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Items: 1 to 50 of 75

1.

Discovering and linking public omics data sets using the Omics Discovery Index.

Perez-Riverol Y, Bai M, da Veiga Leprevost F, Squizzato S, Park YM, Haug K, Carroll AJ, Spalding D, Paschall J, Wang M, Del-Toro N, Ternent T, Zhang P, Buso N, Bandeira N, Deutsch EW, Campbell DS, Beavis RC, Salek RM, Sarkans U, Petryszak R, Keays M, Fahy E, Sud M, Subramaniam S, Barbera A, Jiménez RC, Nesvizhskii AI, Sansone SA, Steinbeck C, Lopez R, Vizcaíno JA, Ping P, Hermjakob H.

Nat Biotechnol. 2017 May 9;35(5):406-409. doi: 10.1038/nbt.3790. No abstract available.

2.

Postoperative Rehabilitation After Rotator Cuff Repair: A Web-Based Survey of AANA and AOSSM Members.

Mollison S, Shin JJ, Glogau A, Beavis RC.

Orthop J Sports Med. 2017 Jan 30;5(1):2325967116684775. doi: 10.1177/2325967116684775. eCollection 2017 Jan.

3.

Metrics for the Human Proteome Project 2016: Progress on Identifying and Characterizing the Human Proteome, Including Post-Translational Modifications.

Omenn GS, Lane L, Lundberg EK, Beavis RC, Overall CM, Deutsch EW.

J Proteome Res. 2016 Nov 4;15(11):3951-3960. Epub 2016 Sep 20.

4.

3D HPLC-MS with Reversed-Phase Separation Functionality in All Three Dimensions for Large-Scale Bottom-Up Proteomics and Peptide Retention Data Collection.

Spicer V, Ezzati P, Neustaeter H, Beavis RC, Wilkins JA, Krokhin OV.

Anal Chem. 2016 Mar 1;88(5):2847-55. doi: 10.1021/acs.analchem.5b04567. Epub 2016 Feb 18.

PMID:
26849966
5.

g2pDB: A Database Mapping Protein Post-Translational Modifications to Genomic Coordinates.

Keegan S, Cortens JP, Beavis RC, Fenyö D.

J Proteome Res. 2016 Mar 4;15(3):983-90. doi: 10.1021/acs.jproteome.5b01018. Epub 2016 Feb 18.

PMID:
26842767
6.

Toward an Upgraded Honey Bee (Apis mellifera L.) Genome Annotation Using Proteogenomics.

McAfee A, Harpur BA, Michaud S, Beavis RC, Kent CF, Zayed A, Foster LJ.

J Proteome Res. 2016 Feb 5;15(2):411-21. doi: 10.1021/acs.jproteome.5b00589. Epub 2016 Jan 13.

PMID:
26718741
7.

Selenocysteine: Wherefore Art Thou?

Fenyö D, Beavis RC.

J Proteome Res. 2016 Feb 5;15(2):677-8. doi: 10.1021/acs.jproteome.5b01028. Epub 2015 Dec 22.

PMID:
26680273
8.

Systems Proteomics View of the Endogenous Human Claudin Protein Family.

Liu F, Koval M, Ranganathan S, Fanayan S, Hancock WS, Lundberg EK, Beavis RC, Lane L, Duek P, McQuade L, Kelleher NL, Baker MS.

J Proteome Res. 2016 Feb 5;15(2):339-59. doi: 10.1021/acs.jproteome.5b00769. Epub 2016 Jan 12. Review.

9.

Integrated Proteomic and Genomic Analysis of Gastric Cancer Patient Tissues.

Yan JF, Kim H, Jeong SK, Lee HJ, Sethi MK, Lee LY, Beavis RC, Im H, Snyder MP, Hofree M, Ideker T, Wu SL, Paik YK, Fanayan S, Hancock WS.

J Proteome Res. 2015 Dec 4;14(12):4995-5006. doi: 10.1021/acs.jproteome.5b00827. Epub 2015 Oct 20.

10.

Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification.

Omenn GS, Lane L, Lundberg EK, Beavis RC, Nesvizhskii AI, Deutsch EW.

J Proteome Res. 2015 Sep 4;14(9):3452-60. doi: 10.1021/acs.jproteome.5b00499. Epub 2015 Jul 30.

11.

The GPMDB REST interface.

Fenyö D, Beavis RC.

Bioinformatics. 2015 Jun 15;31(12):2056-8. doi: 10.1093/bioinformatics/btv107. Epub 2015 Feb 19.

PMID:
25697819
12.

Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins.

Lane L, Bairoch A, Beavis RC, Deutsch EW, Gaudet P, Lundberg E, Omenn GS.

J Proteome Res. 2014 Jan 3;13(1):15-20. doi: 10.1021/pr401144x. Epub 2013 Dec 23.

13.

Genome wide proteomics of ERBB2 and EGFR and other oncogenic pathways in inflammatory breast cancer.

Zhang EY, Cristofanilli M, Robertson F, Reuben JM, Mu Z, Beavis RC, Im H, Snyder M, Hofree M, Ideker T, Omenn GS, Fanayan S, Jeong SK, Paik YK, Zhang AF, Wu SL, Hancock WS.

J Proteome Res. 2013 Jun 7;12(6):2805-17. doi: 10.1021/pr4001527. Epub 2013 May 22.

14.

A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17.

Liu S, Im H, Bairoch A, Cristofanilli M, Chen R, Deutsch EW, Dalton S, Fenyo D, Fanayan S, Gates C, Gaudet P, Hincapie M, Hanash S, Kim H, Jeong SK, Lundberg E, Mias G, Menon R, Mu Z, Nice E, Paik YK, Uhlen M, Wells L, Wu SL, Yan F, Zhang F, Zhang Y, Snyder M, Omenn GS, Beavis RC, Hancock WS.

J Proteome Res. 2013 Jan 4;12(1):45-57. doi: 10.1021/pr300985j. Epub 2012 Dec 21.

15.

In silico protein interaction analysis using the global proteome machine database.

Zhang CC, Rogalski JC, Evans DM, Klockenbusch C, Beavis RC, Kast J.

J Proteome Res. 2011 Feb 4;10(2):656-68. doi: 10.1021/pr1008652. Epub 2010 Dec 2.

PMID:
21067242
16.

Glenohumeral chondrolysis after shoulder arthroscopy associated with continuous bupivacaine infusion.

Rapley JH, Beavis RC, Barber FA.

Arthroscopy. 2009 Dec;25(12):1367-73. doi: 10.1016/j.arthro.2009.08.024.

PMID:
19962061
17.

Proteome-wide prediction of acetylation substrates.

Basu A, Rose KL, Zhang J, Beavis RC, Ueberheide B, Garcia BA, Chait B, Zhao Y, Hunt DF, Segal E, Allis CD, Hake SB.

Proc Natl Acad Sci U S A. 2009 Aug 18;106(33):13785-90. doi: 10.1073/pnas.0906801106. Epub 2009 Aug 3.

18.

Cyclic load and failure behavior of arthroscopic knots and high strength sutures.

Barber FA, Herbert MA, Beavis RC.

Arthroscopy. 2009 Feb;25(2):192-9. doi: 10.1016/j.arthro.2008.09.010. Epub 2008 Nov 17.

PMID:
19171280
19.

Implementation of a data repository-driven approach for targeted proteomics experiments by multiple reaction monitoring.

Walsh GM, Lin S, Evans DM, Khosrovi-Eghbal A, Beavis RC, Kast J.

J Proteomics. 2009 Jul 21;72(5):838-52. doi: 10.1016/j.jprot.2008.11.015. Epub 2008 Dec 6.

20.

FasT-Fix meniscal repair: mid-term results.

Barber FA, Schroeder FA, Oro FB, Beavis RC.

Arthroscopy. 2008 Dec;24(12):1342-8. doi: 10.1016/j.arthro.2008.08.001. Epub 2008 Oct 10.

PMID:
19038704
21.

Avulsion fracture of the calcaneal tuberosity: a case report and literature review.

Beavis RC, Rourke K, Court-Brown C.

Foot Ankle Int. 2008 Aug;29(8):863-6. doi: 10.3113/FAI.2008.0000. Review. No abstract available.

PMID:
18752789
22.

Guidelines for reporting the use of mass spectrometry informatics in proteomics.

Binz PA, Barkovich R, Beavis RC, Creasy D, Horn DM, Julian RK Jr, Seymour SL, Taylor CF, Vandenbrouck Y.

Nat Biotechnol. 2008 Aug;26(8):862. doi: 10.1038/nbt0808-862. No abstract available.

PMID:
18688233
23.

Suture anchor materials, eyelets, and designs: update 2008.

Barber FA, Herbert MA, Beavis RC, Barrera Oro F.

Arthroscopy. 2008 Aug;24(8):859-67. doi: 10.1016/j.arthro.2008.03.006. Epub 2008 May 9.

PMID:
18657733
24.

Analyzer-based imaging of spinal fusion in an animal model.

Kelly ME, Beavis RC, Fiorella D, Schültke E, Allen LA, Juurlink BH, Zhong Z, Chapman LD.

Phys Med Biol. 2008 May 21;53(10):2607-16. doi: 10.1088/0031-9155/53/10/011. Epub 2008 Apr 25.

PMID:
18441411
25.

Staphylococcus aureus septicemia secondary to hand abrasions in a professional hockey player--a case report.

Beavis RC, MacDonald PB.

Clin J Sport Med. 2008 Mar;18(2):174-5. doi: 10.1097/JSM.0b013e31815f2b24. No abstract available.

PMID:
18332697
26.

The identification and characterization of membranome components.

Ghosh D, Beavis RC, Wilkins JA.

J Proteome Res. 2008 Apr;7(4):1572-83. doi: 10.1021/pr070509u. Epub 2008 Feb 22.

PMID:
18290606
27.

Informatics development: challenges and solutions for MALDI mass spectrometry.

Fenyö D, Beavis RC.

Mass Spectrom Rev. 2008 Jan-Feb;27(1):1-19. Review.

PMID:
17979143
28.

Diffraction-enhanced imaging of a porcine eye.

Kelly ME, Coupal DJ, Beavis RC, Schultke E, Romanchuk K, Juurlink BH, Zhong Z, Chapman LD.

Can J Ophthalmol. 2007 Oct;42(5):731-3.

PMID:
17823643
29.

Determining the overall merit of protein identification data sets: rho-diagrams and rho-scores.

Fenyo D, Phinney BS, Beavis RC.

J Proteome Res. 2007 May;6(5):1997-2004. Epub 2007 Mar 31.

PMID:
17397212
30.

Proteomics of specific treatment-related alterations in Fabry disease: a strategy to identify biological abnormalities.

Moore DF, Krokhin OV, Beavis RC, Ries M, Robinson C, Goldin E, Brady RO, Wilkins JA, Schiffmann R.

Proc Natl Acad Sci U S A. 2007 Feb 20;104(8):2873-8. Epub 2007 Feb 14.

31.

Diffraction-enhanced imaging of the rat spine.

Kelly ME, Beavis RC, Fourney DR, Schültke E, Parham C, Juurlink BH, Zhong Z, Chapman LD.

Can Assoc Radiol J. 2006 Oct;57(4):204-10.

PMID:
17128887
32.

Use of peptide retention time prediction for protein identification by off-line reversed-phase HPLC-MALDI MS/MS.

Krokhin OV, Ying S, Cortens JP, Ghosh D, Spicer V, Ens W, Standing KG, Beavis RC, Wilkins JA.

Anal Chem. 2006 Sep 1;78(17):6265-9.

PMID:
16944911
33.

Using annotated peptide mass spectrum libraries for protein identification.

Craig R, Cortens JC, Fenyo D, Beavis RC.

J Proteome Res. 2006 Aug;5(8):1843-9.

PMID:
16889405
34.

General framework for developing and evaluating database scoring algorithms using the TANDEM search engine.

MacLean B, Eng JK, Beavis RC, McIntosh M.

Bioinformatics. 2006 Nov 15;22(22):2830-2. Epub 2006 Jul 28.

PMID:
16877754
35.

Using the global proteome machine for protein identification.

Beavis RC.

Methods Mol Biol. 2006;328:217-28.

PMID:
16785652
36.

Hand trauma in shop class.

Beavis RC, Classen DA.

J Pediatr Orthop. 2006 Jan-Feb;26(1):36-8.

PMID:
16439898
37.

Spontaneous spinal epidural hematoma during pregnancy.

Kelly ME, Beavis RC, Hattingh S.

Can J Neurol Sci. 2005 Aug;32(3):361-5.

PMID:
16225182
38.

The use of proteotypic peptide libraries for protein identification.

Craig R, Cortens JP, Beavis RC.

Rapid Commun Mass Spectrom. 2005;19(13):1844-50.

PMID:
15945033
39.

Open source system for analyzing, validating, and storing protein identification data.

Craig R, Cortens JP, Beavis RC.

J Proteome Res. 2004 Nov-Dec;3(6):1234-42.

PMID:
15595733
40.

Lectin affinity as an approach to the proteomic analysis of membrane glycoproteins.

Ghosh D, Krokhin O, Antonovici M, Ens W, Standing KG, Beavis RC, Wilkins JA.

J Proteome Res. 2004 Jul-Aug;3(4):841-50.

PMID:
15359739
41.

An improved model for prediction of retention times of tryptic peptides in ion pair reversed-phase HPLC: its application to protein peptide mapping by off-line HPLC-MALDI MS.

Krokhin OV, Craig R, Spicer V, Ens W, Standing KG, Beavis RC, Wilkins JA.

Mol Cell Proteomics. 2004 Sep;3(9):908-19. Epub 2004 Jul 6.

42.

TANDEM: matching proteins with tandem mass spectra.

Craig R, Beavis RC.

Bioinformatics. 2004 Jun 12;20(9):1466-7. Epub 2004 Feb 19.

PMID:
14976030
43.

Implementation of an algorithm for modeling disulfide bond patterns using mass spectrometry.

Craig R, Krokhin O, Wilkins J, Beavis RC.

J Proteome Res. 2003 Nov-Dec;2(6):657-61.

PMID:
14692460
44.

A method for reducing the time required to match protein sequences with tandem mass spectra.

Craig R, Beavis RC.

Rapid Commun Mass Spectrom. 2003;17(20):2310-6.

PMID:
14558131
46.

Informatics and data management in proteomics.

Fenyö D, Beavis RC.

Trends Biotechnol. 2002 Dec;20(12 Suppl):S35-8. Review.

PMID:
12570158
48.

Tissue distribution and functional expression of a cDNA encoding a novel mixed lineage kinase.

Bloem LJ, Pickard TR, Acton S, Donoghue M, Beavis RC, Knierman MD, Wang X.

J Mol Cell Cardiol. 2001 Sep;33(9):1739-50.

PMID:
11549352
49.

A 7-kDa prion protein (PrP) fragment, an integral component of the PrP region required for infectivity, is the major amyloid protein in Gerstmann-Sträussler-Scheinker disease A117V.

Tagliavini F, Lievens PM, Tranchant C, Warter JM, Mohr M, Giaccone G, Perini F, Rossi G, Salmona M, Piccardo P, Ghetti B, Beavis RC, Bugiani O, Frangione B, Prelli F.

J Biol Chem. 2001 Feb 23;276(8):6009-15. Epub 2000 Nov 21.

50.

Biochemical analysis of the arginine methylation of high molecular weight fibroblast growth factor-2.

Klein S, Carroll JA, Chen Y, Henry MF, Henry PA, Ortonowski IE, Pintucci G, Beavis RC, Burgess WH, Rifkin DB.

J Biol Chem. 2000 Feb 4;275(5):3150-7.

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