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Results: 1 to 20 of 61

1.

Bayesian Proteoform Modeling Improves Protein Quantification of Global Proteomic Measurements.

Webb-Robertson BJ, Matzke MM, Datta S, Payne SH, Kang J, Bramer LM, Nicora CD, Shukla AK, Metz TO, Rodland KD, Smith RD, Tardiff MF, McDermott JE, Pounds JG, Waters KM.

Mol Cell Proteomics. 2014 Aug 16. pii: mcp.O113.030932. [Epub ahead of print]

PMID:
25129695
[PubMed - as supplied by publisher]
Free Article
2.

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.

PMID:
25089116
[PubMed]
3.

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.

PMID:
24881670
[PubMed - in process]
Free PMC Article
4.

Detecting and Removing Data Artifacts in Hadamard Transform Ion Mobility-Mass Spectrometry Measurements.

Prost SA, Crowell KL, Baker ES, Ibrahim YM, Clowers BH, Monroe ME, Anderson GA, Smith RD, Payne SH.

J Am Soc Mass Spectrom. 2014 May 6. [Epub ahead of print]

PMID:
24796262
[PubMed - as supplied by publisher]
5.

Signatures for mass spectrometry data quality.

Amidan BG, Orton DJ, Lamarche BL, Monroe ME, Moore RJ, Venzin AM, Smith RD, Sego LH, Tardiff MF, Payne SH.

J Proteome Res. 2014 Apr 4;13(4):2215-22. doi: 10.1021/pr401143e. Epub 2014 Mar 24.

PMID:
24611607
[PubMed - in process]
Free PMC Article
6.

Beyond the proteome: Mass Spectrometry Special Interest Group (MS-SIG) at ISMB/ECCB 2013.

MS-SIG 2013 Organizers, Ryu SY, Payne SH, Schaab C, Xiao W.

Bioinformatics. 2014 Jul 15;30(14):2089-90. doi: 10.1093/bioinformatics/btu116. Epub 2014 Mar 3. No abstract available.

PMID:
24590439
[PubMed - indexed for MEDLINE]
7.

PGP: parallel prokaryotic proteogenomics pipeline for MPI clusters, high-throughput batch clusters and multicore workstations.

Tovchigrechko A, Venepally P, Payne SH.

Bioinformatics. 2014 May 15;30(10):1469-70. doi: 10.1093/bioinformatics/btu051. Epub 2014 Jan 27.

PMID:
24470574
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Automated data extraction from in situ protein-stable isotope probing studies.

Slysz GW, Steinke L, Ward DM, Klatt CG, Clauss TR, Purvine SO, Payne SH, Anderson GA, Smith RD, Lipton MS.

J Proteome Res. 2014 Mar 7;13(3):1200-10. doi: 10.1021/pr400633j. Epub 2014 Feb 21.

PMID:
24467184
[PubMed - in process]
9.

Accounting for population variation in targeted proteomics.

Fujimoto GM, Monroe ME, Rodriguez L, Wu C, MacLean B, Smith RD, MacCoss MJ, Payne SH.

J Proteome Res. 2014 Jan 3;13(1):321-3. doi: 10.1021/pr4011052. Epub 2013 Dec 16.

PMID:
24320210
[PubMed - indexed for MEDLINE]
10.

Tendon transfers for radial, median, and ulnar nerve palsy.

Seiler JG 3rd, Desai MJ, Payne SH.

J Am Acad Orthop Surg. 2013 Nov;21(11):675-84. doi: 10.5435/JAAOS-21-11-675. Review.

PMID:
24187037
[PubMed - indexed for MEDLINE]
11.

LC-IMS-MS Feature Finder: detecting multidimensional liquid chromatography, ion mobility and mass spectrometry features in complex datasets.

Crowell KL, Slysz GW, Baker ES, LaMarche BL, Monroe ME, Ibrahim YM, Payne SH, Anderson GA, Smith RD.

Bioinformatics. 2013 Nov 1;29(21):2804-5. doi: 10.1093/bioinformatics/btt465. Epub 2013 Sep 5.

PMID:
24008421
[PubMed - indexed for MEDLINE]
12.

Haloferax volcanii archaeosortase is required for motility, mating, and C-terminal processing of the S-layer glycoprotein.

Abdul Halim MF, Pfeiffer F, Zou J, Frisch A, Haft D, Wu S, Tolić N, Brewer H, Payne SH, Paša-Tolić L, Pohlschroder M.

Mol Microbiol. 2013 Jun;88(6):1164-75. doi: 10.1111/mmi.12248. Epub 2013 May 28.

PMID:
23651326
[PubMed - indexed for MEDLINE]
13.

How many signal peptides are there in bacteria?

Ivankov DN, Payne SH, Galperin MY, Bonissone S, Pevzner PA, Frishman D.

Environ Microbiol. 2013 Apr;15(4):983-90. doi: 10.1111/1462-2920.12105.

PMID:
23556536
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans.

Wu S, Brown RN, Payne SH, Meng D, Zhao R, Tolić N, Cao L, Shukla A, Monroe ME, Moore RJ, Lipton MS, Paša-Tolić L.

Int J Proteomics. 2013;2013:279590. doi: 10.1155/2013/279590. Epub 2013 Mar 10.

PMID:
23555055
[PubMed]
Free PMC Article
15.

Identification of widespread adenosine nucleotide binding in Mycobacterium tuberculosis.

Ansong C, Ortega C, Payne SH, Haft DH, Chauvignè-Hines LM, Lewis MP, Ollodart AR, Purvine SO, Shukla AK, Fortuin S, Smith RD, Adkins JN, Grundner C, Wright AT.

Chem Biol. 2013 Jan 24;20(1):123-33. doi: 10.1016/j.chembiol.2012.11.008.

PMID:
23352146
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Unexpected diversity of signal peptides in prokaryotes.

Payne SH, Bonissone S, Wu S, Brown RN, Ivankov DN, Frishman D, Pasa-Tolić L, Smith RD, Pevzner PA.

MBio. 2012 Nov 20;3(6). pii: e00339-12. doi: 10.1128/mBio.00339-12.

PMID:
23169999
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

VESPA: software to facilitate genomic annotation of prokaryotic organisms through integration of proteomic and transcriptomic data.

Peterson ES, McCue LA, Schrimpe-Rutledge AC, Jensen JL, Walker H, Kobold MA, Webb SR, Payne SH, Ansong C, Adkins JN, Cannon WR, Webb-Robertson BJ.

BMC Genomics. 2012 Apr 5;13:131. doi: 10.1186/1471-2164-13-131.

PMID:
22480257
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Comparative omics-driven genome annotation refinement: application across Yersiniae.

Schrimpe-Rutledge AC, Jones MB, Chauhan S, Purvine SO, Sanford JA, Monroe ME, Brewer HM, Payne SH, Ansong C, Frank BC, Smith RD, Peterson SN, Motin VL, Adkins JN.

PLoS One. 2012;7(3):e33903. doi: 10.1371/journal.pone.0033903. Epub 2012 Mar 27. Erratum in: PLoS One. 2012;7(8). doi: 10.1371/annotation/03110e8b-3e10-4334-9ff7-969c85ad25d8.

PMID:
22479471
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Proteogenomic analysis of bacteria and archaea: a 46 organism case study.

Venter E, Smith RD, Payne SH.

PLoS One. 2011;6(11):e27587. doi: 10.1371/journal.pone.0027587. Epub 2011 Nov 17.

PMID:
22114679
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Characterizing the Escherichia coli O157:H7 proteome including protein associations with higher order assemblies.

Pieper R, Zhang Q, Clark DJ, Huang ST, Suh MJ, Braisted JC, Payne SH, Fleischmann RD, Peterson SN, Tzipori S.

PLoS One. 2011;6(11):e26554. doi: 10.1371/journal.pone.0026554. Epub 2011 Nov 7.

PMID:
22087229
[PubMed - indexed for MEDLINE]
Free PMC Article

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