PUBLICATIONS

2019

Fuemmeler, BF, Zucker N, Sheng Y, Sanchez CE, Maguire R, Murphy SK, Kollins SH, Hoyo C. 2019. Pre-pregnancy weight and symptoms of attention deficit hyperactivity disorder and executive functioning behaviors in preschool children. International Journal of Environmental Research and Public Health (accepted).

Martin CL, Jima D, Sharp GC, McCullough LE, Park SS, Gowdy KM, Skaar D, Cowley M, Maguire RL, Fuemmeler B, Collier D, Relton CL Murphy SK, Hoyo C. 2019. Maternal pre-pregnancy obesity, offspring cord blood DNA methylationm and offspring cardiometabolic health in early childhood: An epigenome-wide association study. Epigenetics (in press). 

Schechter J, Do EK, Zhang JJ, Hoyo C, Murphy SK, Kollins SH, Fuemmeler B. 2019. Effect of prenatal smoke exposure on birth weight: The moderating role of maternal depressive symptoms. Nicotine and Tobacco Research (in press). PMID: 30590728

Tagliafierro L, Ilich E, Moncalvo M, Gu J,  Sriskanda A, Grenier C, Murphy SK, Chiba-Falek O and B Kantor. 2019. Lentiviral vector platform for the efficient delivery of epigenome-editing tools into human induced pluripotent stem cell-derived disease models. Journal of Visualized Experiments (in press). 

2018

Murphy SK, Itchon-Ramos N, Visco Z, Huang Z, Grenier C, Schrott R, Acharya K, Boudreau M-H, Price TM, Raburn D, Corcoran D, Lucas JE, Mitchell JT, McClernon FJ, Cauley M, Hall BJ, Levin ED and SH Kollins. 2018. Cannabinoid exposure and altered DNA methylation in human and rat sperm. Epigenetics (in press). PMID: 30521419 

Reese SE, Xu CJ, den Dekker HT, Lee MK, Sikdar S, Ruiz-Arenas C, Merid SK, Rezwan FI, Page CM, Ullemar V, Melton PE, Oh SS, Yang IV, Burrows K, Söderhäll C, Jima DD, Gao L, Arathimos R, Küpers LK, Wielscher M, Rzehak P, Lahti J, Laprise C, Madore AM, Ward J, Bennett BD, Wang T, Bell DA; BIOS Consortium, Vonk JM, Håberg SE, Zhao S, Karlsson R, Hollams E, Hu D, Richards AJ, Bergström A, Sharp GC, Felix JF, Bustamante M, Gruzieva O, Maguire RL, Gilliland F, Baïz N, Nohr EA, Corpeleijn E, Sebert S, Karmaus W, Grote V, Kajantie E, Magnus MC, Örtqvist AK, Eng C, Liu AH, Kull I, Jaddoe VWV, Sunyer J, Kere J, Hoyo C, Annesi-Maesano I, Arshad SH, Koletzko B, Brunekreef B, Binder EB, Räikkönen K, Reischl E, Holloway JW, Jarvelin MR, Snieder H, Kazmi N, Breton CV, Murphy SK, Pershagen G, Anto JM, Relton CL, Schwartz DA, Burchard EG, Huang RC, Nystad W, Almqvist C, Henderson AJ, Melén E, Duijts L, Koppelman GH, London SJ. 2018. Epigenome-wide meta-analysis of DNA methylation and childhood asthma. Journal of Allergy and Clinical Immunology (in press). PMID: 30579849

Wegermann K, Henao R, Diehl AM, Murphy SK, Abdelmalek M and C Moylan. 2018. Branched Chain Amino Acid Transaminase 1 (BCAT1) is overexpressed and hypomethylated in patients with non-alcoholic fatty liver disease who experience adverse clinical events: A pilot study. PLoS One 13:e0204308. PMID: 30265706

Kantor B, Tagliafierro L, Gu J, Zamora Me, Ilich E, Grenier C, Huang ZY, Murphy S and O Chiba-Falek. 2018. Downregulation of SNCA I expression by targeted editing of DNA-Methylation: A potential strategy for precision therapy in PD. Molecular Therapeutics (in press).

House JS, Mendez M, Maguire RL, Gonzalez-Nahm S, Huang Z, Daniels J, Murphy SK, Fuemmeler BF, Wright FA and C Hoyo. 2018. Periconceptional maternal mediterranean diet is associated with favorable offspring behaviors and altered CpG methylation of imprinted genes. Frontiers in Cell and Developmental Biology; Epigenomics and Epigenetics 6:107. PMID: 30246009

Sorrow P, Maguire R, Murphy SK, Belcher SM and C Hoyo. 2019. Elevated metabolites of acetomenophin in cord blood of obese children. Pediatric Obesity 14:e12465. PMID: 30253079

Do EK, Zucker NL, Huang Z, Carnell S, Schechter J, Jirtle RL, Kollins SH, Murphy SK, Hoyo C and BF Fuemmeler. 2018. Associations between Imprinted Gene Differentially Methylated Regions, Appetitive Traits, and Body Mass Index in Children. Pediatric Obesity (accepted). PMID: 30231188

Green A, Hoyo C, Mattingly C, Luo Y, Tzeng J-Y, Murphy S, Buchwalter S and A Planchart. 2018. Cadmium Exposure Increases the Risk of Juvenile Obesity: A Human and Zebrafish Comparative Study. International Journal of Obesity 42:1285-1295. PMID: 29511319

Gomih A, Smith JS, North KE, Hudgens MG, Brewster WR, Huang Z, Skaar D, Valea F, Bentley RC, Vidal AC, Maguire RL, Jirtle RL, Murphy SK, Hoyo C. 2018. DNA methylation of imprinted gene control regions in the regression of low-grade cervical lesions. International Journal of Cancer 143:552-560. PMID: 29490428

Gao L, Liu X, Millstein J, Siegmund KD, Dubeau L, Maguire RL, Jim Zhang J, Fuemmeler BF, Kollins SH, Hoyo C, Murphy SK, Breton CV. 2018. Self-reported prenatal tobacco smoke exposure, AXL gene-body methylation, and childhood asthma phenotypes. Clinical Epigenetics 10:98. PMID: 30029617

Tindula G, Murphy SK, Grenier C, Huang Z, Huen K, Escudero-Fung M, Bradman A, Eskenazi B, Hoyo C, Holland N. 2018. DNA methylation of imprinted genes in Mexican-American newborn children with prenatal phthalate exposure. Epigenomics 10:1011-1026. PMID: 29957030

Green AJ, Hoyo C, Mattingly CJ, Luo Y, Tzeng JY, Murphy SK, Buchwalter DB, Planchart A. 2018. Cadmium exposure increases the risk of juvenile obesity: a human and zebrafish comparative study. International Journal of Obesity 42:1285-1295. PMID: 29511319

Gonzalez-Nahm S, Mendez MA, Benjamin-Neelon SE, Murphy SK, Hogan VK, Rowley DL, Hoyo C. 2018. DNA methylation of imprinted genes at birth is associated with child weight status at birth, 1 year, and 3 years. Clinical Epigenetics doi: 10.1186/s13148-018-0521-0. eCollection 2018. PMID: 29988473

Dozmorov MG, Bilbo SD, Kollins SH, Zucker N, Do EK, Schechter JC, Zhang JJ, Murphy SK, Hoyo C, Fuemmeler BF. 2018. Associations between maternal cytokine levels during gestation and measures of child cognitive abilities and executive functioning. Brain, Behavior and Immunity 70:390-397. PMID: 29588230

Schrott R, Murphy SK. 2018. Folic acid throughout pregnancy: too much? American Journal of Clinical Nutrition 107:497-498. PMID: 29635510

Benjamin Neelon SE, White AJ, Vidal AC, Schildkraut JM, Murtha AP, Murphy SK, Kullman SW, Hoyo C. 2018. Maternal vitamin D, DNA methylation at imprint regulatory regions and offspring weight at birth, 1 year and 3 years. International Journal of Obesity. 42:587-593. PMID: 28676681

Bradley MS, Burke EE, Grenier C, Amundsen CL, Murphy SK, Siddiqui NY. 2018. A genome-scale DNA methylation study in women with interstitial cystitis/bladder pain syndrome. Neurological Urodynamics 37:1485-1493. PMID: 29363787 

Schechter JC, Fuemmeler BF, Hoyo C, Murphy SK, Zhang JJ, Kollins SH. 2018. Impact of Smoking Ban on Passive Smoke Exposure in Pregnant Non-Smokers in the Southeastern United States. International Journal of Environmental Research and Public Health 15(1). pii: E83. doi: 10.3390/ijerph1501008. PMID: 29316617

2017

Felix, J.F., Joubert, B.R., Baccarelli, A.A., Sharp, G.C., Almqvist, C., Annesi-Maesano, I., Arshad, H., Bakersman-Kranenburg, M.J., Baïz, N., Bakulski, K.M., Binder, E.B., De Boever, P., Bouchard, L., Breton, C.V., Brunekreef, B., Brunst, K.J., Burchard, E.G., Bustamante, M., Chatzi, L., Munthe-Kaas, M.C., Corpeleijn, E., Czamara, D., Dabelea, D., Smith, G.D., Duijts, L., Dwyer, T., Eng, C., Eskenazi, B., Everson, T.M., Falahi, F., Fallin, M.D., Farchi, S., Fernandez, M.F., Gao, L., Gaunt, T.R., Ghantous, A., Gillman, M.W., Gonseth, S., Grote, V., Gruzieva, O., Håberg, S.E., Herceg, Z., Hivert, M., Holland, N., Holloway, J.W., Hoyo, C., Hu, D., Huang, R., Huen, K., Järvelin, M., Jima, D.D., Just, A.C., Karagas, M.R., Karlsson, R., Karamus, W., Kechris, K.J., Kere, J., Kogevinas, M., Koletzko, B., Koppelman, G.H., Küpers, L.K., Ladd-Acosta, C., Lahti, J., Lambrechts, N., Langie, S. AS., Lie, R.T., Liu, A.H., Magnus, M.C., Magnus, P., Maguire, R.L., Marsit, C.J., McArdle, W., Melén, E., Melton, P., Murphy, S.K., Nawrot, T.S., Nisticò, L., Nohr, E.A., Nordlund, B., Nystad, W., Oh, S.S., Oken, E., Page, C.M., Perron, P., Pershagen, G., Pizzi, C., Plusquin, M., Raikkonen, K., Reese, S.E., Reischl, E., Richiardi, L., Ring, S., Roy, R.P., Rzehak, P., Schoeters, G., Schwartz, D.A., Sebert, S., Snieder, H., Sørensen, T. IA., Starling, A.P., Sunyer, J., Taylor, J.A., Tiemeier, H., Ullemar, V., Vafeiadi, M., Van IJzendoorn, M. H.,Vonk, J.M., Vriens, A., Vrijheid, M., Wang, P., Wiemels, J.L., Wilcox, A.J., Wright, R.J., Xu, C., Xu, Z., Yang, I.V., Yousefi, P., Zhang, H., Zhang, W., Zhao, S., Agha, G., Relton, C.L., Jaddoe, V. WV. and S.J. London. 2017. Cohort Profile: Pregnancy and Childhood Epigenetics (PACE) Consortium. International Journal of Epidemiology 47:22-23u. PMID:29025028Bradley MS, Boudreau MH, Grenier C, Huang Z, Murphy SK, Siddiqui NY. 2017. Urine RNA Processing in a Clinical Setting: Comparison of 3 Protocols. Female Pelvic Medicine and Reconstructive Surgery Nov 29. doi: 10.1097/SPV.0000000000000525. [Epub ahead of print] PMID: 29194081

Gao, L., Millstein, J., Siegmund, K.D., Dubeau, L., Maguire, R., Gilliland, F.D., Murphy, S.K., Hoyo, C. and C. Breton. 2017. Epigenetic regulation of AXL and risk of childhood asthma symptoms. Clinical Epigenetics 9:121. doi: 10.1186/s13148-017-0421-8. eCollection 2017..

Sharp, G.C., Salas, L.A., Monnereau, C., Allard, C., Yousefi, P., Everson, T.M., Bohlin, J., Xu, Z., Huang, R., Reese, S.E., Xu, C., Baïz, N., Hoyo, C., Agha, G., Roy, R., Holloway, J.W., Ghantous, A., Merid, S.K., Bakulski, K.M., Küpers, L.K., Zhang, H., Richmond, R.C., Page, C.M., Duijts, L., Lie, R.T., Melton, P.E., Vonk, J.M., Nohr, E.A., Williams-Devane, C., Huen, K., Rifas-Shiman, S.L., Ruiz-Arenas, C., Gonseth, S., Rezwan, F.I., Herceg, Z., Ekström, S., Croen, L., Falahi, F., Perron, P., Karagas, M.R., Quraishi, B.M., Suderman, M., Magnus, M.C., Jaddoe, V. WV., Taylor, J.A., Anderson, D., Zhao, S., Smit, H.A., Josey, M.J., Bradman, A., Baccarelli, A.A., Bustamante, M., Håberg, S.E., Pershagen, G., Hertz-Picciotto, I., Newschaffer, C., Corpeleijn, E., Bouchard, L., Lawlor, D.A., Maguire, R.L., Barcellos, L.F., Smith, G.D., Eskenazi, B., Karmaus, W., Marsit, C.J., Hivert, M., Snieder, H., Fallin, M.D., Melén, E., Munthe-Kaas, M.C., Arshad, H., Wiemels, J.L., Annesi-Maesano, I., Vrijheid, M., Oken, E., Holland, N., Murphy, S.K., Sørenson, T. IA., Koppelman, G.H., Newnham, J.P., Wilcox, A.J., Nystad, W., London, S.J., Felix, J.F. and C.L. Relton. 2017. Maternal BMI at the start of pregnancy and offspring epigenome-wide DNA methylation: findings from the Pregnancy and Childhood Epigenetics (PACE) consortium. Human Molecular Genetics 26:4067-4085. PMID:29016858

Liu, Y., Reynolds, L.M., Ding, J., Hou, L., Lohman, K., Young, T., Cui. W., Huang, Z., Grenier, C., Wan, M., Stunnenberg, H.G., Parks, J.S., Siscovick, D., Hou, L., Psaty, B.M., Rich, S.S., Rotter, J.I., Kaufman, J.D., Burke, G.L., Murphy, S., Jacobs, D.R., Post, W., Hoeschele, I., Bell, D.A., Herrington, D., Tracy, R.P., McCall, C.E. and J.H. Stein. 2017. Transcriptomics and methylomics of atherosclerosis in human blood monocytes – the Multi-Ethnic Study of Atherosclerosis (MESA). Nature Communications (accepted).

McCullough, L.E., Miller, E.E., Calderwood, L.E., Shivappa, N., Steck, S.E., Forman, M.R., Mendez, M., Maguire, R., Fuemmeler, B.F., Kollins, S.H., Bilbo, S., Huang, Z., Murtha, A.P., Murphy, S.K., Hébert, J.R. and C. Hoyo. 2017. Maternal inflammatory diet and adverse pregnancy outcomes: circulating cytokines and genomic imprinting as potential regulators? Epigenetics (accepted). PMID:28678596

Benjamin Neelon, S.E., White, A., Vidal, A., Schildkraut, J., Murtha, A., Murphy, S.K., Kullman, S. and C. Hoyo. 2017. Maternal vitamin D, DNA methylation at imprint regulatory regions, and offspring weight at birth, 1 year, and 3 years. International Journal of Obesity (accepted). PMID:28676681

Cordero, F.J., Huang, Z., Grenier, C., He, X., Hu, G., McLendon, R.E., Murphy, S.K., Hashizume, R. and O.J. Becher. 2017. Histone H3.3K27M represses p16 to accelerate gliomagenesis in a murine model of DIPG. Molecular Cancer Research 15:1243-1254. PMCID:PMC5581686

Gonzalez-Nahm, S., Mendez, M., Robinson, W., Murphy, S.K., Hoyo, C., Hogan, V. and D. Rowley. 2017. Low maternal adherence to a Mediterranean diet is associated with increase in methylation at the MEG3-IG differentially methylated region in female infants. Environmental Epigenetics 3(2):dvx007. https://doi.org/10.1093/eep/dvx007

Luo, Y., McCullough, L., Tzeng, J.-Y., Darrah, T., Vengosh, A., Maguire, R., Maity, A., Hodge, C., Murphy, S., Mendez, M. and C. Hoyo. 2017. Maternal blood cadmium, lead and arsenic levels, nutrient combinations, and offspring birthweight. BMC Public Health 17:354. PMCID:PMC5402649

Soubry, A., Hoyo, C., Butt, C.M., Fieuws, S., Price, T.M., Murphy, S.K. and H. Stapleton. 2017. Human exposure to flame-retardants is associated with aberrant DNA methylation at imprinted genes in sperm. Environmental Epigenetics 3(1):dvx003.  https://doi.org/10.1093/eep/dvx003

Hoffman, K., Butt, C., Webster, T., Preston, E., Hammel, S., Makey, C., Lorenzo, A., Cooper, E., Carignan, C., Meeker, J., Hauser, R., Soubry, A., Murphy, S., Price, T., Hoyo, C., Mendelsohn, E., Congleton, J., Daniels, J. and H. Stapleton. 2017. Temporal Trends in Exposure to Organophosphate Flame Retardants in the United States. Environmental Science & Technology Letters 4:112-118. PMCID: PMC5352975  

Maguire, R.L., Vidal, A.C., Murphy, S.K. and C. Hoyo. 2017. Disparities in cervical cancer incidence and mortality: Can epigenetics contribute to eliminating disparities? Advances in Cancer Research 133:129-156. PMID: 28052819

Breton, C.V., Marsit, C.J., Faustman, E., Nadeau, K., Goodrich, J.M., Dolinoy, D.C., Herbstman, J., Holland, N., LaSalle, J.M., Schmidt, R., Yousefi, P., Perera, F., Joubert, B.R., Wiemels, J., Taylor, M., Yang, I.V., Chen, R., Hew, K.M., Freeland, D.M., Miller, R. and S.K. Murphy. 2017. Small Magnitude Effect Sizes in Epigenetic Endpoints are Important in Children's Environmental Health Studies:  The Children's Environmental Health and Disease Prevention Research Center's Epigenetics Working Group. Environmental Health Perspectives 125:511-526. PMCID: PMC5382002

Mwinyi, J., Boström, A.E., Pisanu, C., Murphy, S.K., Erhart, W., Schafmayer, C., Hampe, J., Moylan, C. and H.B. Schiöth. 2017. NAFLD is associated with methylation shifts with relevance for the expression of genes involved inlipoprotein particle composition. Biochimica et Biophysica Acta – Molecular and Cell Biology of Lipids 1862:314-323. PMID: 27993651

2016

Fuemmeler, B.F., Lee, C.T., Soubry, A., Iversen, E.S., Huang, Z., Murtha, A.P. Schildkraut, J.M., Jirtle, R.L. Murphy, S.K. and C. Hoyo. 2016. DNA methylation of regulatory regions of imprinted genes at birth and its relation to infant temperament. Genetics and Epigenetics 28:59-67. PMCID: PMC5127604

Su, D., Wang, X., Porter, K., Pittman, G., Crowl, C.L., Gimple, R.N., Adamski, K.N., Campbell, M.R., Huang, Z., Murphy, S.K. and D.A. Bell. 2016. Distinct epigenetic effects of tobacco smoking in whole blood and among leukocyte subtypes. PLoS One 11:e0166486. PMCID: PMC5147832

Schiöth, H.B., Boström, A., Murphy, S.K., Erhart, W., Hampe, J., Moylan, C. and J. Mwinyi.  2016. A targeted analysis reveals relevant shifts in the methylation and transcription of genes responsible for bile acid homeostasis and drug metabolism in non-alcoholic fatty liver disease. BMC Genomics 17:462. PMCID: PMC4908840

Yamanoi, K., Matsumura, N., Murphy, S.K., Baba, T., Abiko, K., Hamanishi, J., Yamaguchi, K., Koshiyama, M., Konishi, I. and M. Mandai. 2016. Suppression of ABHD2, identified through a functional genomics screen, causes anoikis resistance, chemoresistance and poor prognosis in ovarian cancer. Oncotarget 7:47620-47636. PMID: 27323405

Soubry, A.S., Guo, L., Huang, Z., Hoyo, C., Romanus, S., Price, T. and S.K. Murphy. 2016. Obesity-related DNA methylation at imprinted genes in human sperm: Results from the TIEGER study. Clinical Epigenetics 8:51.

Fuemmeler, B.F., Wang, L., Iversen, E.S., Maguire, R., Murphy, S.K. and C. Hoyo. 2016. Association between prepregnancy BMI and gestational weight gain with size, tempo and velocity of infant weight gain: Analysis of the Newborn Epigenetic Study (NEST) cohort. Childhood Obesity (in press). PMID: 27135650

Dewi, F.N., Wood, C.E., Willson, C.J., Register, T.C., Lees, C.J., Howard, T.D., Huang, Z., Murphy, S.K., Tooze, J.A., Chou, J.W., Miller, L.D. and J.M. Cline. 2016. Effects o pubertal exposure to dietary soy on estrogen receptor activity in the breast of cynomolgus macaques. Cancer Prevention Research 9:385-395.

Moylan, C.A. and S.K Murphy. 2016. DNA Methylation: Basic Principles. In: Medical Epigenetics, (Trygve Tollefsbol, ed.), Chapter 2, Elsevier. 

Murakami, R., Matsumura, N., Mandai, M., Yoshihara, K., Tanabe, H., Yamanoi, K., Abiko, K., Yoshioka, Y., Hamanishi, J., Yamaguchi, K., Baba, T., Koshiyama, M., Enomoto, T., Okamoto, A., Murphy, S.K., Mori, S., Mikami, Y., Minamiguchi, S. and I. Konishi. 2016. Establishment of a novel histopathological classification of high-grade serous ovarian carcinoma correlated with prognostically distinct gene expression subtypes. The American Journal of Pathology 186:1103-1113. 

McCullough, L.E., Miller, E.E. Mendez, M.A., Murtha, A.P., Murphy, S.K. and C. Hoyo. 2016. Maternal B-vitamins: Effects on offspring weight and DNA methylation at genomically imprinted domains. Clinical Epigenetics 8:8. PMID: 26807160

Joubert, B.R., Felix, J.F., Yousefi, P., Bakulski, K.M., Just, A.C., Breton, C., Reese, S.E., Markunas, C.A., Richmond, R.C., Xu, C.J., Küpers, L.K., Oh, S.S., Hoyo, C., Gruzieva, O., Söderhäll, C., Salas, L.A., Baïz, N., Zhang, H., Lepeule, J., Ruiz, C., Ligthart, S., Wang, T., Taylor, J.A., Duijts, L., Sharp, G.C., Jankipersadsing, S.A., Nilsen, R.M., Vaez, A., Fallin, M.D., Hu, D., Litonjua, A.A., Fuemmeler, B.F., Huen, K., Kere, J., Kull, I., Munthe-Kaas, M.C., Gehring, U., Bustamante, M., Saurel-Coubizolles, M.J., Quraishi, B.M., Ren, J., Tost, J., Gonzalez, J.R., Peters, M.J., Håberg, S.E., Xu, Z., van Meurs, J.B., Gaunt, T.R., Kerkhof, M., Corpeleijn, E., Feinberg, A.P., Eng, C., Baccarelli, A.A., Benjamin Neelon, S.E., Bradman, A., Merid, S.K., Bergström, A., Herceg, Z., Hernandez-Vargas, H., Brunekreef, B., Pinart, M., Heude, B., Ewart, S., Yao, J., Lemonnier, N., Franco, O.H., Wu, M.C., Hofman, A., McArdle, W., Van der Vlies, P., Falahi, F., Gillman, M.W., Barcellos, L.F., Kumar, A., Wickman, M., Guerra, S., Charles, M.A., Holloway, J., Auffray, C., Tiemeier, H.W., Smith, G.D., Postma, D., Hivert, M.F., Eskenazi, B., Vrijheid, M., Arshad, H., Antó, J.M., Dehghan, A., Karmaus, W., Annesi-Maesano, I., Sunyer, J., Ghantous, A., Pershagen, G., Holland, N., Murphy, S.K., DeMeo, D.L., Burchard, E.G., Ladd-Acosta, C., Snieder, H., Nystad, W., Koppelman, G.H., Relton, C.L., Jaddoe, V.W., Wilcox, A., Melén, E., London, S.J. 2016. DNA methylation in newborns and maternal smoking in pregnancy: Genome-wide consortium meta-analysis. American Journal of Human Genetics 98:680-696. PMID: 27040690

King, K., Kane, J.B., Scarbrough, P., Hoyo C. and S.K. Murphy. 2016. Neighborhood and family environment of expectant mothers may influence prenatal programming of adult cancer risk: Discussion and an illustrative biomarker example. Biodemography and Social Biology 62:87-104. PMID: 27050035

Nye, M., King, K., Darrah, T., Maguire, R., Jima, D., Mendez, M., Fry, R., Jirtle, R., Murphy, S.K. and Hoyo, C. 2016. Maternal blood lead concentrations, DNA methylation of MEG3 DMR regulating the DLK1/MEG3 imprinted domain and early growth in a multiethnic cohort. Environmental Epigenetics 2(1)  PMCID: PMC5258134

1. Skaar, D.A., Murphy, S.K. and C. Hoyo. 2016. Effects of environmentally acquired heavy metals and nutrients on the epigenome and phenotype. In: Translational Toxicology, Molecular and Integrative Toxicology, (Claude Hughes and Michael D. Waters, eds.), pp 139-169, Springer International Publishing, Switzerland.

2015

Siddiqui, N., DuBois, L., St. John-Williams, L., Thompson, J.W., Grenier, C., Fraser, M.O., Amundsen, C.L. and S.K. Murphy. 2015. Optimizing urine processing protocols for protein and metabolite detection. Journal of Proteomics and Bioinformatics S14:003.

Varadaraj, A., Patel, P., Serrao, A., Bandyopadhay, T., Jazaeri, A., Lee, N.Y., Murphy, S.K. and K. Mythreye. 2015. Epigenetic regulation of GDF2 suppresses anoikis in ovarian and breast epithelia. Neoplasia 17:826-838.  PMC4681890

Peng, J., Hamanishi, J., Matsumura, N., Abiko, K., Murat, K., Baba, T., Yamaguchi, K., Horikawa, N., Hosoe, Y., Murphy, S.K., Konishi, I. and M. Mandai. 2015. Chemotherapy induces programmed death-ligand 1 overexpression via the Nuclear Factor kappa beta to foster an immunosuppressive tumor microenvironment in ovarian cancer. Cancer Research 75:5034-5045. PMID: 26573793

King, K., Darrah, T., Money, E., Meentemer, R., Maguire, R., Nye, M., Michener, L., Murtha, A.P., Skaar, D.A., Murphy, S.K., Mendez, M.A., Vengosh, A. and C. Hoyo. Geographic clustering of elevated blood toxic metal levels in pregnant women. 2015. BMC Public Health 15:1035.

Keenan, M.M., Liu, B., Tang, X., Wu, J., Cyr, D., Stevens, R.D., Ilkayeva, O., Huang, Z., Tollini, L.A., Murphy, S.K., Lucas, J., Muoio, D.M., Kim, S.Y. and J.T. Chi. 2015. ACLY and ACC1 regulate hypoxia-induced apoptosis by modulating ETV4 via alpha-ketoglutarate. PLoS Genetics 11:e1005599.  PMC4599891

Hemachandra, P., Shin, D.H., Dier, U., Iuliano, J.N., Engelberth, S.A., Uusitalo, L.M., Murphy, S.K. and N. Hempel. 2015. Mitochondrial superoxide dismutase has a pro-tumorigenic role in ovarian clear cell carcinoma. Cancer Research 75:4973-4984. PMC4651777

Murphy, S.K., Erginer, E., Huang, Z., Visco, Z. and C. Hoyo. 2015. Genotype-epigenotype interaction at the IGF2 DMR. Genes 6:777-789. PMC4584329

Sachdeva, M., Dodd, R.D., Huang, Z., Grenier, C., Ma, Y., Lev, D.C., Cardona, D.M., Murphy, S.K. and D.G. Kirsch. 2015. Epigenetic silencing of Kruppel like factor-3 increases expression of pro-metastatic miR-182. Cancer Letters 369:202-211. PMC4600675

Vidal, A., Semenova, V., Darrah, T., Vengosh, A., Huang, Z., King, K., Nye, M., Fry, R., Skaar, D., Maguire, R., Murtha, A., Schildkraut, J., Murphy, S., and C. Hoyo. 2015. Maternal cadmium, iron and zinc levels, DNA methylation and birth weight. BMC Pharmacology and Toxicology 16:20.

Li, Y., Xie, C., Murphy, S.K., Skaar, D., Nye, M., Vidal, A.C., Cecil, K.M., Dietrich, K.N., Puga, A., Jirtle, R.L. and C. Hoyo. 2015. Lead exposure during early human development and DNA methylation of imprinted gene regulatory elements in adulthood. Environmental Health Perspectives 124:666-673.

Taylor, M. and S.K. Murphy. 2015. Systems biology and the epigenome. In: Systems Biology in Toxicology and Environmental Health (Rebecca Fry, Ed), Elsevier, Academic Press, Amsterdam, pp. 43-56.

Mo, L., Pospichalova, V., Huang, Z., Murphy, S.K., Payne, S., Wang, F., Kennedy, M., Cianciolo, G.J., Bryja, V., Pizzo,, S.V. and R.E. Bachelder. 2015. Ascites increases expression/function of multidrug resistance proteins in ovarian cancer cells. PLoS One 10:e0131579.

Ding, J., Reynolds, L.M., Zeller, T., Muller, C., Mstat, K.L., Nicklas, B.J., Kritchevsky, S.B., Huang, Z., de la Fuente, A., Soranzo, N., Settlage, R.E., Chuang, C., Howard, T., Xu, N., Goodarzi, M.O., Chen, Y.-D., Rotter, J.I., Siscovick, D.S., Parks, J.S., Murphy, S., Jacobs, D.R., Post, W., Tracy, R.P., Wild, P.S., Blankenberg, S., Hoeschele, I., Herrington, D., McCall, C.E. and Y. Liu. 2015. Alterations of a cellular cholesterol metabolism network is a molecular feature of obesity-related type 2 diabetes and cardiovascular disease. Diabetes 64:3464-3474

McCullough, L.E., Mendez, M.A., Miller, E.E., Schildkraut, J., Murtha, A.P., Murphy, S.K. and C. Hoyo. 2015. Associations between prenatal physical activity, birth weight and DNA methylation at genomically imprinted domains in a multiethnic birth cohort. Epigenetics 10:597-606.

Vidal, A.C, Skaar, D., Maguire R., Dodor, S., Musselwhite, L.W., Bartlett, J.A., Oneko, O., Obure, J., Mlay, P., Murphy, S.K. and C. Hoyo. 2015.  IL-10, IL-15, IL-17, and GMCSF levels in cervical cancer tissue of Tanzanian women infected with HPV16/18 vs. non-HPV-16/18 genotypes. Infectious Agents and Cancer 10:10.

Tang, X., Keenan, M.M., Wu, J., Lin, C., Dubois, L., Thompson, W., Freedland, S.J., Murphy, S.K. and J.A. Chi.  2015. Comprehensive profiling of amino acid response uncovers unique methionine-deprived response dependent on intact creatine biosynthesis. PLoS Genetics 11:e1005158.

Peng, J., Yoshioka, Y., Mandai, M., Matsumura, N., Baba, T., Yamaguchi, K., Hamanishi, J., Kharma, B., Murakami, R., Abiko, K., Murphy, S.K. and I. Konishi. 2015. The BMP signaling pathway leads to enhanced proliferation in serous ovarian cancer - a potential therapeutic target. Molecular Carcinogenesis 55:335-345.

Nye, M.D., Hoyo, C. and S.K. Murphy. 2015. In vitro lead exposure changes DNA methylation and expression of IGF2 and PEG1/MEST. Toxicology in Vitro 29:544-550.

King, K., Murphy, S.K. and C. Hoyo. 2015. Epigenetic regulation of newborns' imprinted gene related to gestational growth: Patterning by parental race/ethnicity and maternal socioeconomic status. Journal of Epidemiology and Community Health 69:639-647.

Nagura, M., Matsumura, N., Baba, T., Murakami, R., Kharma, B., Hamanishi, J., Yamaguchi, K., Abiko, K., Koshiyama, M., Mandai., M., Murata, T., Murphy, S.K. and I. Konishi. 2015. Invasion of uterine squamous cell carcinoma cells is facilitated by locoregional interaction with cancer-associated fibroblasts via activating transforming growth factor-beta. Gynecologic Oncology 136:104-111.

2014

Kharma, B., Baba, T., Matsumura, N., Kang, H.S., Hamanishi, J., Murakami, R., McConechy, M.M., Leung, S., Yamaguchi, K., Hosoe, Y., Yoshioka, Y., Murphy, S.K., Mandai, M., Huntsman, D.G. and I. Konishi. 2014. STAT1 drives tumor progression in serous papillary endometrial cancer. Cancer Research 74:6519-6530.

Yamaguchi, K., Matsumura, N., Mandai, M., Baba, T., Konishi, I. and S.K. Murphy. Epigenetic and genetic dispositions of ovarian carcinomas. Oncoscience 1:574-579. 

Vidal, A.C., Neelon, S.E.B., Liu, Y., Tuli, A., Fuemmeler, B.F., Hoyo, C., Murtha, A.P., Huang, Z., Schildkraut, J., Overcash, F., Kurtzberg, J., Jirtle, R.L., Iversen, E.S. and S.K. Murphy. 2014. Maternal stress, preterm birth, and DNA methylation at imprint regulatory sequences in humans. Genetics and Epigenetics 6:37-44. 

Baba, T., Kang, H.S., Hosoe, Y., Kharma, B., Abiko, K., Matsumura, N., Hamanishi, J., Yamaguchi, K., Yoshiola, Y., Koshiyama, M., Mandai, M., Murphy, S.K. and I. Konishi. 2014. Menstrual cyclic change of metastin/GPR54 in endometrium. Medical Molecular Morphology 48:78-84.

Davidson, B.A., Rubatt, J., Corcoran, D., Teoh, D., Bernardini, M., Grace, L., Soper, J.W., Berchuck, A., Siamakpour-Reihani, S., Chen, W., Owzar, K., Murphy, S.K. and A.A. Secord. 2014. Differential angiogenic gene expression in TP53 wild-type and mutant ovarian cancer cell lines. Frontiers in Oncology 4:163.

Vidal, A.C., Smith, J.S., Iversen, E., Valea, F., Bentley, R. Gradison, M., Yarnall, K., Ford, A., Overcash, F., Grant, K., Murphy, S.K. and C. Hoyo. 2014. HPV genotypes and cervical intraepithelial neoplasia in a multiethnic cohort in the Southeastern United States. Cancer Causes and Control 25:1055-1062.

Smeester, L., Yosim, A.E., Nye, M.D., Hoyo, C. Murphy, S.K. and R.C. Fry. 2014. Imprinted genes and the environment: links to the toxic metals arsenic, cadmium, lead and mercury. Genes 5:477-496.

Hoyo, C., Daltveit, A.K., Iversen, E.S., Neelon, S.E.B., Fuemmeler, B.F., Schildkraut, J.M., Murtha, A.P., Overcash, F., Vidal, A.C., Wang, F., Huang, Z., Kurtzberg, J., Seewaldt, V., Forman, M., Jirtle, R.L. and S.K. Murphy. 2014. Erythrocyte folate concentrations, birth weight, and CpG methylation at genomically imprinted domains in a multiethnic cohort of newborns. Epigenetics 9:1120-1130.

Murphy, S.K. 2014. Paternal obesity–a risk factor for autism? Nature Reviews Endocrinology 10:389-390.

Vidal, A.C., Overcash, F., Murphy, S.K., Murtha, A.P., Schildkraut, J.M., Forman, M.R., Demark-Wahnefried, W., Kurtzberg, J.K., Skaar, D., Jirtle, R.L. and C. Hoyo. 2014. Associations between birth and one year anthropometric measurements and IGF2 and IGF2R genetic variants in African American and Caucasian American infants. Journal of Pediatric Genetics 2:119-127

Nye, M.D., Fry, R.C., Hoyo, C. and S.K. Murphy. 2014. Investigating epigenetic effects of prenatal exposure to toxic metals in newborns: challenges and benefits. Medical Epigenetics 2:53-59.

Soubry, A., Hoyo, C, Jirtle, R.L. and S.K. Murphy. 2014. A paternal environmental legacy: evidence for epigenetic inheritance through the male germ line. BioEssays 36:359-371. 

Yamaguchi, K., Huang, Z., Matsumura, N., Mandai, M., Okamoto, T., Baba, T., Konishi, I., Berchuck, A. and S.K. Murphy. Epigenetic determinants of ovarian clear cell carcinoma biology. International Journal of Cancer 135:585-597.

Moylan, C.A., Pang, H., Dellinger, A., Suzuki, A., Garrett, M., Ashley-Koch, A., Murphy, S.K., Guy, C.D., Choi, S.S., Michelotti, G., Hampton, D.D., Chen, Y., Tillmann, H.L., Hauser, M.A., Abdelmalek, M.F. and A.M. Diehl. 2014. Hepatic gene expression profiles differentiate advanced from mild nonalcoholic fatty liver disease. Hepatology 59:471-482.

Alvarez Secord, A., Teoh, D., Jia, J., Nixon, A.B., Grace, L., Adams, D.J. and S.K. Murphy.  2014. Dasatinib (BMS-35482) interacts synergistically with docetaxel, gemcitabine, topotecan and doxorubicin in ovarian cancer cells with high SRC pathway activation and protein expression. International Journal of Gynecological Cancer 24:218-225. 

Vidal, A., Henry, N.M., Murphy, S.K., Oneko, O., Nye, M., Bartlett, J.A., Overcash, F., Huang, Z., Wang, F., Mlay, P., Obure, J., Smith, J., Vasquez, B., Swai, B., Hernandez, B. and C. Hoyo. 2014. PEG1/MEST and IGF2 DNA methylation in CIN and cervical cancer. Clinical and Translational Oncology 16:266-272.

2013

Alvarez Secord, A., Bernardini, M.Q., Broadwater, G., Grace, L.A., Huang, Z., Baba, T., Kondoh, E., Sfakianos, G., Havrilesky, L.J. and S.K. Murphy. 2013. TP53 status is associated with Thrombospondin 1 expression in vitro. Frontiers in Oncology 3:269. 

Soubry, A., Murphy, S.K., Wang, F., Huang, Z., Vidal, A.C., Fuemmeler, B.F., Kurtzberg, J., Murtha, A., Jirtle, R.L., Schildkraut, J.M. and C. Hoyo. 2013. Newborns of obese parents have altered DNA methylation patterns at imprinted genes. International Journal of Obesity 39:650-657. 

Murphy, S.K., Yang, H., Moylan, C.A., Pang, H., Dellinger, A. Abdelmalek, M.F., Garrett, M.E., Ashley-Koch, A., Suzuki, A., Tillmann, H.L. Hauser, M.A. and A.M. Diehl. 2013. Relationship between methylome and transcriptome in patients with non-alcoholic fatty liver disease. Gastroenterology 145:1076-1087. 

Okamoto, T., Mandai, M., Matsumura, N., Yamaguchi, K., Kondoh, H., Amano, Y., Baba, T., Hamanishi, J. Abiko, K., Kosaka, K., Murphy, S.K., Mori, S. and I. Konishi. 2013. Hepatocyte nuclear factor-1beta (HNF-1beta) promotes glucose uptake and glycolytic activity in ovarian clear cell carcinoma. Molecular Carcinogenesis 54:35-49. 

Murphy, S.K. 2013. Prenatal sensitization of a postnatal trigger for metabolic disease. Journal of Clinical Investigation 123:2786-2788. 

Huang, Z. and S.K. Murphy. 2013. Increased intragenic IGF2 methylation is associated with repression of insulator activity and elevated expression in serous ovarian carcinoma. Frontiers in Women's Cancer 3:131. 

Liu, Y., Hoyo, C., Murphy, S.K., Huang, Z., Overcash, F., Thompson, J., Brown, H. and A.P. Murtha. 2013. DNA methylation at imprint regulatory regions in preterm birth and infection. American Journal of Obstetrics and Gynecology 208:395.e1-7. 

Vidal, A., Murtha, A.P., Murphy, S.K., Fortner, K., Overcash, F., Henry, N., Schildkraut, J.M., Forman, M.R., Demark-Wahnefried, W., Kurtzberg, J., Jirtle, R. and C. Hoyo. 2013. Maternal BMI, IGF-I levels and birth weight in African American and White infants. International Journal of Pediatrics 191472.

Vidal, A.C., Murphy, S.K., Murtha, A.P., Schildkraut, J.M., Soubry, A., Huang, Z., Neelon, S.E., Fuemmeler, B., Iversen, E., Wang, F., Kurtzberg, J., Jirtle, R.L. and C. Hoyo. 2013 Associations between antibiotic exposure during pregnancy, birth weight and aberrant methylation at imprinted genes among offspring. International Journal of Obesity 37:907-913. 

Murphy, S.K. and J.W. Hollingsworth. 2013. Stress: A possible link between genetics, epigenetics, and childhood asthma. American Journal of Respiratory and Critical Care Medicine 187:563-564. 

Kharma, B., Baba, T., Mandai, M., Matsumura, N., Murphy, S.K., Kang, H.S., Yamanoi, K., Hamanishi, J., Yamaguchi, K., Yoshioka, Y. and I. Konishi. 2013. Utilization of genomic signatures to identify high efficacy candidate drugs for chemorefractory endometrial cancers. International Journal of Cancer 133:2234-2244. 

Nye, M.D., Hoyo, C., Huang, Z., Vidal, A.C., Wang, F., Overcash, F., Smith, J.S., Vasquez, B., Hernandez, B., Swai, B., Oneko, O., Mlay, P., Obure, J. Gammon, M.D., Bartlett, J.A. and S.K. Murphy. 2013. Associations between methylation of Paternally Expressed Gene 3 (PEG3), cervical intraepithelial neoplasia and invasive cervical cancer. PLoS One 8:e56325. 

Sfakianos, G.P., Iversen, E.S., Whitaker, R., Akushevich, L., Schildkraut, J.M., Murphy, S.K., Marks, J.R. and A. Berchuck. 2013. Validation of ovarian cancer gene expression signatures for survival and subtype in formalin fixed paraffin embedded tissues.  Gynecologic Oncology 129:159-164. 

Soubry, A., Schildkraut, J.S., Murtha, A., Wang, F., Huang, Z., Bernal, A., Kurtzberg, J., Jirtle, R.L., Murphy, S.K. and C. Hoyo. 2013. Paternal obesity is associated with IGF2 hypomethylation in newborns: results from a Newbron Epigenetics STudy (NEST) cohort. BMC Medicine 11:29.

Murphy, S.K. and C. Hoyo. 2013. Sculpting our future: Environmental nudging of the imprintome.  In: Environmental Epigenomics in Health and Disease, (Randy Jirtle and Fred Tyson, eds.), pp. 51-73, Springer-Verlag, Berlin Heidelburg. 

Murphy, S.K. Bassil, C.F. and Z. Huang. 2013. Main principles and outcomes of DNA methylation analysis.  In: Methods in Molecular Biology, (Anastasia Malek, ed.), Humana Press (Springer) 1049:67-74. 

Huang, Z., Bassil, C.F. and S.K. Murphy. 2013. Methylation-specific PCR. In: Methods in Molecular Biology, (Anastasia Malek, ed.), Humana Press (Springer) 1049:75-82.

Huang, Z., Bassil, C.F. and S.K. Murphy. 2013. Bisulfite sequencing of cloned alleles. In: Methods in Molecular Biology, (Anastasia Malek, ed.), Humana Press (Springer) 1049:83-94. 

Bassil, C.F., Huang, Z. and S.K. Murphy. 2013. Bisulfite pyrosequencing. In: Methods in Molecular Biology, (Anastasia Malek, ed.), Humana Press (Springer) 1049:95-107. 

2012

Das, R., Anderson, N, Koran, M.I., Weidman, J.R., Mikkelsen, T.S., Kamal, M., Murphy, S.K., Linblad-Toh, K., Greally, J.M. and R.L. Jirtle. 2012. Convergent and divergent evolution of genomic imprinting in the marsupial Monodelphis domestica. BMC Genomics 13:394.  

Joubert, B.R. Haberg, S.E., Nilsen, R.M., Wang, X., Vollset, S.E., Murphy, S.K., Huang, Z., Hoyo, C., Midttun, O., Cupul-Uicab, L.A., Ueland, P.M., Wu, M.C., Nystad, W., Bell, D.A., Peddada, S.D. and S.J. London. 2012. 450k Epigenome-wide scan identifies differential DNA methylation in newborns related to maternal smoking during pregnancy. Environmental Health Perspectives 120:1425-1431. 

Murphy, S.K., Huang, Z. and C. Hoyo. 2012. Differentially methylated regions of imprinted genes in prenatal, perinatal and postnatal human tissues. PLoS One 7:e40924. 

Korch, C. Spillman, M.A., Jackson, T.A., Jacobsen, B.M. Murphy, S.K., Lessey, B.A., Jordan, V.C. Bradford, A.P. 2012. DNA profiling analysis of endometrial and ovarian cell lines reveals misidentification, redundancy and contamination. Gynecologic Oncology 127:241-248. 

Liu, Y., Murphy, S.K., Murtha, A.P., Fuemmeler, B.F., Schildkraut, J., Huang, Z., Overcash, F., Kurtzberg, J., Jirtle, R., Iversen, E.S., Forman, M.R. and C. Hoyo. 2012. Depression in pregnancy, infant birth weight and DNA methylation of imprint regulatory elements. Epigenetics 7:735-746. 

Skaar, D.A., Li, Y., Bernal, A.J., Hoyo, C., Murphy, S.K. and R.L. Jirtle. 2012. The human imprintome and its role in disease susceptibility. ILAR Journal 53:337-354.  

Hoyo, C., Fortner, K., Murtha, A.P., Schildkraut, J.M., Soubry, A., Demark-Wahnefried, W., Jirtle, R.L., Kurtzberg, J., Forman, M.R., Overcash, F., Huang, Z. and S.K. Murphy. 2012. Association of cord blood methylation fractions at imprinted insulin-like growth factor 2 (IGF2), plasma IGF2 and birth weight. Cancer Causes Control 23:635-645. 

Hoyo, C., Murphy, S.K., Schildkraut, J.M., Vidal, A.C., Skaar, D., Millikan, R.C., Galanko, J., Sandler, R.S., Jirtle, R. and T. Keku. 2012. IGF2R genetic variants, circulating IGF2 concentrations and colon cancer risk in African Americans and Whites. Disease Markers 32:133-141. 

Perkins, E., Murphy, S.K., Murtha, A.P., Schildkraut, J., Jirtle, R.L., Demark-Wahnefried, W., Forman, M.R., Kurtzberg, J., Overcash, F., Huang, Z., and C. Hoyo. 2012. Insulin-like growth factor 2/H19 methylation at birth and risk of overweight and obesity in children. Journal of Pediatrics 161:31-39. 

Murphy, S.K. Targeting the epigenome in ovarian cancer. 2012. Future Oncology 8:151-164. 

Murphy, S.K., Adigun, A., Huang, Z., Overcash, F., Wang, F., Jirtle, R.L., Schildkraut, J.S., Murtha, A.P., Iversen, E.S. and C. Hoyo. 2012. Gender-specific methylation differences in relation to prenatal exposure to cigarette smoke. Gene 494:36-43. 

Yamamura, S., Matsumura, N., Mandai, M., Huang, Z., Oura, T., Baba, T., Hamanishi, J., Yamaguchi, K., Sook, K., Okamoto, T., Abiko, K., Mori, S., Murphy, S.K. and I. Konishi. 2012. The activated TGF-beta signaling pathway in peritoneal metastases is a potential therapeutic target in ovarian cancer. International Journal of Cancer 130:20-28.

2011

Soubry, A., Murphy, S.K., Huang, Z., Murtha, A., Schildkraut, J. M., Jirtle, R. L., Wang, F., Kurtzberg, J., Deamrk-Wahnefried, W., Forman, M. R. and C. Hoyo. 2011. The effects of depression and use of antidepressive medicines during pregnancy on the methylation status of IGF2 imprint control regions in the offspring. Clinical Epigenetics 3:2. 

Secord, A.A., Darcy, K.M., Hutson, A., Huang, Z., Lee, P.S., Jewell, E.L., Havrilesky, L.J., Markman, M.,  Muggia, F. and S.K. Murphy. 2011. The regulation of MASPIN expression in epithelial ovarian cancer: Association with p53 status, and MASPIN promoter methylation: A Gynecologic Oncology Group study. Gynecologic Oncology 123:314-319. 

BonDurant, A. E., Huang, Z., Whitaker, R. S., Simel, L. R., Berchuck, A. and S. K. Murphy. 2011. Quantitative detection of RASSF1A DNA promoter methylation in tumors and serum of patients with serous epithelial ovarian cancer. Gynecologic Oncology 123:581-587. 

Vidal, A.C., Murphy, S.K., Hernandez, B.Y., Vasquez, B., Bartlett, J.A., Oneko, O., Mlay, P., Obure, J., Overcash, F., Smith, J.S., van der Kolk, M. and C. Hoyo. 2011. Distribution of HPV genotypes in cervical intraepithelial lesions and cervical cancer in Tanzanian women. Infectious Agents and Cancer 6:20. 

Hoyo, C., Murtha, A.P., Schildkraut, J.M., Jirtle, R.L., Demark-Wahnefried, W., Forman, M.R. Iversen, E.S., Kurtzberg, J., Overcash, F., Huang, Z. and S.K. Murphy. 2011. Methylation variation at IGF2 differentially methylated regions and maternal folic acid use before and during pregnancy. Epigenetics 6:928-936.

Matsumura, N., Huang, Z., Baba, T., Mori, S. Fujii, S., Konishi, I., Berchuck, A. and S.K. Murphy. 2011. Epigenetic suppression of the TGF-beta pathway revealed by transcriptome profiling in ovarian cancer. Genome Research 21:74-82. [Genome Research Press Release] [Duke Press Release] 

Hoyo, C., Murtha, A., Schildkraut, J., Forman, M.R., Calingaert, B., Demark-Wahnefried, W., Kurtzberg, J., Jirtle, R.L. and S.K. Murphy. 2011. Folic acid supplementation before and during pregnancy in the Newborn Epigenetics Study (NEST). BMC Public Health 11:46. 

Teoh, D., Ayeni, T.A., Rubatt, J.M., Adams, D.J., Grace, L., Starr, M.D., Barry, W.T., Berchuck, A., Murphy, S.K. and A.A. Secord. 2011. Dasatinib (BMS-35482) has synergistic activity with paclitaxel and carboplatin in ovarian cancer cells. Gynecologic Oncology 121:187-192. 

Kang, H.S., Baba, T., Matsumura, N., Hamanishi, J., Kharma, B., Kondoh, E., Yoshioka, Y., Oishi, S., Fujii, N., Murphy, S.K. and I. Konishi. 2011. GPR54 is a target for suppression of metastasis in endometrial cancer. Molecular Cancer Therapeutics 10:580-590.  

Zhang, A., Skaar, D., Li, Y., Huang, D., Price, T., Murphy, S.K. and R.L. Jirtle. 2011. Novel retrotransposed imprinted locus identified at human 6p25. Nucleic Acids Research 39:5388-5400. 

Murphy, S.K. and A. Berchuck.  2011. Ovarian cancer progenitor/stem cells; therapeutic potential. In: Emerging Therapeutic Targets in Ovarian Cancer, (Stan Kaye, ed.), pp. 223-244, Springer, New York. 

2010

Lee, P.S., Teaberry, V.S., Bland, A.E., Huang, Z., Whitaker, R.S., Baba, T., Fujii, S., Secord, A.A., Berchuck, A. and S.K. Murphy. 2010. Elevated MAL expression is accompanied by promoter hypomethylation and platinum resistance in epithelial ovarian cancer. International Journal of Cancer 126:1378-1389. 

Kondoh, E., Mori, S., Yamaguchi, K., Baba, T., Matsumura, N., Barnett, J. C., Whitaker, R.S., Konishi, I., Fujii, S., Berchuck, A. and S.K. Murphy.  2010. Targeting slow proliferating ovarian cancer cells. International Journal of Cancer 126:2448-2456. 

Yamaguchi, K. Mandai, M., Oura, T., Matsumura, N., Hamanishi, J., Baba, T., Matsui, S., Murphy, S.K., and I. Konishi. 2010. Identification of an ovarian clear cell carcinoma gene signature that reflects inherent disease biology and the carcinogenic process. Oncogene 29:1741-1752.  

Barnett, J.C., Bean, S.M., Nakayama, J.M., Kondoh, E., Murphy, S.K. and A. Berchuck. 2010. High Poly (Adenosine Disphosphate-Ribose) polymerase expression and poor survival in advanced-stage serous ovarian cancer. Obstetrics and Gynecology 115:49-54. 

Barnett, J.C., Bean, S.M., Whitaker, R.S., Kondoh, E., Baba, T., Fujii, S., Marks, J.R., Dressman, H.K., Murphy, S.K. and A. Berchuck.  2010. Ovarian cancer tumor infiltrating T-regulatory (Treg) cells are associated with a metastatic phenotype. Gynecologic Oncology 116:556-562.

Bernardini, M. Q., Baba, T., Lee, P. S., Barnett, J. C., Sfakianos, G. P., Secord, A. A., Murphy, S. K., Iversen, E., Marks, J. R. and A. Berchuck. 2010. Expression signatures of TP53 mutations in serous ovarian cancers. BMC Cancer 10:237.

Matsumura, N., Mandai, M., Okamoto, T., Yamaguchi, K., Yamamura, S., Oura, T., Baba, T., Hamanishi, J., Kang, H.S., Matsui, S., Mori, S., Murphy, S.K. and I. Konishi. 2010. Sorafenib efficacy in ovarian clear cell carcinoma revealed by transcriptome profiling. Cancer Science 101:2658-2663.  

Murphy, S. K.  2010. Targeting ovarian cancer-initiating cells. Anticancer Agents in Medicinal Chemistry 10:157-163. 

Bernal, A., Murphy, S.K. and R.L. Jirtle. 2010.  Mouse models of epigenetic inheritance.  In: Handbook of Epigenetics: The New Molecular and Medical Genetics, (Trygve Tollefsbol, ed.), pp. 233-249, Elsevier, London.

2009

Baba, T., Convery, P., Matsumura, N., Whitaker, R. S., Kondoh, E., Perry, T., Huang, Z., Bentley, R. C., Mori, S., Fujii, S., Marks, J. R., Berchuck, A. and S. K. Murphy.  2009. Epigenetic regulation of CD133 and tumorigenicity of CD133(+) ovarian cancer cells. Oncogene 28:209-218. 

Horne, H., Lee, P. S., Murphy, S. K., Alonso, M. A., Olson, J. A. Jr. and J. R. Marks. 2009. Inactivation of the MAL gene in breast cancer is a common event and predicts benefit from adjuvant chemotherapy. Molecular Cancer Research 7:199-209. 

Kondoh, E., Okamoto, T., Higuchi, T., Tatsumi, K., Baba, T., Murphy, S. K., Horiuchi, Y., Kang, H. S., Takakura, K., Konishi, I. and S. Fujii. 2009. Stress affects uterine receptivity through ovarian-independent pathway. Human Reproduction 24:945-953.  

Berchuck, A., Iversen, E. S., Luo, J., Clarke, J. P., Horne, H., Levine, D., Boyd, J., Alonso, M. A., Secord, A. A., Bernardini, M. Q., Barnett, J. C., Boren, T., Murphy, S. K., Nevins, J. R., Marks, J. R., Dressman, H. K. and J. M. Lancaster.  2009.  Microarray analysis of early stage serous ovarian cancers demonstrates profiles predictive of favorable outcome. Clinical Cancer Research 15:2448-2455. 

Hoyo, C., Schildkraut, J. S., Murphy, S.K., Chow, W.-H., Vaughn, T. L., Risch, H., Marks, J. R., Jirtle, R. L., Calingaert, B., Mayne, S., Fraumeni, J. Jr., and M. D. Gammon.  2009. IGF2R polymorphisms and risk of esophageal and gastric adenocarcinoma. International Journal of Cancer 125:2673-2678. 

Gregory, S. G., Connelly, J. J., Biscocho, D., Johnson, J., Lintas, C., Donnelly, S., Abramson, R., Wright, H., Ellis, P., Langford, C. F., Worley, G., Delong, G. R., Murphy, S. K., Cuccaro, M., Persico, A. and M. A. Pericak-Vance. 2009. Identification of OXTR as candidate gene within autism spectrum disorders by whole genome microarray and epigenetic analysis. BMC Medicine 7:62. 

Mori, S., Chang, J. T., Andrechek, E. R., Matsumura, N., Baba, T., Yao, G., Murphy, S. K. and J. R. Nevins.  2009. Anchorage-independent cell growth signature identifies tumors with metastatic potential. Oncogene 28:2796-2805. 

Ding, X., Mohd, A. B., Huang, Z., Baba, T., Bernardini, M., Lyerly, H. K., Berchuck, A., Murphy, S. K., Buermeyer, A., and G. R. Devi.  2009.  MLH1 expression sensitizes ovarian cancer cells to cell death mediated by XIAP inhibition. British Journal of Cancer 101:269-277. 

Matsumura, N., Huang, Z., Baba, T., Lee, P. S., Mori, S., Chang, J., Kuo, W., Gusberg, A. H., Whitaker, R. S., Gray, J. W., Fujii, S., Berchuck, A. and S. K. Murphy.  2009. Yin yang 1 modulates taxane response in epithelial ovarian cancer.  Molecular Cancer Research 7:210-220.

Hoyo, C., Murphy, S. K. and R. L. Jirtle.  2009. Imprint regulatory elements as epigenetic biosensors of exposure in epidemiological studies.  Journal of Epidemiology and Community Health 63:683-684.

2007

Baba, T., Mori, S., Matsumura, N., Kariya, M., Murphy S. K., Kondoh, E., Kusakari, T., Kuroda, H., Mandai, M., Higuchi, T., Takakura, K., Fukuda, M. N. and S. Fujii. 2007. Trophonin is a potent prognostic marker of ovarian cancer involved in platinum sensitivity.  Biochemical and Biophysical Research Communications 360:363-369. 

O’Sullivan, F., Murphy, S. K., Simel, L. R., McCann, A., Callanan, J. J. and C. M. Nolan. 2007. Imprinted expression of the canine IGF2R, in the absence of an anti-sense transcript or promoter methylation. Evolution and Development 9:579-589. 

Price, T., Murphy, S. K. and E. Younglai. 2007. The possible influence of assisted reproductive technologies on transgenerational reproductive effects of environmental endocrine disruptors. Toxicological Sciences 96:218-226.  

Weidman, J. R., Dolinoy, D. C., Murphy, S. K., and R. L. Jirtle.  2007. Cancer susceptibility: epigenetic manifestation of environmental exposures. The Cancer Journal 13:9-16. 

Hempel, N., How, T., Murphy, S. K., Fields, T. A. and G. C. Blobe.  2007.  Loss of Betaglycan expression in ovarian cancer: role in motility and invasion. Cancer Research 67:5231-5238. 

Spillman, M. A., Lacy, J., Murphy, S. K., Whitaker, R. S., Grace, L., Teaberry, V., Marks, J. R., and A. Berchuck. 2007. Regulation of the metastasis suppressor gene MKK4 in ovarian cancer. Gynecologic Oncology 105:312-320. 

Goh, L., Murphy, S. K., Mukherjee, S. and T. S. Furey.  2007.  Genomic sweeping for hypermethylated genes in unlabeled and imbalanced data using sequence features. Bioinformatics 23:281-288.  

Schildkraut, J. S., Murphy, S. K., Palmeri, R. Huang, Z., Iversen, E., Halabi, S., Calingaert, B, Gusberg, A. H., Marks, J., Moorman, P. and A. Berchuck.  2007. Trinucleotide repeat polymorphisms in the androgen receptor gene and risk of ovarian cancer.  Cancer Epidemiology Biomarkers and Prevention 16:473-480. 

Risinger, J. I., Custer, M., Pack, S., Loukinov, D., Maxwell, G. L., Chandramouli, G., Aprelikova, O., Litzi, T., Murphy, S. K., Berchuck, A., Lobanenkov, V., and J.C. Barrett. 2007. Expression analysis of cancer testis antigens in uterine cancers details a high incidence of BORIS expression. Clinical Cancer Research 13:1713-1719. 

2006

Huang, Z., Wen, Y., Shandilya, R., Marks, J.R., Berchuck, A. and S. K. Murphy. 2006. High throughput detection of M6P/IGF2R intronic hypermethylation and LOH in ovarian cancer. Nucleic Acids Research 34:555-563. 

Murphy, S. K., Huang, Z., Wen, Y., Spillman, M. A., Whitaker, R. S., Nichols, T. B., Marks, J., and A. Berchuck. 2006. Frequent IGF2/H19 domain epigenetic alterations and elevated IGF2 expression in epithelial ovarian cancer. Molecular Cancer Research 4:283-292. 

Murphy, S. K., Nolan, C. M., Huang, Z. Kucera, K. S., Freking, B. A., Smith, T. P. L., Leymaster, K. A., Weidman, J. R., and R. L. Jirtle. 2006. Callipyge mutation affects gene expression in cis: A potential role for chromatin structure. Genome Research 16:340-346. 

2005

Murphy, S. K., Freking, B. A., Smith, T. P. L., Leymaster, K., Nolan, C. M., Wylie, A. A., Evans, H. K., and R. L. Jirtle. 2005. Abnormal postnatal maintenance of elevated DLK1 levels in callipyge sheep. Mammalian Genome 16:171-183. 

Berchuck, A., Iversen, E. S., Lancaster, J. M., Pittman, J., Luo, J., Lee, P., Murphy, S. K., Dressman, H. K., Febbo, P. G., West, M., Nevins, J. R., and Marks, J. R. 2005.  Patterns of gene expression that characterize long-term survival in advanced stage serous ovarian cancers. Clinical Cancer Research 11:3686-3696. 

Spillman, M. A., Schildkraut, J. M., Halabi, S., Moorman, P., Calingaert, B., Bentley, R.C., Marks, J.R., Murphy, S. K., and A. Berchuck. 2005. Transforming Growth Factor ß Receptor I polyalanine repeat polymorphism does not increase ovarian cancer risk. Gynecologic Oncology 97:543-549. 

Wang, W., Huper, G., Guo, L. Murphy, S. K., Olson, J. A., and J. R. Marks. 2005. Analysis of methylation sensitive transcriptome identifies GADD45 alpha as a frequently methylated gene in breast cancer. Oncogene 24:2705-2714. 

Pre-2005

Weidman, J. R., Murphy, S. K., Nolan, C. M., and R. L. Jirtle. 2004. Phylogenetic footprint analysis of IGF2 in mammals. Genome Research 14:1726-1732. 

Murphy, S. K., and R. L. Jirtle.  2003.  Imprinting evolution and the price of silence.  BioEssays 25(6):577-588. 

Dietz, L. G., Wylie, A. A., Rauen, K. A., Murphy, S. K., Jirtle, R. L., and P. D. Cotter.  2003. Exclusion of maternal uniparental disomy of chromosome 14 in patients referred for Prader-Willi syndrome using a multiplex methylation polymerase chain reaction assay. Journal of Medical Genetics 40:e46. 

Murphy, S.K., Wylie, A.A., Coveler, K.J., Cotter, P.D., Papenhausen, P.R., Sutton, V.R., Shaffer, L.G., and R.L. Jirtle. 2003. Epigenetic detection of human chromosome 14 uniparental disomy. Human Mutation 22:92-97. 

Freking, B.A., Murphy, S.K., Wylie, A.A., Rhodes, S., Leymaster, K.A., Keele, J.W., Jirtle. R.L., and T.P.L. Smith.  2002.  Identification of the single base change causing the callipyge muscle hypertrophy phenotype in sheep, the only known example of polar overdominance in mammals. Genome Research 12(10):1496-1506. 

Li, T., Vu, T.H., Lee, K.O., Bui, H.Q., Zeng, Z., Nguyen, B.T., Hu, J., Jirtle, R.L., Murphy, S.K., Nguyen, C. V., and A.R. Hoffman.  2002.  An imprinted PEG1/MEST antisense expressed predominantly in testis and in mature spermatozoa.  Journal of Biological Chemistry 277:13518-13527. 

Evans, H.K., Wylie, A.A., Murphy, S.K., and R.L. Jirtle.  2001.  The neuronatin gene resides in a “micro-imprinted” domain on human chromosome 20q11.2.  Genomics 77:99-104. 

Keller, M.A., Murphy, S.K., and G.D. Parks.  2001.  RNA replication from the Simian Virus 5 antigenomic promoter requires three sequence-dependent elements separated by sequence-independent spacer regions. Journal of Virology 75:3993-3998. 

Murphy, S.K., Wylie, A.A., and R.L. Jirtle.  2001.  Imprinting of PEG3, the human homolog of a mouse gene involved in nurturing behavior.  Genomics 71(1):110-117. 

Murphy, S.K., and R.L. Jirtle. 2001.  Non-genotoxic causes of cancer.  In: The Cancer Handbook, (Alison M.R., and Gooderham, N. G., eds.), pp. 317-333, Nature Publishing Group Reference, London.  

Murphy, S.K., and R.L. Jirtle.  2000.  Imprinted genes as potential genetic and epigenetic toxicological targets. Environmental Health Perspectives 108(suppl):5-11. 

Wylie, A.A., Murphy, S.K., Orton, T.C., and R.L. Jirtle.  2000.  Novel imprinted DLK1/GTL2 domain on human chromosome 14 contains motifs that mimic those implicated in IGF2/H19 regulation.  Genome Research 10:1711-1718. 

Murphy, S.K., and G.D. Parks.  1999.  RNA replication for the Paramyxovirus simian virus 5 requires an internal repeated (CGNNNN) sequence motif.  Journal of Virology 73:805-809. 

Murphy, S.K., Ito, Y., and G.D. Parks.  1998.  A functional antigenomic promoter for the Paramyxovirus simian virus 5 requires proper spacing between an essential internal segment and the 3' terminus.  Journal of Virology 72:10-19. 

Murphy, S.K., and G.D. Parks.  1997.  Genome nucleotide lengths divisible by six are not essential but enhance replication of defective interfering RNAs of the Paramyxovirus simian virus 5.  Virology 232:145-157. 

Murphy, S.K., and J.D. Oliver.  1992.  Effects of temperature abuse on survival of  Vibrio vulnificus in oysters.  Applied and Environmental Microbiology 58:2771-2775. 

© The Murphy Lab 2019