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Wyszukujesz frazę ""Searle, Brian C."" wg kryterium: Autor


Tytuł :
High-throughput identification of proteins and unanticipated sequence modifications using a mass-based alignment algorithm for MS/MS de novo sequencing results.
Autorzy :
Searle BC; Department of Pediatrics, School of Dentistry, Oregon Health & Sciences University, 3181 SW Sam Jackson Park Road, Portland, Oregon 97239-3098, USA.
Dasari S
Turner M
Reddy AP
Choi D
Wilmarth PA
McCormack AL
David LL
Nagalla SR
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Źródło :
Analytical chemistry [Anal Chem] 2004 Apr 15; Vol. 76 (8), pp. 2220-30.
Typ publikacji :
Journal Article; Research Support, U.S. Gov't, P.H.S.
MeSH Terms :
Algorithms*
Proteins/*analysis
Proteins/*chemistry
Amino Acid Sequence ; Databases, Factual ; Humans ; Lens, Crystalline/chemistry ; Mass Spectrometry/methods ; Molecular Sequence Data ; Peptides/analysis ; Peptides/chemistry ; Software ; Time Factors
Czasopismo naukowe
Tytuł :
Identification of protein modifications using MS/MS de novo sequencing and the OpenSea alignment algorithm.
Autorzy :
Searle BC; Department of Pediatrics and School of Dentistry, Oregon Health & Sciences University, 3181 SW Sam Jackson Park Road, Portland, Oregon 97239-3098, USA.
Dasari S
Wilmarth PA
Turner M
Reddy AP
David LL
Nagalla SR
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Źródło :
Journal of proteome research [J Proteome Res] 2005 Mar-Apr; Vol. 4 (2), pp. 546-54.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, U.S. Gov't, P.H.S.
MeSH Terms :
Algorithms*
Mass Spectrometry/*methods
Proteins/*chemistry
Aged ; Aged, 80 and over ; Amino Acid Sequence ; Cataract ; Humans ; Molecular Sequence Data ; Protein Processing, Post-Translational ; Sequence Homology, Amino Acid
Czasopismo naukowe
Tytuł :
Improving sensitivity by probabilistically combining results from multiple MS/MS search methodologies.
Autorzy :
Searle BC; Proteome Software Inc., 1340 S.W. Bertha Boulevard, Suite 201, Portland, Oregon 97219-2039, USA. Brian.Searle@ProteomeSoftware.com
Turner M
Nesvizhskii AI
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Źródło :
Journal of proteome research [J Proteome Res] 2008 Jan; Vol. 7 (1), pp. 245-53.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural
MeSH Terms :
Bayes Theorem*
Information Storage and Retrieval*
Software*
Tandem Mass Spectrometry*
Proteins/*analysis
Proteomics/*methods
Algorithms ; Databases, Protein ; Humans ; Models, Statistical
Czasopismo naukowe
Tytuł :
A face in the crowd: recognizing peptides through database search.
Autorzy :
Eng JK; University of Washington, Department of Genome Sciences, Seattle, WA 98195, USA. />Searle BC
Clauser KR
Tabb DL
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Źródło :
Molecular & cellular proteomics : MCP [Mol Cell Proteomics] 2011 Nov; Vol. 10 (11), pp. R111.009522. Date of Electronic Publication: 2011 Aug 29.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Review
MeSH Terms :
Databases, Protein*
Search Engine*
Peptide Fragments/*chemistry
Algorithms ; Amino Acid Sequence ; Animals ; Humans ; Molecular Weight ; Protein Processing, Post-Translational ; Proteome/chemistry ; Tandem Mass Spectrometry/methods
Czasopismo naukowe
Tytuł :
The mzIdentML data standard for mass spectrometry-based proteomics results.
Autorzy :
Jones AR; Institute of Integrative Biology, University of Liverpool, Liverpool L69 7ZJ, UK. />Eisenacher M
Mayer G
Kohlbacher O
Siepen J
Hubbard SJ
Selley JN
Searle BC
Shofstahl J
Seymour SL
Julian R
Binz PA
Deutsch EW
Hermjakob H
Reisinger F
Griss J
Vizcaíno JA
Chambers M
Pizarro A
Creasy D
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Źródło :
Molecular & cellular proteomics : MCP [Mol Cell Proteomics] 2012 Jul; Vol. 11 (7), pp. M111.014381. Date of Electronic Publication: 2012 Feb 27.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Software*
Mass Spectrometry/*standards
Proteins/*analysis
Proteomics/*standards
Databases, Protein ; Internet ; Mass Spectrometry/methods ; Proteomics/methods
Czasopismo naukowe
Tytuł :
Interlaboratory studies and initiatives developing standards for proteomics.
Autorzy :
Ivanov AR; Barnett Institute of Chemical and Biological Analysis, Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA 02115, USA. />Colangelo CM
Dufresne CP
Friedman DB
Lilley KS
Mechtler K
Phinney BS
Rose KL
Rudnick PA
Searle BC
Shaffer SA
Weintraub ST
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Źródło :
Proteomics [Proteomics] 2013 Mar; Vol. 13 (6), pp. 904-9. Date of Electronic Publication: 2013 Feb 19.
Typ publikacji :
Journal Article
MeSH Terms :
Protein Processing, Post-Translational*
Proteomics*
Laboratories/*standards
Mass Spectrometry/*standards
Cooperative Behavior ; Guidelines as Topic ; Humans ; Proteome/metabolism ; Reference Standards
Czasopismo naukowe
Tytuł :
A standardized framing for reporting protein identifications in mzIdentML 1.2.
Autorzy :
Seymour SL; AB SCIEX, Redwood City, CA, USA.
Farrah T
Binz PA
Chalkley RJ
Cottrell JS
Searle BC
Tabb DL
Vizcaíno JA
Prieto G
Uszkoreit J
Eisenacher M
Martínez-Bartolomé S
Ghali F
Jones AR
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Źródło :
Proteomics [Proteomics] 2014 Nov; Vol. 14 (21-22), pp. 2389-99. Date of Electronic Publication: 2014 Sep 23.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
MeSH Terms :
Mass Spectrometry/*standards
Proteins/*analysis
Proteomics/*standards
Software/*standards
Databases, Protein ; Humans ; Mass Spectrometry/methods ; Proteomics/methods
Czasopismo naukowe
Tytuł :
Using Data Independent Acquisition (DIA) to Model High-responding Peptides for Targeted Proteomics Experiments.
Autorzy :
Searle BC; From the ‡Department of Genome Sciences, University of Washington, Seattle, Washington 98195; §Proteome Software Inc., Portland, OR 97219.
Egertson JD; From the ‡Department of Genome Sciences, University of Washington, Seattle, Washington 98195;
Bollinger JG; From the ‡Department of Genome Sciences, University of Washington, Seattle, Washington 98195;
Stergachis AB; From the ‡Department of Genome Sciences, University of Washington, Seattle, Washington 98195;
MacCoss MJ; From the ‡Department of Genome Sciences, University of Washington, Seattle, Washington 98195; .
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Źródło :
Molecular & cellular proteomics : MCP [Mol Cell Proteomics] 2015 Sep; Vol. 14 (9), pp. 2331-40. Date of Electronic Publication: 2015 Jun 22.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural
MeSH Terms :
Peptides/*chemistry
Peptides/*metabolism
Algorithms ; Humans ; Mass Spectrometry/methods ; Neural Networks, Computer ; Proteomics/methods ; Software
Czasopismo naukowe
Tytuł :
Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry.
Autorzy :
Lawrence RT; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Searle BC; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Llovet A; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Villén J; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
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Źródło :
Nature methods [Nat Methods] 2016 May; Vol. 13 (5), pp. 431-4. Date of Electronic Publication: 2016 Mar 28.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Insulin-Like Growth Factor I/*metabolism
Phosphopeptides/*metabolism
Proteomics/*methods
Proto-Oncogene Proteins c-akt/*metabolism
Systems Biology/*methods
Cell Culture Techniques ; Data Mining ; Databases, Genetic ; High-Throughput Screening Assays ; Humans ; Insulin-Like Growth Factor I/pharmacology ; MCF-7 Cells ; Phosphorylation ; Signal Transduction ; Tandem Mass Spectrometry
Czasopismo naukowe
Tytuł :
ProteinProcessor: A probabilistic analysis using mass accuracy and the MS spectrum.
Autorzy :
Epstein JA; Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD, USA.
Blank PS; Section on Integrative Biophysics, Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD, USA.
Searle BC; Proteome Software Inc, Portland, OR, USA.
Catlin AD; Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD, USA.
Cologna SM; Department of Chemistry, University of Illinois at Chicago, Chicago, IL, USA.
Olson MT; Department of Pathology, The Johns Hopkins University School of Medicine, Baltimore, MD, USA.
Backlund PS; Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD, USA.
Coorssen JR; Faculty of Graduate Studies and the Departments of Health Sciences and Biological Sciences, Brock University, St. Catharines, ON, Canada.
Yergey AL; Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD, USA. .
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Źródło :
Proteomics [Proteomics] 2016 Sep; Vol. 16 (18), pp. 2480-90.
Typ publikacji :
Journal Article; Research Support, N.I.H., Intramural
MeSH Terms :
Algorithms*
Peptide Mapping/*methods
Proteomics/*methods
Tandem Mass Spectrometry/*methods
Animals ; Databases, Protein ; Humans ; Mice ; Models, Statistical ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
Czasopismo naukowe
Tytuł :
Detecting Sources of Transcriptional Heterogeneity in Large-Scale RNA-Seq Data Sets.
Autorzy :
Searle BC; Department of Genome Sciences, University of Washington, Seattle, Washington 98195.
Gittelman RM; Department of Genome Sciences, University of Washington, Seattle, Washington 98195.
Manor O; Department of Genome Sciences, University of Washington, Seattle, Washington 98195.
Akey JM; Department of Genome Sciences, University of Washington, Seattle, Washington 98195 .
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Źródło :
Genetics [Genetics] 2016 Dec; Vol. 204 (4), pp. 1391-1396. Date of Electronic Publication: 2016 Oct 11.
Typ publikacji :
Journal Article
MeSH Terms :
Algorithms*
Genetic Heterogeneity*
Phenotype*
Datasets as Topic/*standards
Gene Expression Profiling/*standards
Humans ; Organ Specificity ; Transcriptome
Czasopismo naukowe
Tytuł :
PECAN: library-free peptide detection for data-independent acquisition tandem mass spectrometry data.
Autorzy :
Ting YS; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Egertson JD; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Bollinger JG; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Searle BC; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
Payne SH; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, USA.
Noble WS; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.; Department of Computer Science and Engineering, University of Washington, Seattle, Washington, USA.
MacCoss MJ; Department of Genome Sciences, University of Washington, Seattle, Washington, USA.
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Źródło :
Nature methods [Nat Methods] 2017 Sep; Vol. 14 (9), pp. 903-908. Date of Electronic Publication: 2017 Aug 07.
Typ publikacji :
Journal Article
MeSH Terms :
Algorithms*
Software*
Gene Expression Profiling/*methods
Proteome/*analysis
Proteome/*chemistry
Tandem Mass Spectrometry/*methods
Peptide Library ; Reproducibility of Results ; Sensitivity and Specificity
Czasopismo naukowe
Tytuł :
Incorporating In-Source Fragment Information Improves Metabolite Identification Accuracy in Untargeted LC-MS Data Sets.
Autorzy :
Seitzer PM; Proteome Software , 1340 Southwest Bertha Boulevard Suite 10 , Portland , Oregon 97219 , United States.
Searle BC; Proteome Software , 1340 Southwest Bertha Boulevard Suite 10 , Portland , Oregon 97219 , United States.; Department of Genome Sciences , University of Washington , Seattle , Washington 98195 , United States.
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Źródło :
Journal of proteome research [J Proteome Res] 2019 Feb 01; Vol. 18 (2), pp. 791-796. Date of Electronic Publication: 2018 Oct 18.
Typ publikacji :
Journal Article
MeSH Terms :
Datasets as Topic*
Metabolomics/*methods
Chromatography, Liquid/methods ; Databases, Factual ; Ions ; Spectrometry, Mass, Electrospray Ionization ; Tandem Mass Spectrometry/methods
Czasopismo naukowe

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