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Items: 46

1.

Increased β-cell proliferation before immune cell invasion prevents progression of type 1 diabetes.

Dirice E, Kahraman S, De Jesus DF, El Ouaamari A, Basile G, Baker RL, Yigit B, Piehowski PD, Kim MJ, Dwyer AJ, Ng RWS, Schuster C, Vethe H, Martinov T, Ishikawa Y, Teo AKK, Smith RD, Hu J, Haskins K, Serwold T, Qian WJ, Fife BT, Kissler S, Kulkarni RN.

Nat Metab. 2019 May;1(5):509-518. doi: 10.1038/s42255-019-0061-8. Epub 2019 May 6.

PMID:
31423480
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.

An Integrative Analysis of Tumor Proteomic and Phosphoproteomic Profiles to Examine the Relationships Between Kinase Activity and Phosphorylation.

Arshad OA, Danna V, Petyuk VA, Piehowski PD, Liu T, Rodland KD, McDermott JE.

Mol Cell Proteomics. 2019 Aug 9;18(8 suppl 1):S26-S36. doi: 10.1074/mcp.RA119.001540. Epub 2019 Jun 21.

4.

Boosting to Amplify Signal with Isobaric Labeling (BASIL) Strategy for Comprehensive Quantitative Phosphoproteomic Characterization of Small Populations of Cells.

Yi L, Tsai CF, Dirice E, Swensen AC, Chen J, Shi T, Gritsenko MA, Chu RK, Piehowski PD, Smith RD, Rodland KD, Atkinson MA, Mathews CE, Kulkarni RN, Liu T, Qian WJ.

Anal Chem. 2019 May 7;91(9):5794-5801. doi: 10.1021/acs.analchem.9b00024. Epub 2019 Mar 15.

5.

Glomerular filtrate proteins in acute cardiorenal syndrome.

Wakasaki R, Matsushita K, Golgotiu K, Anderson S, Eiwaz MB, Orton DJ, Han SJ, Lee HT, Smith RD, Rodland KD, Piehowski PD, Hutchens MP.

JCI Insight. 2019 Feb 21;4(4). pii: 122130. doi: 10.1172/jci.insight.122130. eCollection 2019 Feb 21.

6.

New mass spectrometry technologies contributing towards comprehensive and high throughput omics analyses of single cells.

Couvillion SP, Zhu Y, Nagy G, Adkins JN, Ansong C, Renslow RS, Piehowski PD, Ibrahim YM, Kelly RT, Metz TO.

Analyst. 2019 Jan 28;144(3):794-807. doi: 10.1039/c8an01574k. Review.

PMID:
30507980
7.

Benchtop-compatible sample processing workflow for proteome profiling of < 100 mammalian cells.

Xu K, Liang Y, Piehowski PD, Dou M, Schwarz KC, Zhao R, Sontag RL, Moore RJ, Zhu Y, Kelly RT.

Anal Bioanal Chem. 2019 Jul;411(19):4587-4596. doi: 10.1007/s00216-018-1493-9. Epub 2018 Nov 20.

PMID:
30460388
8.

Nanoproteomics comes of age.

Zhu Y, Piehowski PD, Kelly RT, Qian WJ.

Expert Rev Proteomics. 2018 Nov;15(11):865-871. doi: 10.1080/14789450.2018.1537787. Epub 2018 Oct 30. Review.

PMID:
30375896
9.

Micropuncture of Bowman's Space in Mice Facilitated by 2 Photon Microscopy.

Matsushita K, Golgotiu K, Orton DJ, Smith RD, Rodland KD, Piehowski PD, Hutchens MP.

J Vis Exp. 2018 Oct 11;(140). doi: 10.3791/58206.

PMID:
30371667
10.

Nanowell-mediated two-dimensional liquid chromatography enables deep proteome profiling of <1000 mammalian cells.

Dou M, Zhu Y, Liyu A, Liang Y, Chen J, Piehowski PD, Xu K, Zhao R, Moore RJ, Atkinson MA, Mathews CE, Qian WJ, Kelly RT.

Chem Sci. 2018 Jul 18;9(34):6944-6951. doi: 10.1039/c8sc02680g. eCollection 2018 Sep 14.

11.

Application of multiplexed ion mobility spectrometry towards the identification of host protein signatures of treatment effect in pulmonary tuberculosis.

Kedia K, Wendler JP, Baker ES, Burnum-Johnson KE, Jarsberg LG, Stratton KG, Wright AT, Piehowski PD, Gritsenko MA, Lewinsohn DM, Sigal GB, Weiner MH, Smith RD, Jacobs JM, Nahid P.

Tuberculosis (Edinb). 2018 Sep;112:52-61. doi: 10.1016/j.tube.2018.07.005. Epub 2018 Jul 18.

12.

The human brainome: network analysis identifies HSPA2 as a novel Alzheimer&rsquo;s disease target.

Petyuk VA, Chang R, Ramirez-Restrepo M, Beckmann ND, Henrion MYR, Piehowski PD, Zhu K, Wang S, Clarke J, Huentelman MJ, Xie F, Andreev V, Engel A, Guettoche T, Navarro L, De Jager P, Schneider JA, Morris CM, McKeith IG, Perry RH, Lovestone S, Woltjer RL, Beach TG, Sue LI, Serrano GE, Lieberman AP, Albin RL, Ferrer I, Mash DC, Hulette CM, Ervin JF, Reiman EM, Hardy JA, Bennett DA, Schadt E, Smith RD, Myers AJ.

Brain. 2018 Sep 1;141(9):2721-2739. doi: 10.1093/brain/awy215.

13.

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.

14.

Spatially Resolved Proteome Mapping of Laser Capture Microdissected Tissue with Automated Sample Transfer to Nanodroplets.

Zhu Y, Dou M, Piehowski PD, Liang Y, Wang F, Chu RK, Chrisler WB, Smith JN, Schwarz KC, Shen Y, Shukla AK, Moore RJ, Smith RD, Qian WJ, Kelly RT.

Mol Cell Proteomics. 2018 Sep;17(9):1864-1874. doi: 10.1074/mcp.TIR118.000686. Epub 2018 Jun 24.

15.

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.

16.

Author Correction: Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2018 Jul;15(7):554. doi: 10.1038/s41592-018-0040-0.

PMID:
29899368
17.

Quality Control Analysis in Real-time (QC-ART): A Tool for Real-time Quality Control Assessment of Mass Spectrometry-based Proteomics Data.

Stanfill BA, Nakayasu ES, Bramer LM, Thompson AM, Ansong CK, Clauss TR, Gritsenko MA, Monroe ME, Moore RJ, Orton DJ, Piehowski PD, Schepmoes AA, Smith RD, Webb-Robertson BM, Metz TO; TEDDY Study Group.

Mol Cell Proteomics. 2018 Sep;17(9):1824-1836. doi: 10.1074/mcp.RA118.000648. Epub 2018 Apr 17.

18.

Subnanogram proteomics: impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples.

Zhu Y, Zhao R, Piehowski PD, Moore RJ, Lim S, Orphan VJ, Paša-Tolić L, Qian WJ, Smith RD, Kelly RT.

Int J Mass Spectrom. 2018 Apr;427:4-10. doi: 10.1016/j.ijms.2017.08.016. Epub 2017 Sep 1.

19.

Nanodroplet processing platform for deep and quantitative proteome profiling of 10-100 mammalian cells.

Zhu Y, Piehowski PD, Zhao R, Chen J, Shen Y, Moore RJ, Shukla AK, Petyuk VA, Campbell-Thompson M, Mathews CE, Smith RD, Qian WJ, Kelly RT.

Nat Commun. 2018 Feb 28;9(1):882. doi: 10.1038/s41467-018-03367-w.

20.

Plasma Protein Turnover Rates in Rats Using Stable Isotope Labeling, Global Proteomics, and Activity-Based Protein Profiling.

Smith JN, Tyrrell KJ, Hansen JR, Thomas DG, Murphree TA, Shukla A, Luders T, Madden JM, Li Y, Wright AT, Piehowski PD.

Anal Chem. 2017 Dec 19;89(24):13559-13566. doi: 10.1021/acs.analchem.7b03984. Epub 2017 Dec 6.

PMID:
29164873
21.

Quantitative Proteomic Analysis of Mass Limited Tissue Samples for Spatially Resolved Tissue Profiling.

Piehowski PD, Zhao R, Moore RJ, Clair G, Ansong C.

Methods Mol Biol. 2018;1788:269-277. doi: 10.1007/7651_2017_78.

PMID:
28980276
22.

Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2017 Sep;14(9):909-914. doi: 10.1038/nmeth.4388. Epub 2017 Aug 7. Erratum in: Nat Methods. 2018 Jul;15(7):554.

23.

Advances in microscale separations towards nanoproteomics applications.

Yi L, Piehowski PD, Shi T, Smith RD, Qian WJ.

J Chromatogr A. 2017 Nov 10;1523:40-48. doi: 10.1016/j.chroma.2017.07.055. Epub 2017 Jul 21. Review.

24.

A unique deubiquitinase that deconjugates phosphoribosyl-linked protein ubiquitination.

Qiu J, Yu K, Fei X, Liu Y, Nakayasu ES, Piehowski PD, Shaw JB, Puvar K, Das C, Liu X, Luo ZQ.

Cell Res. 2017 Jul;27(7):865-881. doi: 10.1038/cr.2017.66. Epub 2017 May 12.

25.

High-resolution ultrahigh-pressure long column reversed-phase liquid chromatography for top-down proteomics.

Shen Y, Tolić N, Piehowski PD, Shukla AK, Kim S, Zhao R, Qu Y, Robinson E, Smith RD, Paša-Tolić L.

J Chromatogr A. 2017 May 19;1498:99-110. doi: 10.1016/j.chroma.2017.01.008. Epub 2017 Jan 5.

PMID:
28077236
26.

Spatially-Resolved Proteomics: Rapid Quantitative Analysis of Laser Capture Microdissected Alveolar Tissue Samples.

Clair G, Piehowski PD, Nicola T, Kitzmiller JA, Huang EL, Zink EM, Sontag RL, Orton DJ, Moore RJ, Carson JP, Smith RD, Whitsett JA, Corley RA, Ambalavanan N, Ansong C.

Sci Rep. 2016 Dec 22;6:39223. doi: 10.1038/srep39223.

27.

Hypothalamic transcriptomes of 99 mouse strains reveal trans eQTL hotspots, splicing QTLs and novel non-coding genes.

Hasin-Brumshtein Y, Khan AH, Hormozdiari F, Pan C, Parks BW, Petyuk VA, Piehowski PD, Brümmer A, Pellegrini M, Xiao X, Eskin E, Smith RD, Lusis AJ, Smith DJ.

Elife. 2016 Sep 13;5. pii: e15614. doi: 10.7554/eLife.15614.

28.

SNaPP: Simplified Nanoproteomics Platform for Reproducible Global Proteomic Analysis of Nanogram Protein Quantities.

Huang EL, Piehowski PD, Orton DJ, Moore RJ, Qian WJ, Casey CP, Sun X, Dey SK, Burnum-Johnson KE, Smith RD.

Endocrinology. 2016 Mar;157(3):1307-14. doi: 10.1210/en.2015-1821. Epub 2016 Jan 8.

29.

Correction: Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.

Aylward FO, Khadempour L, Tremmel DM, McDonald BR, Nicora CD, Wu S, Moore RJ, Orton DJ, Monroe ME, Piehowski PD, Purvine SO, Smith RD, Lipton MS, Burnum-Johnson KE, Currie CR.

PLoS One. 2015 Sep 23;10(9):e0139151. doi: 10.1371/journal.pone.0139151. eCollection 2015. No abstract available.

30.

Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.

Aylward FO, Khadempour L, Tremmel DM, McDonald BR, Nicora CD, Wu S, Moore RJ, Orton DJ, Monroe ME, Piehowski PD, Purvine SO, Smith RD, Lipton MS, Burnum-Johnson KE, Currie CR.

PLoS One. 2015 Aug 28;10(8):e0134752. doi: 10.1371/journal.pone.0134752. eCollection 2015. Erratum in: PLoS One. 2015;10(9):e0139151.

31.

Muscle Segment Homeobox Genes Direct Embryonic Diapause by Limiting Inflammation in the Uterus.

Cha J, Burnum-Johnson KE, Bartos A, Li Y, Baker ES, Tilton SC, Webb-Robertson BJ, Piehowski PD, Monroe ME, Jegga AG, Murata S, Hirota Y, Dey SK.

J Biol Chem. 2015 Jun 12;290(24):15337-49. doi: 10.1074/jbc.M115.655001. Epub 2015 Apr 30.

32.

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.

33.

Increasing Confidence of LC-MS Identifications by Utilizing Ion Mobility Spectrometry.

Crowell KL, Baker ES, Payne SH, Ibrahim YM, Monroe ME, Slysz GW, LaMarche BL, Petyuk VA, Piehowski PD, Danielson WF 3rd, Anderson GA, Smith RD.

Int J Mass Spectrom. 2013 Nov 15;354-355:312-317.

34.

Advancing the high throughput identification of liver fibrosis protein signatures using multiplexed ion mobility spectrometry.

Baker ES, Burnum-Johnson KE, Jacobs JM, Diamond DL, Brown RN, Ibrahim YM, Orton DJ, Piehowski PD, Purdy DE, Moore RJ, Danielson WF 3rd, Monroe ME, Crowell KL, Slysz GW, Gritsenko MA, Sandoval JD, Lamarche BL, Matzke MM, Webb-Robertson BJ, Simons BC, McMahon BJ, Bhattacharya R, Perkins JD, Carithers RL Jr, Strom S, Self SG, Katze MG, Anderson GA, Smith RD.

Mol Cell Proteomics. 2014 Apr;13(4):1119-27. doi: 10.1074/mcp.M113.034595. Epub 2014 Jan 8.

35.

Deficient expression of aldehyde dehydrogenase 1A1 is consistent with increased sensitivity of Gorlin syndrome patients to radiation carcinogenesis.

Wright AT, Magnaldo T, Sontag RL, Anderson LN, Sadler NC, Piehowski PD, Gache Y, Weber TJ.

Mol Carcinog. 2015 Jun;54(6):473-84. doi: 10.1002/mc.22115. Epub 2013 Nov 27.

36.

Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens.

Aylward FO, Burnum-Johnson KE, Tringe SG, Teiling C, Tremmel DM, Moeller JA, Scott JJ, Barry KW, Piehowski PD, Nicora CD, Malfatti SA, Monroe ME, Purvine SO, Goodwin LA, Smith RD, Weinstock GM, Gerardo NM, Suen G, Lipton MS, Currie CR.

Appl Environ Microbiol. 2013 Jun;79(12):3770-8. doi: 10.1128/AEM.03833-12. Epub 2013 Apr 12.

37.

Sources of technical variability in quantitative LC-MS proteomics: human brain tissue sample analysis.

Piehowski PD, Petyuk VA, Orton DJ, Xie F, Moore RJ, Ramirez-Restrepo M, Engel A, Lieberman AP, Albin RL, Camp DG, Smith RD, Myers AJ.

J Proteome Res. 2013 May 3;12(5):2128-37. doi: 10.1021/pr301146m. Epub 2013 Apr 10.

38.

STEPS: a grid search methodology for optimized peptide identification filtering of MS/MS database search results.

Piehowski PD, Petyuk VA, Sandoval JD, Burnum KE, Kiebel GR, Monroe ME, Anderson GA, Camp DG 2nd, Smith RD.

Proteomics. 2013 Mar;13(5):766-70. doi: 10.1002/pmic.201200096. Epub 2013 Feb 4.

39.

Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens.

Aylward FO, Burnum KE, Scott JJ, Suen G, Tringe SG, Adams SM, Barry KW, Nicora CD, Piehowski PD, Purvine SO, Starrett GJ, Goodwin LA, Smith RD, Lipton MS, Currie CR.

ISME J. 2012 Sep;6(9):1688-701. doi: 10.1038/ismej.2012.10. Epub 2012 Mar 1.

40.

Lipid detection, identification, and imaging single cells with SIMS.

Heien ML, Piehowski PD, Winograd N, Ewing AG.

Methods Mol Biol. 2010;656:85-97. doi: 10.1007/978-1-60761-746-4_4.

PMID:
20680585
41.

Mass spectrometry imaging of mating Tetrahymena show that changes in cell morphology regulate lipid domain formation.

Kurczy ME, Piehowski PD, Van Bell CT, Heien ML, Winograd N, Ewing AG.

Proc Natl Acad Sci U S A. 2010 Feb 16;107(7):2751-6. doi: 10.1073/pnas.0908101107. Epub 2010 Feb 1.

42.

Which is more important in bioimaging SIMS experiments-The sample preparation or the nature of the projectile?

Kurczy ME, Piehowski PD, Parry SA, Jiang M, Chen G, Ewing AG, Winograd N.

Appl Surf Sci. 2008 Dec 15;255(4):1298-1304.

43.

Time-of-flight secondary ion mass spectrometry imaging of subcellular lipid heterogeneity: Poisson counting and spatial resolution.

Piehowski PD, Davey AM, Kurczy ME, Sheets ED, Winograd N, Ewing AG, Heien ML.

Anal Chem. 2009 Jul 15;81(14):5593-602. doi: 10.1021/ac901065s.

44.

Relative Quantification of Cellular Sections with Molecular Depth Profiling ToF-SIMS Imaging.

Kurczy ME, Kozole J, Parry SA, Piehowski PD, Winograd N, Ewing AG.

Appl Surf Sci. 2008;255(4):1158-1161.

45.

MS/MS methodology to improve subcellular mapping of cholesterol using TOF-SIMS.

Piehowski PD, Carado AJ, Kurczy ME, Ostrowski SG, Heien ML, Winograd N, Ewing AG.

Anal Chem. 2008 Nov 15;80(22):8662-7. doi: 10.1021/ac801591r. Epub 2008 Oct 17.

46.

Freeze-etching and vapor matrix deposition for ToF-SIMS imaging of single cells.

Piehowski PD, Kurczy ME, Willingham D, Parry S, Heien ML, Winograd N, Ewing AG.

Langmuir. 2008 Aug 5;24(15):7906-11. doi: 10.1021/la800292e. Epub 2008 Jun 21.

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