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Items: 36

1.

Proteomic Insights into Phycobilisome Degradation, A Selective and Tightly Controlled Process in The Fast-Growing Cyanobacterium Synechococcus elongatus UTEX 2973.

Nagarajan A, Zhou M, Nguyen AY, Liberton M, Kedia K, Shi T, Piehowski P, Shukla A, Fillmore TL, Nicora C, Smith RD, Koppenaal DW, Jacobs JM, Pakrasi HB.

Biomolecules. 2019 Aug 16;9(8). pii: E374. doi: 10.3390/biom9080374.

2.

Automated Nanoflow Two-Dimensional Reversed-Phase Liquid Chromatography System Enables In-Depth Proteome and Phosphoproteome Profiling of Nanoscale Samples.

Dou M, Tsai CF, Piehowski PD, Wang Y, Fillmore TL, Zhao R, Moore RJ, Zhang P, Qian WJ, Smith RD, Liu T, Kelly RT, Shi T, Zhu Y.

Anal Chem. 2019 Aug 6;91(15):9707-9715. doi: 10.1021/acs.analchem.9b01248. Epub 2019 Jul 9.

3.

A Targeted Mass Spectrometric Assay for Reliable Sensitive Hepcidin Quantification.

Moghieb A, Tesfay L, Nie S, Gritsenko M, Fillmore TL, Jacobs JM, Smith RD, Torti FM, Torti SV, Shi T, Ansong C.

Sci Rep. 2019 May 13;9(1):7264. doi: 10.1038/s41598-019-43756-9.

4.

Carrier-Assisted Single-Tube Processing Approach for Targeted Proteomics Analysis of Low Numbers of Mammalian Cells.

Zhang P, Gaffrey MJ, Zhu Y, Chrisler WB, Fillmore TL, Yi L, Nicora CD, Zhang T, Wu H, Jacobs J, Tang K, Kagan J, Srivastava S, Rodland KD, Qian WJ, Smith RD, Liu T, Wiley HS, Shi T.

Anal Chem. 2019 Jan 15;91(2):1441-1451. doi: 10.1021/acs.analchem.8b04258. Epub 2018 Dec 28.

5.

Rapidly Assessing the Quality of Targeted Proteomics Experiments through Monitoring Stable-Isotope Labeled Standards.

Gibbons BC, Fillmore TL, Gao Y, Moore RJ, Liu T, Nakayasu ES, Metz TO, Payne SH.

J Proteome Res. 2019 Feb 1;18(2):694-699. doi: 10.1021/acs.jproteome.8b00688. Epub 2018 Dec 19.

6.

Facile carrier-assisted targeted mass spectrometric approach for proteomic analysis of low numbers of mammalian cells.

Shi T, Gaffrey MJ, Fillmore TL, Nicora CD, Yi L, Zhang P, Shukla AK, Wiley HS, Rodland KD, Liu T, Smith RD, Qian WJ.

Commun Biol. 2018 Aug 6;1:103. doi: 10.1038/s42003-018-0107-6. eCollection 2018.

7.

Increasing the Separation Capacity of Intact Histone Proteoforms Chromatography Coupling Online Weak Cation Exchange-HILIC to Reversed Phase LC UVPD-HRMS.

Gargano AFG, Shaw JB, Zhou M, Wilkins CS, Fillmore TL, Moore RJ, Somsen GW, Paša-Tolić L.

J Proteome Res. 2018 Nov 2;17(11):3791-3800. doi: 10.1021/acs.jproteome.8b00458. Epub 2018 Oct 8.

8.

Residual tissue repositories as a resource for population-based cancer proteomic studies.

Piehowski PD, Petyuk VA, Sontag RL, Gritsenko MA, Weitz KK, Fillmore TL, Moon J, Makhlouf H, Chuaqui RF, Boja ES, Rodriguez H, Lee JSH, Smith RD, Carrick DM, Liu T, Rodland KD.

Clin Proteomics. 2018 Aug 3;15:26. doi: 10.1186/s12014-018-9202-4. eCollection 2018.

9.

Targeted brain proteomics uncover multiple pathways to Alzheimer's dementia.

Yu L, Petyuk VA, Gaiteri C, Mostafavi S, Young-Pearse T, Shah RC, Buchman AS, Schneider JA, Piehowski PD, Sontag RL, Fillmore TL, Shi T, Smith RD, De Jager PL, Bennett DA.

Ann Neurol. 2018 Jul;84(1):78-88. doi: 10.1002/ana.25266. Epub 2018 Jul 3.

10.

Targeted Quantification of Phosphorylation Dynamics in the Context of EGFR-MAPK Pathway.

Yi L, Shi T, Gritsenko MA, X'avia Chan CY, Fillmore TL, Hess BM, Swensen AC, Liu T, Smith RD, Wiley HS, Qian WJ.

Anal Chem. 2018 Apr 17;90(8):5256-5263. doi: 10.1021/acs.analchem.8b00071. Epub 2018 Apr 3.

11.

Multiplexed targeted mass spectrometry assays for prostate cancer-associated urinary proteins.

Shi T, Quek SI, Gao Y, Nicora CD, Nie S, Fillmore TL, Liu T, Rodland KD, Smith RD, Leach RJ, Thompson IM, Vitello EA, Ellis WJ, Liu AY, Qian WJ.

Oncotarget. 2017 Oct 9;8(60):101887-101898. doi: 10.18632/oncotarget.21710. eCollection 2017 Nov 24.

12.

A Customizable Flow Injection System for Automated, High Throughput, and Time Sensitive Ion Mobility Spectrometry and Mass Spectrometry Measurements.

Orton DJ, Tfaily MM, Moore RJ, LaMarche BL, Zheng X, Fillmore TL, Chu RK, Weitz KK, Monroe ME, Kelly RT, Smith RD, Baker ES.

Anal Chem. 2018 Jan 2;90(1):737-744. doi: 10.1021/acs.analchem.7b02986. Epub 2017 Dec 13.

13.

Quantification of mutant SPOP proteins in prostate cancer using mass spectrometry-based targeted proteomics.

Wang H, Barbieri CE, He J, Gao Y, Shi T, Wu C, Schepmoes AA, Fillmore TL, Chae SS, Huang D, Mosquera JM, Qian WJ, Smith RD, Srivastava S, Kagan J, Camp DG 2nd, Rodland KD, Rubin MA, Liu T.

J Transl Med. 2017 Aug 15;15(1):175. doi: 10.1186/s12967-017-1276-7.

14.

Deep-Dive Targeted Quantification for Ultrasensitive Analysis of Proteins in Nondepleted Human Blood Plasma/Serum and Tissues.

Nie S, Shi T, Fillmore TL, Schepmoes AA, Brewer H, Gao Y, Song E, Wang H, Rodland KD, Qian WJ, Smith RD, Liu T.

Anal Chem. 2017 Sep 5;89(17):9139-9146. doi: 10.1021/acs.analchem.7b01878. Epub 2017 Aug 11.

15.

Targeted proteomic assays for quantitation of proteins identified by proteogenomic analysis of ovarian cancer.

Song E, Gao Y, Wu C, Shi T, Nie S, Fillmore TL, Schepmoes AA, Gritsenko MA, Qian WJ, Smith RD, Rodland KD, Liu T.

Sci Data. 2017 Jul 19;4:170091. doi: 10.1038/sdata.2017.91.

16.

Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica.

Kerkhoven EJ, Kim YM, Wei S, Nicora CD, Fillmore TL, Purvine SO, Webb-Robertson BJ, Smith RD, Baker SE, Metz TO, Nielsen J.

MBio. 2017 Jun 20;8(3). pii: e00857-17. doi: 10.1128/mBio.00857-17.

17.

Effects of delayed NSAID administration after experimental eccentric contraction injury - A cellular and proteomics study.

Bryant AE, Aldape MJ, Bayer CR, Katahira EJ, Bond L, Nicora CD, Fillmore TL, Clauss TR, Metz TO, Webb-Robertson BJ, Stevens DL.

PLoS One. 2017 Feb 28;12(2):e0172486. doi: 10.1371/journal.pone.0172486. eCollection 2017.

18.

Mining the human urine proteome for monitoring renal transplant injury.

Sigdel TK, Gao Y, He J, Wang A, Nicora CD, Fillmore TL, Shi T, Webb-Robertson BJ, Smith RD, Qian WJ, Salvatierra O, Camp DG 2nd, Sarwal MM.

Kidney Int. 2016 Jun;89(6):1244-52. doi: 10.1016/j.kint.2015.12.049. Epub 2016 Mar 4.

19.
20.

Orthogonal Injection Ion Funnel Interface Providing Enhanced Performance for Selected Reaction Monitoring-Triple Quadrupole Mass Spectrometry.

Chen TC, Fillmore TL, Prost SA, Moore RJ, Ibrahim YM, Smith RD.

Anal Chem. 2015 Jul 21;87(14):7326-31. doi: 10.1021/acs.analchem.5b01482. Epub 2015 Jul 8.

21.

Proteomic analysis reveals down-regulation of surfactant protein B in murine type II pneumocytes infected with influenza A virus.

Kebaabetswe LP, Haick AK, Gritsenko MA, Fillmore TL, Chu RK, Purvine SO, Webb-Robertson BJ, Matzke MM, Smith RD, Waters KM, Metz TO, Miura TA.

Virology. 2015 Sep;483:96-107. doi: 10.1016/j.virol.2015.03.045. Epub 2015 May 15.

22.

Analytical platform evaluation for quantification of ERG in prostate cancer using protein and mRNA detection methods.

He J, Schepmoes AA, Shi T, Wu C, Fillmore TL, Gao Y, Smith RD, Qian WJ, Rodland KD, Liu T, Camp DG 2nd, Rastogi A, Tan SH, Yan W, Mohamed AA, Huang W, Banerjee S, Kagan J, Srivastava S, McLeod DG, Srivastava S, Petrovics G, Dobi A, Srinivasan A.

J Transl Med. 2015 Feb 12;13:54. doi: 10.1186/s12967-015-0418-z.

23.

Sensitive targeted quantification of ERK phosphorylation dynamics and stoichiometry in human cells without affinity enrichment.

Shi T, Gao Y, Gaffrey MJ, Nicora CD, Fillmore TL, Chrisler WB, Gritsenko MA, Wu C, He J, Bloodsworth KJ, Zhao R, Camp DG 2nd, Liu T, Rodland KD, Smith RD, Wiley HS, Qian WJ.

Anal Chem. 2015 Jan 20;87(2):1103-10. doi: 10.1021/ac503797x. Epub 2014 Dec 31.

24.

Comprehensive quantitative analysis of ovarian and breast cancer tumor peptidomes.

Xu Z, Wu C, Xie F, Slysz GW, Tolic N, Monroe ME, Petyuk VA, Payne SH, Fujimoto GM, Moore RJ, Fillmore TL, Schepmoes AA, Levine DA, Townsend RR, Davies SR, Li S, Ellis M, Boja E, Rivers R, Rodriguez H, Rodland KD, Liu T, Smith RD.

J Proteome Res. 2015 Jan 2;14(1):422-33. doi: 10.1021/pr500840w. Epub 2014 Nov 10.

25.

Antibody-independent targeted quantification of TMPRSS2-ERG fusion protein products in prostate cancer.

He J, Sun X, Shi T, Schepmoes AA, Fillmore TL, Petyuk VA, Xie F, Zhao R, Gritsenko MA, Yang F, Kitabayashi N, Chae SS, Rubin MA, Siddiqui J, Wei JT, Chinnaiyan AM, Qian WJ, Smith RD, Kagan J, Srivastava S, Rodland KD, Liu T, Camp DG 2nd.

Mol Oncol. 2014 Oct;8(7):1169-80. doi: 10.1016/j.molonc.2014.02.004. Epub 2014 Feb 21.

26.

Microscale depletion of high abundance proteins in human biofluids using IgY14 immunoaffinity resin: analysis of human plasma and cerebrospinal fluid.

Hyung SW, Piehowski PD, Moore RJ, Orton DJ, Schepmoes AA, Clauss TR, Chu RK, Fillmore TL, Brewer H, Liu T, Zhao R, Smith RD.

Anal Bioanal Chem. 2014 Nov;406(28):7117-25. doi: 10.1007/s00216-014-8058-3. Epub 2014 Sep 6.

27.

Expediting SRM assay development for large-scale targeted proteomics experiments.

Wu C, Shi T, Brown JN, He J, Gao Y, Fillmore TL, Shukla AK, Moore RJ, Camp DG 2nd, Rodland KD, Qian WJ, Liu T, Smith RD.

J Proteome Res. 2014 Oct 3;13(10):4479-87. doi: 10.1021/pr500500d. Epub 2014 Sep 4.

28.

GlyQ-IQ: glycomics quintavariate-informed quantification with high-performance computing and GlycoGrid 4D visualization.

Kronewitter SR, Slysz GW, Marginean I, Hagler CD, LaMarche BL, Zhao R, Harris MY, Monroe ME, Polyukh CA, Crowell KL, Fillmore TL, Carlson TS, Camp DG 2nd, Moore RJ, Payne SH, Anderson GA, Smith RD.

Anal Chem. 2014 Jul 1;86(13):6268-76. doi: 10.1021/ac501492f. Epub 2014 Jun 13.

29.

A highly sensitive targeted mass spectrometric assay for quantification of AGR2 protein in human urine and serum.

Shi T, Gao Y, Quek SI, Fillmore TL, Nicora CD, Su D, Zhao R, Kagan J, Srivastava S, Rodland KD, Liu T, Smith RD, Chan DW, Camp DG 2nd, Liu AY, Qian WJ.

J Proteome Res. 2014 Feb 7;13(2):875-82. doi: 10.1021/pr400912c. Epub 2013 Dec 3.

30.

Long-gradient separations coupled with selected reaction monitoring for highly sensitive, large scale targeted protein quantification in a single analysis.

Shi T, Fillmore TL, Gao Y, Zhao R, He J, Schepmoes AA, Nicora CD, Wu C, Chambers JL, Moore RJ, Kagan J, Srivastava S, Liu AY, Rodland KD, Liu T, Camp DG 2nd, Smith RD, Qian WJ.

Anal Chem. 2013 Oct 1;85(19):9196-203. doi: 10.1021/ac402105s. Epub 2013 Sep 19.

31.

Targeted quantification of low ng/mL level proteins in human serum without immunoaffinity depletion.

Shi T, Sun X, Gao Y, Fillmore TL, Schepmoes AA, Zhao R, He J, Moore RJ, Kagan J, Rodland KD, Liu T, Liu AY, Smith RD, Tang K, Camp DG 2nd, Qian WJ.

J Proteome Res. 2013 Jul 5;12(7):3353-61. doi: 10.1021/pr400178v. Epub 2013 Jun 13.

32.

Serum proteomics reveals systemic dysregulation of innate immunity in type 1 diabetes.

Zhang Q, Fillmore TL, Schepmoes AA, Clauss TR, Gritsenko MA, Mueller PW, Rewers M, Atkinson MA, Smith RD, Metz TO.

J Exp Med. 2013 Jan 14;210(1):191-203. doi: 10.1084/jem.20111843. Epub 2012 Dec 31.

33.

Antibody-free, targeted mass-spectrometric approach for quantification of proteins at low picogram per milliliter levels in human plasma/serum.

Shi T, Fillmore TL, Sun X, Zhao R, Schepmoes AA, Hossain M, Xie F, Wu S, Kim JS, Jones N, Moore RJ, Pasa-Tolić L, Kagan J, Rodland KD, Liu T, Tang K, Camp DG 2nd, Smith RD, Qian WJ.

Proc Natl Acad Sci U S A. 2012 Sep 18;109(38):15395-400. Epub 2012 Sep 4.

34.

Analysis of serum total and free PSA using immunoaffinity depletion coupled to SRM: correlation with clinical immunoassay tests.

Liu T, Hossain M, Schepmoes AA, Fillmore TL, Sokoll LJ, Kronewitter SR, Izmirlian G, Shi T, Qian WJ, Leach RJ, Thompson IM, Chan DW, Smith RD, Kagan J, Srivastava S, Rodland KD, Camp DG 2nd.

J Proteomics. 2012 Aug 3;75(15):4747-57. doi: 10.1016/j.jprot.2012.01.035. Epub 2012 Feb 13.

35.

A reversed-phase capillary ultra-performance liquid chromatography-mass spectrometry (UPLC-MS) method for comprehensive top-down/bottom-up lipid profiling.

Gao X, Zhang Q, Meng D, Isaac G, Zhao R, Fillmore TL, Chu RK, Zhou J, Tang K, Hu Z, Moore RJ, Smith RD, Katze MG, Metz TO.

Anal Bioanal Chem. 2012 Mar;402(9):2923-33. doi: 10.1007/s00216-012-5773-5. Epub 2012 Feb 23.

36.

18O-labeled proteome reference as global internal standards for targeted quantification by selected reaction monitoring-mass spectrometry.

Kim JS, Fillmore TL, Liu T, Robinson E, Hossain M, Champion BL, Moore RJ, Camp DG 2nd, Smith RD, Qian WJ.

Mol Cell Proteomics. 2011 Dec;10(12):M110.007302. doi: 10.1074/mcp.M110.007302. Epub 2011 Oct 11.

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