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Zhouxin Shen

Title(s)Assistant Professor, Division of Biological Science
SchoolAcademic Aff
Phone858-534-4979
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Clark NM, Shen Z, Briggs SP, Walley JW, Kelley DR. Auxin Induces Widespread Proteome Remodeling in Arabidopsis Seedlings. Proteomics. 2019 Aug 05; e1900199. PMID: 31381813.
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    2. Schreier TB, Umhang M, Lee SK, Lue WL, Shen Z, Silver D, Graf A, Müller A, Eicke S, Stadler M, Seung D, Bischof S, Briggs SP, Kötting O, Moorhead GB, Chen J, Zeeman SC. LIKE SEX4 1 acts as a ß-amylase-binding scaffold on starch granules during starch degradation. Plant Cell. 2019 Jul 02. PMID: 31266901.
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    3. Anderson AA, St Aubin B, Abraham-Juarez MJ, Leiboff S, Shen Z, Briggs SP, Brunkard JO, Hake S. The second site modifier, Sympathy for the ligule, encodes a homolog of Arabidopsis ENHANCED DISEASE RESISTANCE4 and rescues the liguleless narrow maize mutant. Plant Cell. 2019 Jun 19. PMID: 31217219.
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    4. Pu Y, Walley JW, Shen Z, Lang MG, Briggs SP, Estelle M, Kelley DR. Quantitative Early Auxin Root Proteomics Identifies GAUT10, a Galacturonosyltransferase, as a Novel Regulator of Root Meristem Maintenance. Mol Cell Proteomics. 2019 Jun; 18(6):1157-1170. PMID: 30918009.
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    5. Lee DD, Galera-Laporta L, Bialecka-Fornal M, Moon EC, Shen Z, Briggs SP, Garcia-Ojalvo J, Süel GM. Magnesium Flux Modulates Ribosomes to Increase Bacterial Survival. Cell. 2019 Apr 04; 177(2):352-360.e13. PMID: 30853217.
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    6. Hasan MK, Yu J, Widhopf GF, Rassenti LZ, Chen L, Shen Z, Briggs SP, Neuberg DS, Kipps TJ. Wnt5a induces ROR1 to recruit DOCK2 to activate Rac1/2 in chronic lymphocytic leukemia. Blood. 2018 Jul 12; 132(2):170-178. PMID: 29678828.
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    7. Mafu S, Ding Y, Murphy KM, Yaacoobi O, Addison JB, Wang Q, Shen Z, Briggs SP, Bohlmann J, Castro-Falcon G, Hughes CC, Betsiashvili M, Huffaker A, Schmelz EA, Zerbe P. Discovery, Biosynthesis and Stress-Related Accumulation of Dolabradiene-Derived Defenses in Maize. Plant Physiol. 2018 04; 176(4):2677-2690. PMID: 29475898.
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    8. Lacal Romero J, Shen Z, Baumgardner K, Wei J, Briggs SP, Firtel RA. The Dictyostelium GSK3 kinase GlkA coordinates signal relay and chemotaxis in response to growth conditions. Dev Biol. 2018 03 01; 435(1):56-72. PMID: 29355521.
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    9. Walley JW, Shen Z, McReynolds MR, Schmelz EA, Briggs SP. Fungal-induced protein hyperacetylation in maize identified by acetylome profiling. Proc Natl Acad Sci U S A. 2018 01 02; 115(1):210-215. PMID: 29259121.
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    10. Wang JZ, Li B, Xiao Y, Ni Y, Ke H, Yang P, de Souza A, Bjornson M, He X, Shen Z, Balcke GU, Briggs SP, Tissier A, Kliebenstein DJ, Dehesh K. Initiation of ER Body Formation and Indole Glucosinolate Metabolism by the Plastidial Retrograde Signaling Metabolite, MEcPP. Mol Plant. 2017 11 06; 10(11):1400-1416. PMID: 28965830.
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    11. Walley JW, Sartor RC, Shen Z, Schmitz RJ, Wu KJ, Urich MA, Nery JR, Smith LG, Schnable JC, Ecker JR, Briggs SP. Integration of omic networks in a developmental atlas of maize. Science. 2016 Aug 19; 353(6301):814-8. PMID: 27540173.
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    12. Khanna A, Lotfi P, Chavan AJ, Montaño NM, Bolourani P, Weeks G, Shen Z, Briggs SP, Pots H, Van Haastert PJ, Kortholt A, Charest PG. The small GTPases Ras and Rap1 bind to and control TORC2 activity. Sci Rep. 2016 05 13; 6:25823. PMID: 27172998.
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    13. Yu J, Chen L, Cui B, Widhopf GF, Shen Z, Wu R, Zhang L, Zhang S, Briggs SP, Kipps TJ. Wnt5a induces ROR1/ROR2 heterooligomerization to enhance leukemia chemotaxis and proliferation. J Clin Invest. 2016 Feb; 126(2):585-98. PMID: 26690702; PMCID: PMC4731190.
    14. Huang H, Alvarez S, Bindbeutel R, Shen Z, Naldrett MJ, Evans BS, Briggs SP, Hicks LM, Kay SA, Nusinow DA. Identification of Evening Complex Associated Proteins in Arabidopsis by Affinity Purification and Mass Spectrometry. Mol Cell Proteomics. 2016 Jan; 15(1):201-17. PMID: 26545401.
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    15. Pineda G, Shen Z, de Albuquerque CP, Reynoso E, Chen J, Tu CC, Tang W, Briggs S, Zhou H, Wang JY. Proteomics studies of the interactome of RNA polymerase II C-terminal repeated domain. BMC Res Notes. 2015 Oct 29; 8:616. PMID: 26515650; PMCID: PMC4627417.
    16. Nakasaki M, Hwang Y, Xie Y, Kataria S, Gund R, Hajam EY, Samuel R, George R, Danda D, M J P, Nakamura T, Shen Z, Briggs S, Varghese S, Jamora C. The matrix protein Fibulin-5 is at the interface of tissue stiffness and inflammation in fibrosis. Nat Commun. 2015 Oct 15; 6:8574. PMID: 26469761; PMCID: PMC4634219.
    17. Wang XJ, Xu TY, Xia LL, Zhong S, Zhang XH, Zhu ZW, Chen DR, Liu Y, Fan Y, Xu C, Zhang MG, Shen ZJ. Castration impairs erectile organ structure and function by inhibiting autophagy and promoting apoptosis of corpus cavernosum smooth muscle cells in rats. Int Urol Nephrol. 2015 Jul; 47(7):1105-15. PMID: 25997594.
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    18. Walley J, Xiao Y, Wang JZ, Baidoo EE, Keasling JD, Shen Z, Briggs SP, Dehesh K. Plastid-produced interorgannellar stress signal MEcPP potentiates induction of the unfolded protein response in endoplasmic reticulum. Proc Natl Acad Sci U S A. 2015 May 12; 112(19):6212-7. PMID: 25922532; PMCID: PMC4434691.
    19. Marcon C, Malik WA, Walley JW, Shen Z, Paschold A, Smith LG, Piepho HP, Briggs SP, Hochholdinger F. A high-resolution tissue-specific proteome and phosphoproteome atlas of maize primary roots reveals functional gradients along the root axes. Plant Physiol. 2015 May; 168(1):233-46. PMID: 25780097; PMCID: PMC4424028.
    20. Chaudhary R, Atamian HS, Shen Z, Briggs SP, Kaloshian I. Potato aphid salivary proteome: enhanced salivation using resorcinol and identification of aphid phosphoproteins. J Proteome Res. 2015 Apr 03; 14(4):1762-78. PMID: 25722084.
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    21. Xiong J, Todorova D, Su NY, Kim J, Lee PJ, Shen Z, Briggs SP, Xu Y. Stemness factor Sall4 is required for DNA damage response in embryonic stem cells. J Cell Biol. 2015 Mar 02; 208(5):513-20. PMID: 25733712; PMCID: PMC4347641.
    22. Zheng FF, Zhu LM, Nie AF, Li XY, Lin JR, Zhang K, Chen J, Zhou WL, Shen ZJ, Zhu YC, Wang JG, Zhu DL, Gao PJ. Clinical characteristics of somatic mutations in Chinese patients with aldosterone-producing adenoma. Hypertension. 2015 Mar; 65(3):622-8. PMID: 25624344.
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    23. Wang Q, Sun T, Xu J, Shen Z, Briggs SP, Zhou D, Wang L. Response and adaptation of Escherichia coli to suppression of the amber stop codon. Chembiochem. 2014 Aug 18; 15(12):1744-9. PMID: 25044429; PMCID: PMC4156322.
    24. Chaudhary R, Atamian HS, Shen Z, Briggs SP, Kaloshian I. GroEL from the endosymbiont Buchnera aphidicola betrays the aphid by triggering plant defense. Proc Natl Acad Sci U S A. 2014 Jun 17; 111(24):8919-24. PMID: 24927572; PMCID: PMC4066539.
    25. Almenar-Queralt A, Falzone TL, Shen Z, Lillo C, Killian RL, Arreola AS, Niederst ED, Ng KS, Kim SN, Briggs SP, Williams DS, Goldstein LS. UV irradiation accelerates amyloid precursor protein (APP) processing and disrupts APP axonal transport. J Neurosci. 2014 Feb 26; 34(9):3320-39. PMID: 24573290; PMCID: PMC3935090.
    26. Widhopf GF, Cui B, Ghia EM, Chen L, Messer K, Shen Z, Briggs SP, Croce CM, Kipps TJ. ROR1 can interact with TCL1 and enhance leukemogenesis in Eµ-TCL1 transgenic mice. Proc Natl Acad Sci U S A. 2014 Jan 14; 111(2):793-8. PMID: 24379361; PMCID: PMC3896194.
    27. Walley JW, Shen Z, Sartor R, Wu KJ, Osborn J, Smith LG, Briggs SP. Reconstruction of protein networks from an atlas of maize seed proteotypes. Proc Natl Acad Sci U S A. 2013 Dec 03; 110(49):E4808-17. PMID: 24248366; PMCID: PMC3856832.
    28. Castellana NE, Shen Z, He Y, Walley JW, Cassidy CJ, Briggs SP, Bafna V. An automated proteogenomic method uses mass spectrometry to reveal novel genes in Zea mays. Mol Cell Proteomics. 2014 Jan; 13(1):157-67. PMID: 24142994; PMCID: PMC3879611.
    29. Guo Y, Darshi M, Ma Y, Perkins GA, Shen Z, Haushalter KJ, Saito R, Chen A, Lee YS, Patel HH, Briggs SP, Ellisman MH, Olefsky JM, Taylor SS. Quantitative proteomic and functional analysis of liver mitochondria from high fat diet (HFD) diabetic mice. Mol Cell Proteomics. 2013 Dec; 12(12):3744-58. PMID: 24030101; PMCID: PMC3861721.
    30. Facette MR, Shen Z, Björnsdóttir FR, Briggs SP, Smith LG. Parallel proteomic and phosphoproteomic analyses of successive stages of maize leaf development. Plant Cell. 2013 Aug; 25(8):2798-812. PMID: 23933881; PMCID: PMC3784581.
    31. Qiao H, Shen Z, Huang SS, Schmitz RJ, Urich MA, Briggs SP, Ecker JR. Response to perspective: "separation anxiety: an analysis of ethylene-induced cleavage of EIN2". Plant Signal Behav. 2013 Aug; 8(8). PMID: 23733051; PMCID: PMC3999072.
    32. Huffaker A, Pearce G, Veyrat N, Erb M, Turlings TC, Sartor R, Shen Z, Briggs SP, Vaughan MM, Alborn HT, Teal PE, Schmelz EA. Plant elicitor peptides are conserved signals regulating direct and indirect antiherbivore defense. Proc Natl Acad Sci U S A. 2013 Apr 02; 110(14):5707-12. PMID: 23509266; PMCID: PMC3619339.
    33. Zhang X, Facette M, Humphries JA, Shen Z, Park Y, Sutimantanapi D, Sylvester AW, Briggs SP, Smith LG. Identification of PAN2 by quantitative proteomics as a leucine-rich repeat-receptor-like kinase acting upstream of PAN1 to polarize cell division in maize. Plant Cell. 2012 Nov; 24(11):4577-89. PMID: 23175742; PMCID: PMC3531853.
    34. Kölsch V, Shen Z, Lee S, Plak K, Lotfi P, Chang J, Charest PG, Romero JL, Jeon TJ, Kortholt A, Briggs SP, Firtel RA. Daydreamer, a Ras effector and GSK-3 substrate, is important for directional sensing and cell motility. Mol Biol Cell. 2013 Jan; 24(2):100-14. PMID: 23135995; PMCID: PMC3541958.
    35. Liu DY, Tang Q, Xia WM, Wang MW, Wang J, Zhou YF, Yu JS, Chu CL, Zhang CY, Shen ZJ, Zhou WL. [Experience in reducing intraoperative blood loss in radical retropubic prostatectomy]. Zhonghua Nan Ke Xue. 2012 Nov; 18(11):994-8. PMID: 23214249.
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    36. Qiao H, Shen Z, Huang SS, Schmitz RJ, Urich MA, Briggs SP, Ecker JR. Processing and subcellular trafficking of ER-tethered EIN2 control response to ethylene gas. Science. 2012 Oct 19; 338(6105):390-3. PMID: 22936567; PMCID: PMC3523706.
    37. Rasala BA, Lee PA, Shen Z, Briggs SP, Mendez M, Mayfield SP. Robust expression and secretion of Xylanase1 in Chlamydomonas reinhardtii by fusion to a selection gene and processing with the FMDV 2A peptide. PLoS One. 2012; 7(8):e43349. PMID: 22937037; PMCID: PMC3427385.
    38. Jones CS, Luong T, Hannon M, Tran M, Gregory JA, Shen Z, Briggs SP, Mayfield SP. Heterologous expression of the C-terminal antigenic domain of the malaria vaccine candidate Pfs48/45 in the green algae Chlamydomonas reinhardtii. Appl Microbiol Biotechnol. 2013 Mar; 97(5):1987-95. PMID: 22592550.
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    39. Parrish AR, She X, Xiang Z, Coin I, Shen Z, Briggs SP, Dillin A, Wang L. Expanding the genetic code of Caenorhabditis elegans using bacterial aminoacyl-tRNA synthetase/tRNA pairs. ACS Chem Biol. 2012 Jul 20; 7(7):1292-302. PMID: 22554080; PMCID: PMC3401359.
    40. Liu DY, He HC, Wang J, Tang Q, Zhou YF, Wang MW, Chu CL, Zhang CY, Zhu Y, Zhou WL, Shen ZJ. Ureteroscopic lithotripsy using holmium laser for 187 patients with proximal ureteral stones. Chin Med J (Engl). 2012 May; 125(9):1542-6. PMID: 22800818.
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    41. Dost B, Bandeira N, Li X, Shen Z, Briggs SP, Bafna V. Accurate mass spectrometry based protein quantification via shared peptides. J Comput Biol. 2012 Apr; 19(4):337-48. PMID: 22414154; PMCID: PMC3317402.
    42. Teachenor R, Beck K, Wright LY, Shen Z, Briggs SP, Murre C. Biochemical and phosphoproteomic analysis of the helix-loop-helix protein E47. Mol Cell Biol. 2012 May; 32(9):1671-82. PMID: 22354994; PMCID: PMC3347234.
    43. Johnson DB, Xu J, Shen Z, Takimoto JK, Schultz MD, Schmitz RJ, Xiang Z, Ecker JR, Briggs SP, Wang L. RF1 knockout allows ribosomal incorporation of unnatural amino acids at multiple sites. Nat Chem Biol. 2011 Sep 18; 7(11):779-86. PMID: 21926996; PMCID: PMC3201715.
    44. Lacey VK, Parrish AR, Han S, Shen Z, Briggs SP, Ma Y, Wang L. A fluorescent reporter of the phosphorylation status of the substrate protein STAT3. Angew Chem Int Ed Engl. 2011 Sep 05; 50(37):8692-6. PMID: 21805546; PMCID: PMC3197789.
    45. Kicka S, Shen Z, Annesley SJ, Fisher PR, Lee S, Briggs S, Firtel RA. The LRRK2-related Roco kinase Roco2 is regulated by Rab1A and controls the actin cytoskeleton. Mol Biol Cell. 2011 Jul 01; 22(13):2198-211. PMID: 21551065; PMCID: PMC3128523.
    46. Keil JM, Shen Z, Briggs SP, Patrick GN. Regulation of STIM1 and SOCE by the ubiquitin-proteasome system (UPS). PLoS One. 2010 Oct 18; 5(10):e13465. PMID: 20976103; PMCID: PMC2956693.
    47. Moretto-Zita M, Jin H, Shen Z, Zhao T, Briggs SP, Xu Y. Phosphorylation stabilizes Nanog by promoting its interaction with Pin1. Proc Natl Acad Sci U S A. 2010 Jul 27; 107(30):13312-7. PMID: 20622153; PMCID: PMC2922169.
    48. O'Brien RN, Shen Z, Tachikawa K, Lee PA, Briggs SP. Quantitative proteome analysis of pluripotent cells by iTRAQ mass tagging reveals post-transcriptional regulation of proteins required for ES cell self-renewal. Mol Cell Proteomics. 2010 Oct; 9(10):2238-51. PMID: 20513800; PMCID: PMC2953917.
    49. Charest PG, Shen Z, Lakoduk A, Sasaki AT, Briggs SP, Firtel RA. A Ras signaling complex controls the RasC-TORC2 pathway and directed cell migration. Dev Cell. 2010 May 18; 18(5):737-49. PMID: 20493808; PMCID: PMC2893887.
    50. Lee S, Shen Z, Robinson DN, Briggs S, Firtel RA. Involvement of the cytoskeleton in controlling leading-edge function during chemotaxis. Mol Biol Cell. 2010 Jun 01; 21(11):1810-24. PMID: 20375144.
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    51. Garmire LX, Shen Z, Briggs S, Yeo G, Subramaniam S, Glass C. Regulatory network of microRNAs in RAW 264.7 macrophage cells. Conf Proc IEEE Eng Med Biol Soc. 2010; 2010:6198-201. PMID: 21097158.
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    52. Andreyev AY, Shen Z, Guan Z, Ryan A, Fahy E, Subramaniam S, Raetz CR, Briggs S, Dennis EA. Application of proteomic marker ensembles to subcellular organelle identification. Mol Cell Proteomics. 2010 Feb; 9(2):388-402. PMID: 19884172; PMCID: PMC2830848.
    53. Abe N, Almenar-Queralt A, Lillo C, Shen Z, Lozach J, Briggs SP, Williams DS, Goldstein LS, Cavalli V. Sunday driver interacts with two distinct classes of axonal organelles. J Biol Chem. 2009 Dec 11; 284(50):34628-39. PMID: 19801628; PMCID: PMC2787325.
    54. Pan CW, Shen ZJ, Wu TT, Tang XY, Wang M, Sun J, Shao Y. Cell adhesion to fibronectin induces mitomycin C resistance in bladder cancer cells. BJU Int. 2009 Dec; 104(11):1774-9. PMID: 19624598.
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    55. Castellana NE, Payne SH, Shen Z, Stanke M, Bafna V, Briggs SP. Discovery and revision of Arabidopsis genes by proteogenomics. Proc Natl Acad Sci U S A. 2008 Dec 30; 105(52):21034-8. PMID: 19098097.
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    56. Para A, Krischke M, Merlot S, Shen Z, Oberholzer M, Lee S, Briggs S, Firtel RA. Dictyostelium Dock180-related RacGEFs regulate the actin cytoskeleton during cell motility. Mol Biol Cell. 2009 Jan; 20(2):699-707. PMID: 19037099.
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    57. Bellafiore S, Shen Z, Rosso MN, Abad P, Shih P, Briggs SP. Direct identification of the Meloidogyne incognita secretome reveals proteins with host cell reprogramming potential. PLoS Pathog. 2008 Oct; 4(10):e1000192. PMID: 18974830; PMCID: PMC2568823.
    58. Bischof LJ, Kao CY, Los FC, Gonzalez MR, Shen Z, Briggs SP, van der Goot FG, Aroian RV. Activation of the unfolded protein response is required for defenses against bacterial pore-forming toxin in vivo. PLoS Pathog. 2008 Oct; 4(10):e1000176. PMID: 18846208; PMCID: PMC2553261.
    59. Du F, Edwards K, Shen Z, Sun B, De Lozanne A, Briggs S, Firtel RA. Regulation of contractile vacuole formation and activity in Dictyostelium. EMBO J. 2008 Aug 06; 27(15):2064-76. PMID: 18636095; PMCID: PMC2516880.
    60. Frank AM, Bandeira N, Shen Z, Tanner S, Briggs SP, Smith RD, Pevzner PA. Clustering millions of tandem mass spectra. J Proteome Res. 2008 Jan; 7(1):113-22. PMID: 18067247; PMCID: PMC2533155.
    61. Tanner S, Payne SH, Dasari S, Shen Z, Wilmarth PA, David LL, Loomis WF, Briggs SP, Bafna V. Accurate annotation of peptide modifications through unrestrictive database search. J Proteome Res. 2008 Jan; 7(1):170-81. PMID: 18034453.
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    62. Tanner S, Shen Z, Ng J, Florea L, Guigó R, Briggs SP, Bafna V. Improving gene annotation using peptide mass spectrometry. Genome Res. 2007 Feb; 17(2):231-9. PMID: 17189379; PMCID: PMC1781355.
    63. Rasala BA, Orjalo AV, Shen Z, Briggs S, Forbes DJ. ELYS is a dual nucleoporin/kinetochore protein required for nuclear pore assembly and proper cell division. Proc Natl Acad Sci U S A. 2006 Nov 21; 103(47):17801-6. PMID: 17098863; PMCID: PMC1635652.
    64. Shen Z, Want EJ, Chen W, Keating W, Nussbaumer W, Moore R, Gentle TM, Siuzdak G. Sepsis plasma protein profiling with immunodepletion, three-dimensional liquid chromatography tandem mass spectrometry, and spectrum counting. J Proteome Res. 2006 Nov; 5(11):3154-60. PMID: 17081067.
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    65. Go EP, Wikoff WR, Shen Z, O'Maille G, Morita H, Conrads TP, Nordstrom A, Trauger SA, Uritboonthai W, Lucas DA, Chan KC, Veenstra TD, Lewicki H, Oldstone MB, Schneemann A, Siuzdak G. Mass spectrometry reveals specific and global molecular transformations during viral infection. J Proteome Res. 2006 Sep; 5(9):2405-16. PMID: 16944953.
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    66. Orjalo AV, Arnaoutov A, Shen Z, Boyarchuk Y, Zeitlin SG, Fontoura B, Briggs S, Dasso M, Forbes DJ. The Nup107-160 nucleoporin complex is required for correct bipolar spindle assembly. Mol Biol Cell. 2006 Sep; 17(9):3806-18. PMID: 16807356.
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    67. Shen Z, Wang MW, Briggs SP. Use of high-throughput LC-MS/MS proteomics technologies in drug discovery. Drug Discov Today Technol. 2006; 3(3):301-6. PMID: 24980532.
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    68. Shen Z, Thomas JJ, Siuzdak G, Blackledge RD. A case study on forensic polymer analysis by DIOS-MS: the suspect who gave us the SLIP. J Forensic Sci. 2004 Sep; 49(5):1028-35. PMID: 15461106.
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    69. Trauger SA, Go EP, Shen Z, Apon JV, Compton BJ, Bouvier ES, Finn MG, Siuzdak G. High sensitivity and analyte capture with desorption/ionization mass spectrometry on silylated porous silicon. Anal Chem. 2004 Aug 01; 76(15):4484-9. PMID: 15283591.
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    70. Go EP, Shen Z, Harris K, Siuzdak G. Quantitative analysis with desorption/ionization on silicon mass spectrometry using electrospray deposition. Anal Chem. 2003 Oct 15; 75(20):5475-9. PMID: 14710827.
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    71. Go EP, Prenni JE, Wei J, Jones A, Hall SC, Witkowska HE, Shen Z, Siuzdak G. Desorption/ionization on silicon time-of-flight/time-of-flight mass spectrometry. Anal Chem. 2003 May 15; 75(10):2504-6. PMID: 12918997.
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