-15.

Ward PS, and Thompson CB. Signaling in control of cell growth and metabolism. Cold Spring Harb Perspect Biol. 2012 Jul 1;4(7):a006783.

Ward PS, Cross JR, Lu C, Weigert O, Abel-Wahab O, Levine RL, Weinstock DM, Sharp KA, Thompson CB..** Identification of additional IDH mutations associated with oncometabolite R(-)-2-hydroxyglutarate production.  Oncogene. 2012 May 10;31(19):2491-8

Ye J, Mancuso A, Tong X, Ward PS, Fan J, Rabinowitz JD, Thompson CB.** Pyruvate kinase M2 promotes de novo serine synthesis to sustain mTORC1 activity and cell proliferation.  Proc Natl Acad Sci U S A. 2012 May 1;109(18):6904-9.

Ward PS, Thompson CB.** Metabolic reprogramming: a cancer hallmark even Warburg did not anticipate. Cancer Cell. 2012 Mar 20;21(3):297-308.

Turcan S*, Rohle D*, Goenka A*, Walsh LA, Fang F, Yilmaz E, Campos C, Fabius AWM, Lu C, Ward PS, Thompson CB, Kaufman A, Guryanova O, Levine R, Heguy A, Viale A, Morris LGT, Huse JT, Mellinghoff, IK, Chan TA.** IDH1 mutation is sufficient to establish the glioma hypermethylator phenotype. Nature. 2012 Feb 15;483(7390):479-83

Lu C, Ward PS, Kapoor GS, Rohle D, Turcan S, Abdel-Wahab O, Edwards CR, Khanin R, Figueroa ME, Melnick A, Wellen KE, O'Rourke DM, Berger SL, Chan TA, Levine RL, Mellinghoff IK, Thompson CB. (2012). IDH mutation impairs histone demethylation and results in a block to cell differentiation.  Nature. 2012 Feb 15;483(7390):474-8.

Wise DR*, Ward PS*, Shay JE, Cross JR, Gruber JJ, Sachdeva UM, Platt JM, DeMatteo RG, Simon MC, Thompson CB. Hypoxia promotes isocitrate dehydrogenase-dependent carboxylation of α‑ketoglutarate to citrate to support cell growth and viability. Proc Natl Acad Sci U S A. 2011 Dec 6;108(49):19611-6.

Figueroa ME, Abdel-Wahab O, Lu C, Ward PS, Patel J, Shih A, Li Y, Bhagwat N, Vasanthakumar A, Fernandez HF, Tallman MS, Sun Z, Wolniak K, Peeters JK, Liu W, Choe SE, Fantin VR, Paietta E, Löwenberg B, Licht JD, Godley LA, Delwel R, Valk PJ, Thompson CB, Levine RL, Melnick A.Leukemic IDH1 and IDH2 mutations results in a hypermethylation phenotype, disrupt TET2 function, and impair hematopoietic differentiation.  Cancer Cell. 2010 Dec 14;18(6):553-67.

Ward PS, Patel J, Wise DR, Abdel-Wahab O, Bennett BD, Coller HA, Cross JR, Fantin VR, Hedvat CV, Perl AE, Rabinowitz JD, Carroll M, Su SM, Sharp KA, Levine RL, Thompson CB.** The common feature of leukemia-associated IDH1 and IDH2 mutations is a neomorphic enzyme activity converting alpha-ketoglutarate to 2-hydroxyglutarate.  Cancer Cell. 2010 Mar 16;17(3):225-34.

Dang L, White DW, Gross S, Bennett BD, Bittinger MA, Driggers EM, Fantin VR, Jang HG, Jin S, Keenan MC, Marks KM, Prins RM, Ward PS, Yen KE, Liau LM, Rabinowitz JD, Cantley LC, Thompson CB, Vander Heiden MG, Su SM.** Cancer-associated IDH1 mutations produce 2-hydroxyglutarate. Nature. 2009 Dec 10;462(7274):739-44.

Weber BN, Chi AWS, Chavez A, Ohtani-Yashiro Y, Yang Q, Shestova O. A critical role for TCF-1 in T-lineage specification and differentiation. Nature. 2011 Aug 3;476(7358):63-8

Chi AW, Chavez A, Xu L, Weber BN, Shestova O, Schaffer A, Wertheim G, Pear WS, Izon D, Bhandoola A. Identification of Flt3+CD150– myeloid progenitors in adult mouse bone marrow that harbor T lymphoid developmental potential. Blood 2011 Sep 8;118(10):2723-32

Mallory MJ, Jackson J, Weber B, Chi A, Heyd F, Lynch KW. Signal- and Development-Dependent Alternative Splicing of LEF1 in T Cells Is Controlled by CELF2. Mol Cell Biol. 2011, 31 (11) 2184-95.

Parker ZF, Iyer SS,Wilen CB, Parrish NF, Chikere KC, Lee FH, Didigu CA, Berro R, Klasse PJ, Lee B, Moore JP, Shaw GM, Hahn BH, Doms RW. Transmitted/Founder and Chronic HIV-1 Envelope Proteins Are Distinguished by Differential Utilization of CCR5. J Virol. 2013 Mar;87(5):2401-11.

Parrish NF, Wilen CB, Banks LB, Iyer SS, Pfaff JM, Salazar-Gonzalez JF, Salazar MG, Decker JM, Parrish EH, Berg A, Hopper J, Hora B, Kumar A, Mahlokozera T, Yuan S, Coleman C, Vermeulen M, Ding H, Ochsenbauer C, Tilton JC, Permar SR, Kappes JC, Betts MR, Busch MP, Gao F, Montefiori D, Haynes BF, Shaw GM, Hahn BH, Doms RW. Transmitted/founder and chronic subtype C HIV-1 use CD4 and CCR5 receptors with equal efficiency and are not inhibited by blocking the integrin α4β7. PLoS Pathog. 2012;8(5):e1002686.

Wilen CB, Tilton JC, Doms RW.  HIV binding and entry, in Human Immunodeficiency Virus. FD Bushman, G Nabel, and R Swanstrom, Editors. 2012, Cold Spring Harbor: Cold Spring Laboratory Press:  Cold Spring Harbor, NY.

Wilen CB, Tilton JC, and Doms RW.  Molecular mechanisms of HIV entry, in Viral Molecular Machines, M. Rossman and V. Rao, Editors. 2012, Springer-Verlag: New York, NY.

Jiang C*, Parrish N*, Wilen CB*, Li H*, Chen Y, Pavlicek JW, Berg A, Tomaras G, Tilton JC, Decker JM, Haynes BF, Shaw GM, Doms RW, Hahn BH, Gao F. Primary infection by a human immunodeficiency virus with atypical coreceptor tropism. J Virol. 2011 Oct;85(20):10669-81.

Wilen CB*, Parrish N*, Pfaff JM, Decker JM, Henning EA, Haynes BF, Tilton JC, Shaw GM, Hahn BH, Doms RW. Phenotypic comparison of clade B transmitted/founder and chronic HIV-1 J Virol. 2011 Sep;85(17):8514-27

Wilen CB, Wang J, Tilton JC, Miller JC, Kim KA, Rebar EJ, Sherrill-Mix SA, Patro SC, Secreto AJ, Jordan APO, Lee G, Kahn J, Aye PP, Bunnell BA, Lackner AA, Hoxie JA, Danet-Desnoyers GA, Bushman FD, Riley JL, Gregory PD, June CH, Holmes MC, Doms RW. Engineering HIV-resistant human CD4+ T cells with CXCR4-specific zinc finger nucleases. PLoS Pathog. 2011 Apr;7(4):e1002020.

Tilton, JC, Wilen CB, Didigu C, Sinha R, Harrison J, Agrawal-Gamse C, Henning E, Bushman FD, Deeks SD, Doms RW.  A maraviroc-resistant HIV-1 with narrow cross-resistance to other CCR5 antagonists depends on both N-terminal and extracellular loop domains of drug-bound CCR5. J Virol. 2010 Oct;84(20):10863-76.

Pfaff JM, Wilen CB, Harrison JE, Demarest JF, Lee B, Doms RW, Tilton JC.  HIV-1 resistance to CCR5 antagonists associated with highly efficient use of CCR5 and altered tropism on primary CD4+ T cells. J Virol. 2010 Jul;84(13):6505-14.

Vonderheide RH, Bajor DL, Winograd R, Evans RA, Bayne LJ, Beatty GL. CD40 immunotherapy for pancreatic cancer. Cancer Immunol Immunother. 2013 May; 62(5):949-54.

King CE, Wang L, Winograd R, Madison BB, Mongroo PS, Johnstone CN, Rustgi AK. LIN28B fosters colon cancer migration, invasion and transformation through let-7-dependent and -independent mechanisms. Oncogene, 2011, 30: 4185–4193.

Wolkow N, Song D, Song Y, Hadziahmetovic M, Chu S, Lee JC, Iacovelli J, Grieco S, Dunaief JL. Ferroxidase Hepheastin’s Cell-Autonomous Role in the Retinal Pigment Epithelium. Am J Pathol. 2012 Apr;180(4):1614-24

Wolkow N
, Song Y, Wu T, Qian J, Guerquin-Kern J, Dunaief JL. Aceruloplasminemia: Retinal Histopathologic Manifestations and Iron-mediated Melanosome Degradation. Arch Ophthalmol. 2011 Nov;129(11):1466-74.

Leed MGD, Wolkow N, Pham DM, Daniel CL, Dunaief JL, Franz KJ. Prochelators Triggered by Hydrogen Peroxide Provide Hexadentate Iron Coordination to Impede Oxidative Stress. J Inorg Biochem. 2011 Sept; 105 (9): 1161-1172. 

Hadziahmetovic M, Song Y, Wolkow N, Iacovelli J,  Kautz L, Roth MP, Dunaief JL. Bmp6 regulates retinal iron homeostasis and has altered expression in age-related macular degeneration. Am J Pathol. 2011 Jul;179(1):335-48.

Iacovelli J, Zhao C, Wolkow N, Veldman P, Gollomp K, Ojha P, Lukinova N, King A, Feiner L, Esumi N, Zack DJ, Pierce EA, Vollrath D, Dunaief JL. Generation of cre transgenic mice with postnatal RPE-specific ocular expression. Invest Ophthalmol Vis Sci. 2011 Mar 14;52(3):1378-83.

Hadziahmetovic M, Song Y, Wolkow N, Grieco S, Iacovelli J, Lee J, Lyubarsky A, Pratico D, Connelly J, Spino M, Harris ZL, Dunaief JL. Oral iron chelator deferiprone protects against iron overload induced retinal degeneration. Invest Ophthalmol Vis Sci. 2011 Feb 16;52(2):959-68.

Lukinova N, Iacovelli J, Dentchev T, Wolkow N, Hunter A, Amado D, Ying GS, Sparrow JR, Dunaief JL. Iron chelation protects the retinal pigment epithelial cell line ARPE-19 against cell death triggered by diverse stimuli. Invest Ophthalmol Vis Sci. 2009 Mar;50(3):1440-7

Charkoudian LK, Dentchev T, Lukinova N, Wolkow N, Dunaief JL, Franz KJ.  Iron prochelator BSIH protects retinal pigment epithelial cells against cell death induced by hydrogen peroxide. J Inorg Biochem. 2008 Dec; 102(12): 2130-5.

Majmundar AJ, Wong WJ, Simon MC. Hypoxia-inducible factors and the response to hypoxic stress. Mol Cell. 2010 Oct 22;40(2):294-309. Review.

Wong WJ, Simon MC. The role of MXI1 in VHL deficient tumorigenesis. Cancer Biol Ther. 2008 Oct;7(10):1628-9.

Nakamoto M, Moy RH, Xu J, Bambina S, Yasunaga A, Shelly SS, Gold B, Cherry S. Virus Recognition by Toll-7 Activates Antiviral Autophagy in Drosophila. Immunity. 2012 Apr 20;36(4):658-67

Zong Y, Panikkar A, Xu J, Antoniou A, Raynaud P, Lemaigre F, Stanger BZ. Notch signaling controls liver development by regulating biliary differentiation. Development. 2009 May;136(10):1727-39.

Zheng R and Blobel GA. GATA Transcription Factors and Cancer. Genes and Cancer 2010. (12): 1178-88. Review

Corbo-Rodgers E, Staub E, Zou T, Smith A, Kambayashi T, Maltzman J. Oral ivermectin as an unexpected initiator of CreT2-mediated deletion in T cells, Nat Immunol. 2012 Feb 16;13(3):197-8. doi: 10.1038/ni.2232.

Zou T, Satake A, Ojha P, Kambayashi, T. Cellular therapies supplement: the role of granulocyte macrophage colony-stimulating factor and dendritic cells in regulatory T-cell homeostasis and expansion, Transfusion. 2011 Nov;51 Suppl 4:160S-168S.

Gordon S, Carty S, Kim J, Zou T, Smith-Garvin J, Alonzo E, Haimm E, Sant'Angelo D, Koretzky G, Reiner S, Jordan M. Requirements for eomesodermin and promyelocytic leukemia zinc finger in the development of innate-like CD8+ T cells, J Immunol. 2011 Apr 15;186(8):4573-8

Riese M, Grewal J, Das J, Zou T, Patil V, Chakraborty A, Koretzky G.  Decreased diacylglycerol metabolism enhances ERK activation and augments CD8+ T cell functional responses J Biol Chem. 2011 Feb 18;286(7):5254-65

Zou T, May R, Koretzky G. Understanding signal integration through targeted mutations of an adapter protein. FEBS Lett. 2010 Dec 15;584(24):4901-9. Review.

Smith-Garvin J, Burns J, Gohil M, Zou T, Kim J, Maltzman J, Wherry E, Koretzky G, and Jordan MS. T-cell receptor signals direct the composition and function of the memory CD8+ T-cell pool. Blood. 2010 Dec 16;116(25):5548-59.

Zou T
, Caton A, Koretzky G, and Kambayashi T.  Dendritic cells induce regulatory T cell proliferation through antigen-dependent and -independent interactions, J Immunol. 2010 Sep 1;185(5):2790-9.

Thiel A, Blessington P, Zou T, Feather D, Wu X, Yan J, Zhang H, Liu Z, Ernst P, Koretzky G, and Hua X. MLL-AF9-induced leukemogenesis requires coexpression of the wild-type Mll allele. Cancer Cell. 2010 Feb 17;17(2):148-59.

Kambayashi T, Allenspach E, Chang J, Zou T, Shoag J, Reiner S, Caton A, Koretzky G. Inducible MHC class II expression by mast cells supports effector and regulatory T cell activation. J Immunol. 2009 Apr 15;182(8):4686-95.

Blackburn S, Shin H, Haining W, Zou T, Workman C, Polley A, Betts M, Freeman G, Vignali D, and Wherry E. Coregulation of CD8+ T cell exhaustion by multiple inhibitory receptors during chronic viral infection. Nat Immunol. 2009 Jan;10(1):29-37.

Kambayashi T, Baranski J, Baker R, Zou T, Allenspach E, Shoag J, Jones P, Koretzky G. Indirect involvement of allergen-captured mast cells in antigen presentation. Blood. 2008 Feb 1;111(3):1489-96.