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Endothelial-to-Mesenchymal Transition in Human Adipose Tissue Vasculature Alters the Particulate Secretome and Induces Endothelial Dysfunction.

Haynes BA, Yang LF, Huyck RW, Lehrer EJ, Turner JM, Barabutis N, Correll VL, Mathiesen A, McPheat W, Semmes OJ, Dobrian AD.

Arterioscler Thromb Vasc Biol. 2019 Oct;39(10):2168-2191. doi: 10.1161/ATVBAHA.119.312826. Epub 2019 Aug 22.


Characterization and Evidence of the miR-888 Cluster as a Novel Cancer Network in Prostate.

Hasegawa T, Glavich GJ, Pahuski M, Short A, Semmes OJ, Yang L, Galkin V, Drake R, Esquela-Kerscher A.

Mol Cancer Res. 2018 Apr;16(4):669-681. doi: 10.1158/1541-7786.MCR-17-0321. Epub 2018 Jan 12.


A Lipidomics Approach to Identifying Key Lipid Species Involved in VEGF-Inhibitor Mediated Attenuation of Bleomycin-Induced Pulmonary Fibrosis.

Kulkarni YM, Dutta S, Iyer AKV, Wright CA, Ramesh V, Kaushik V, Semmes OJ, Azad N.

Proteomics Clin Appl. 2018 May;12(3):e1700086. doi: 10.1002/prca.201700086. Epub 2018 Jan 19.


Changes in the Hippocampal Proteome Associated with Spatial Memory Impairment after Exposure to Low (20 cGy) Doses of 1 GeV/n 56Fe Radiation.

Britten RA, Jewell JS, Davis LK, Miller VD, Hadley MM, Semmes OJ, Lonart G, Dutta SM.

Radiat Res. 2017 Mar;187(3):287-297. doi: 10.1667/RR14067.1. Epub 2017 Feb 3.


Targeted proteomics identifies liquid-biopsy signatures for extracapsular prostate cancer.

Kim Y, Jeon J, Mejia S, Yao CQ, Ignatchenko V, Nyalwidhe JO, Gramolini AO, Lance RS, Troyer DA, Drake RR, Boutros PC, Semmes OJ, Kislinger T.

Nat Commun. 2016 Jun 28;7:11906. doi: 10.1038/ncomms11906.


HTLV-1 Infection and Adult T-Cell Leukemia/Lymphoma-A Tale of Two Proteins: Tax and HBZ.

Giam CZ, Semmes OJ.

Viruses. 2016 Jun 16;8(6). pii: E161. doi: 10.3390/v8060161. Review.


Complex-I Alteration and Enhanced Mitochondrial Fusion Are Associated With Prostate Cancer Progression.

Philley JV, Kannan A, Qin W, Sauter ER, Ikebe M, Hertweck KL, Troyer DA, Semmes OJ, Dasgupta S.

J Cell Physiol. 2016 Jun;231(6):1364-74. doi: 10.1002/jcp.25240. Epub 2015 Nov 24.


Dysregulated expression of cell surface glycoprotein CDCP1 in prostate cancer.

Yang L, Dutta SM, Troyer DA, Lin JB, Lance RA, Nyalwidhe JO, Drake RR, Semmes OJ.

Oncotarget. 2015 Dec 22;6(41):43743-58. doi: 10.18632/oncotarget.6193.


A proteomics approach to identifying key protein targets involved in VEGF inhibitor mediated attenuation of bleomycin-induced pulmonary fibrosis.

Kulkarni YM, Dutta S, Iyer AK, Venkatadri R, Kaushik V, Ramesh V, Wright CA, Semmes OJ, Yakisich JS, Azad N.

Proteomics. 2016 Jan;16(1):33-46. doi: 10.1002/pmic.201500171. Epub 2015 Nov 24.


HTLV-1 Tax Stimulates Ubiquitin E3 Ligase, Ring Finger Protein 8, to Assemble Lysine 63-Linked Polyubiquitin Chains for TAK1 and IKK Activation.

Ho YK, Zhi H, Bowlin T, Dorjbal B, Philip S, Zahoor MA, Shih HM, Semmes OJ, Schaefer B, Glover JN, Giam CZ.

PLoS Pathog. 2015 Aug 18;11(8):e1005102. doi: 10.1371/journal.ppat.1005102. eCollection 2015 Aug.


MDA-9/Syntenin regulates differentiation and angiogenesis programs in head and neck squamous cell carcinoma.

Oyesanya RA, Bhatia S, Menezes ME, Dumur CI, Singh KP, Bae S, Troyer DA, Wells RB, Sauter ER, Sidransky D, Fisher PB, Semmes OJ, Dasgupta S.

Oncoscience. 2014 Sep 18;1(11):725-737. eCollection 2014.


The Tudor domain protein Spindlin1 is involved in intrinsic antiviral defense against incoming hepatitis B Virus and herpes simplex virus type 1.

Ducroux A, Benhenda S, Rivière L, Semmes OJ, Benkirane M, Neuveut C.

PLoS Pathog. 2014 Sep 11;10(9):e1004343. doi: 10.1371/journal.ppat.1004343. eCollection 2014 Sep.


Histone deacetylase inhibitors potentiate vesicular stomatitis virus oncolysis in prostate cancer cells by modulating NF-κB-dependent autophagy.

Shulak L, Beljanski V, Chiang C, Dutta SM, Van Grevenynghe J, Belgnaoui SM, Nguyên TL, Di Lenardo T, Semmes OJ, Lin R, Hiscott J.

J Virol. 2014 Mar;88(5):2927-40. doi: 10.1128/JVI.03406-13. Epub 2013 Dec 26.


miR-888 is an expressed prostatic secretions-derived microRNA that promotes prostate cell growth and migration.

Lewis H, Lance R, Troyer D, Beydoun H, Hadley M, Orians J, Benzine T, Madric K, Semmes OJ, Drake R, Esquela-Kerscher A.

Cell Cycle. 2014;13(2):227-39. doi: 10.4161/cc.26984. Epub 2013 Nov 7.


Restriction of virus infection but not catalytic dNTPase activity is regulated by phosphorylation of SAMHD1.

Welbourn S, Dutta SM, Semmes OJ, Strebel K.

J Virol. 2013 Nov;87(21):11516-24. doi: 10.1128/JVI.01642-13. Epub 2013 Aug 21.


Focus on cancer proteomics.

Semmes OJ, Conrads T.

Proteomics Clin Appl. 2013 Jun;7(5-6):315. doi: 10.1002/prca.201370034. No abstract available.


Increased bisecting N-acetylglucosamine and decreased branched chain glycans of N-linked glycoproteins in expressed prostatic secretions associated with prostate cancer progression.

Nyalwidhe JO, Betesh LR, Powers TW, Jones EE, White KY, Burch TC, Brooks J, Watson MT, Lance RS, Troyer DA, Semmes OJ, Mehta A, Drake RR.

Proteomics Clin Appl. 2013 Oct;7(9-10):677-89. doi: 10.1002/prca.201200134. Epub 2013 Sep 13.


In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine.

Principe S, Jones EE, Kim Y, Sinha A, Nyalwidhe JO, Brooks J, Semmes OJ, Troyer DA, Lance RS, Kislinger T, Drake RR.

Proteomics. 2013 May;13(10-11):1667-1671. doi: 10.1002/pmic.201200561. Epub 2013 Apr 23.


Methyltransferase PRMT1 is a binding partner of HBx and a negative regulator of hepatitis B virus transcription.

Benhenda S, Ducroux A, Rivière L, Sobhian B, Ward MD, Dion S, Hantz O, Protzer U, Michel ML, Benkirane M, Semmes OJ, Buendia MA, Neuveut C.

J Virol. 2013 Apr;87(8):4360-71. doi: 10.1128/JVI.02574-12. Epub 2013 Feb 6.


The search for biomarkers of human embryo developmental potential in IVF: a comprehensive proteomic approach.

Nyalwidhe J, Burch T, Bocca S, Cazares L, Green-Mitchell S, Cooke M, Birdsall P, Basu G, Semmes OJ, Oehninger S.

Mol Hum Reprod. 2013 Apr;19(4):250-63. doi: 10.1093/molehr/gas063. Epub 2012 Dec 17.


NADiA ProsVue prostate-specific antigen slope is an independent prognostic marker for identifying men at reduced risk of clinical recurrence of prostate cancer after radical prostatectomy.

Moul JW, Lilja H, Semmes OJ, Lance RS, Vessella RL, Fleisher M, Mazzola C, Sarno MJ, Stevens B, Klem RE, McDermed JE, Triebell MT, Adams TH.

Urology. 2012 Dec;80(6):1319-25. doi: 10.1016/j.urology.2012.06.080. Epub 2012 Oct 26.


Identification of differentially expressed proteins in direct expressed prostatic secretions of men with organ-confined versus extracapsular prostate cancer.

Kim Y, Ignatchenko V, Yao CQ, Kalatskaya I, Nyalwidhe JO, Lance RS, Gramolini AO, Troyer DA, Stein LD, Boutros PC, Medin JA, Semmes OJ, Drake RR, Kislinger T.

Mol Cell Proteomics. 2012 Dec;11(12):1870-84. doi: 10.1074/mcp.M112.017889. Epub 2012 Sep 17.


Proteomic and pathway analyses reveal a network of inflammatory genes associated with differences in skin tumor promotion susceptibility in DBA/2 and C57BL/6 mice.

Shen J, Abel EL, Riggs PK, Repass J, Hensley SC, Schroeder LJ, Temple A, Chau A, McClellan SA, Rho O, Kiguchi K, Ward MD, Semmes OJ, Person MD, Angel JM, Digiovanni J.

Carcinogenesis. 2012 Nov;33(11):2208-19. doi: 10.1093/carcin/bgs213. Epub 2012 Jul 10.


BclAF1 restriction factor is neutralized by proteasomal degradation and microRNA repression during human cytomegalovirus infection.

Lee SH, Kalejta RF, Kerry J, Semmes OJ, O'Connor CM, Khan Z, Garcia BA, Shenk T, Murphy E.

Proc Natl Acad Sci U S A. 2012 Jun 12;109(24):9575-80. doi: 10.1073/pnas.1207496109. Epub 2012 May 29.


Identification of prostate-enriched proteins by in-depth proteomic analyses of expressed prostatic secretions in urine.

Principe S, Kim Y, Fontana S, Ignatchenko V, Nyalwidhe JO, Lance RS, Troyer DA, Alessandro R, Semmes OJ, Kislinger T, Drake RR, Medin JA.

J Proteome Res. 2012 Apr 6;11(4):2386-96. doi: 10.1021/pr2011236. Epub 2012 Feb 29.


Molecular pathology of prostate cancer.

Cazares LH, Drake RR, Esquela-Kirscher A, Lance RS, Semmes OJ, Troyer DA.

Cancer Biomark. 2010;9(1-6):441-59. doi: 10.3233/CBM-2011-0181. Review.


The Sumo-targeted ubiquitin ligase RNF4 regulates the localization and function of the HTLV-1 oncoprotein Tax.

Fryrear KA, Guo X, Kerscher O, Semmes OJ.

Blood. 2012 Feb 2;119(5):1173-81. doi: 10.1182/blood-2011-06-358564. Epub 2011 Nov 21.


Tissue imaging using nanospray desorption electrospray ionization mass spectrometry.

Laskin J, Heath BS, Roach PJ, Cazares L, Semmes OJ.

Anal Chem. 2012 Jan 3;84(1):141-8. doi: 10.1021/ac2021322. Epub 2011 Dec 1.


Functional and physical interaction between the mismatch repair and FA-BRCA pathways.

Williams SA, Wilson JB, Clark AP, Mitson-Salazar A, Tomashevski A, Ananth S, Glazer PM, Semmes OJ, Bale AE, Jones NJ, Kupfer GM.

Hum Mol Genet. 2011 Nov 15;20(22):4395-410. doi: 10.1093/hmg/ddr366. Epub 2011 Aug 24.


Using boronolectin in MALDI-MS imaging for the histological analysis of cancer tissue expressing the sialyl Lewis X antigen.

Dai C, Cazares LH, Wang L, Chu Y, Wang SL, Troyer DA, Semmes OJ, Drake RR, Wang B.

Chem Commun (Camb). 2011 Oct 7;47(37):10338-40. doi: 10.1039/c1cc11814e. Epub 2011 Aug 19.


Improved signal processing and normalization for biomarker protein detection in broad-mass-range TOF mass spectra from clinical samples.

Tracy MB, Cooke WE, Gatlin CL, Cazares LH, Weaver DM, Semmes OJ, Tracy ER, Manos DM, Malyarenko DI.

Proteomics Clin Appl. 2011 Aug;5(7-8):440-7. doi: 10.1002/prca.201000095. Epub 2011 Jul 13.


Direct and specific binding of the UL16 tegument protein of herpes simplex virus to the cytoplasmic tail of glycoprotein E.

Yeh PC, Han J, Chadha P, Meckes DG Jr, Ward MD, Semmes OJ, Wills JW.

J Virol. 2011 Sep;85(18):9425-36. doi: 10.1128/JVI.05178-11. Epub 2011 Jul 6.


A proteomic study of TAR-RNA binding protein (TRBP)-associated factors.

Chi YH, Semmes OJ, Jeang KT.

Cell Biosci. 2011 Feb 25;1(1):9. doi: 10.1186/2045-3701-1-9.


Human endogenous retrovirus transcription profiles of the kidney and kidney-derived cell lines.

Haupt S, Tisdale M, Vincendeau M, Clements MA, Gauthier DT, Lance R, Semmes OJ, Turqueti-Neves A, Noessner E, Leib-Mösch C, Greenwood AD.

J Gen Virol. 2011 Oct;92(Pt 10):2356-66. doi: 10.1099/vir.0.031518-0. Epub 2011 Jun 22.


On-tissue identification of insulin: in situ reduction coupled with mass spectrometry imaging.

Green-Mitchell SM, Cazares LH, Semmes OJ, Nadler JL, Nyalwidhe JO.

Proteomics Clin Appl. 2011 Aug;5(7-8):448-53. doi: 10.1002/prca.201000152. Epub 2011 Jun 8.


MALDI tissue imaging: from biomarker discovery to clinical applications.

Cazares LH, Troyer DA, Wang B, Drake RR, Semmes OJ.

Anal Bioanal Chem. 2011 Jul;401(1):17-27. doi: 10.1007/s00216-011-5003-6. Epub 2011 May 4. Review.


Targeted identification of metastasis-associated cell-surface sialoglycoproteins in prostate cancer.

Yang L, Nyalwidhe JO, Guo S, Drake RR, Semmes OJ.

Mol Cell Proteomics. 2011 Jun;10(6):M110.007294. doi: 10.1074/mcp.M110.007294. Epub 2011 Mar 29.


Challenges to developing proteomic-based breast cancer diagnostics.

Drake RR, Cazares LH, Jones EE, Fuller TW, Semmes OJ, Laronga C.

OMICS. 2011 May;15(5):251-9. doi: 10.1089/omi.2010.0120. Epub 2011 Feb 19. Review.


Enhancement in MALDI-TOF MS analysis of the low molecular weight human serum proteome.

Gatlin CL, White KY, Tracy MB, Wilkins CE, Semmes OJ, Nyalwidhe JO, Drake RR, Malyarenko DI.

J Mass Spectrom. 2011 Jan;46(1):85-9. doi: 10.1002/jms.1864. No abstract available.


Investigation of sialylation aberration in N-linked glycopeptides by lectin and tandem labeling (LTL) quantitative proteomics.

Shetty V, Nickens Z, Shah P, Sinnathamby G, Semmes OJ, Philip R.

Anal Chem. 2010 Nov 15;82(22):9201-10. doi: 10.1021/ac101486d. Epub 2010 Oct 5.


Recommendations for biomarker identification and qualification in clinical proteomics.

Mischak H, Allmaier G, Apweiler R, Attwood T, Baumann M, Benigni A, Bennett SE, Bischoff R, Bongcam-Rudloff E, Capasso G, Coon JJ, D'Haese P, Dominiczak AF, Dakna M, Dihazi H, Ehrich JH, Fernandez-Llama P, Fliser D, Frokiaer J, Garin J, Girolami M, Hancock WS, Haubitz M, Hochstrasser D, Holman RR, Ioannidis JP, Jankowski J, Julian BA, Klein JB, Kolch W, Luider T, Massy Z, Mattes WB, Molina F, Monsarrat B, Novak J, Peter K, Rossing P, Sánchez-Carbayo M, Schanstra JP, Semmes OJ, Spasovski G, Theodorescu D, Thongboonkerd V, Vanholder R, Veenstra TD, Weissinger E, Yamamoto T, Vlahou A.

Sci Transl Med. 2010 Aug 25;2(46):46ps42. doi: 10.1126/scitranslmed.3001249.


The viral oncoprotein tax sequesters DNA damage response factors by tethering MDC1 to chromatin.

Belgnaoui SM, Fryrear KA, Nyalwidhe JO, Guo X, Semmes OJ.

J Biol Chem. 2010 Oct 22;285(43):32897-905. doi: 10.1074/jbc.M110.146373. Epub 2010 Aug 20.


Interdependent phosphorylation within the kinase domain T-loop Regulates CHK2 activity.

Guo X, Ward MD, Tiedebohl JB, Oden YM, Nyalwidhe JO, Semmes OJ.

J Biol Chem. 2010 Oct 22;285(43):33348-57. doi: 10.1074/jbc.M110.149609. Epub 2010 Aug 16.


Purification of FANCD2 sub-complexes.

Zhi G, Chen X, Newcomb W, Brown J, Semmes OJ, Kupfer GM.

Br J Haematol. 2010 Jul;150(1):88-92. doi: 10.1111/j.1365-2141.2010.08217.x. Epub 2010 Apr 29.


A Bayesian network approach to feature selection in mass spectrometry data.

Kuschner KW, Malyarenko DI, Cooke WE, Cazares LH, Semmes OJ, Tracy ER.

BMC Bioinformatics. 2010 Apr 8;11:177. doi: 10.1186/1471-2105-11-177.


In-depth proteomic analyses of direct expressed prostatic secretions.

Drake RR, Elschenbroich S, Lopez-Perez O, Kim Y, Ignatchenko V, Ignatchenko A, Nyalwidhe JO, Basu G, Wilkins CE, Gjurich B, Lance RS, Semmes OJ, Medin JA, Kislinger T.

J Proteome Res. 2010 May 7;9(5):2109-16. doi: 10.1021/pr1001498.


Interaction domains of the UL16 and UL21 tegument proteins of herpes simplex virus.

Harper AL, Meckes DG Jr, Marsh JA, Ward MD, Yeh PC, Baird NL, Wilson CB, Semmes OJ, Wills JW.

J Virol. 2010 Mar;84(6):2963-71. doi: 10.1128/JVI.02015-09. Epub 2009 Dec 30.


Phosphorylation regulates human T-cell leukemia virus type 1 Rex function.

Kesic M, Doueiri R, Ward M, Semmes OJ, Green PL.

Retrovirology. 2009 Nov 17;6:105. doi: 10.1186/1742-4690-6-105.


Imaging mass spectrometry of a specific fragment of mitogen-activated protein kinase/extracellular signal-regulated kinase kinase kinase 2 discriminates cancer from uninvolved prostate tissue.

Cazares LH, Troyer D, Mendrinos S, Lance RA, Nyalwidhe JO, Beydoun HA, Clements MA, Drake RR, Semmes OJ.

Clin Cancer Res. 2009 Sep 1;15(17):5541-51. doi: 10.1158/1078-0432.CCR-08-2892. Epub 2009 Aug 18.


Proteomic expression profiling and identification of serum proteins using immobilized trypsin beads with MALDI-TOF/TOF.

Karbassi ID, Nyalwidhe JO, Wilkins CE, Cazares LH, Lance RS, Semmes OJ, Drake RR.

J Proteome Res. 2009 Sep;8(9):4182-92. doi: 10.1021/pr800836c.


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