Peptizer, a tool for assessing false positive peptide identifications and manually validating selected results

scientific article

Peptizer, a tool for assessing false positive peptide identifications and manually validating selected results is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1074/MCP.M800082-MCP200
P698PubMed publication ID18667410

P50authorJoël VandekerckhoveQ6298519
Kris GevaertQ30003970
Lennart MartensQ42647916
Evy TimmermanQ92269803
P2093author name stringKenny Helsens
P2860cites workProbability-based protein identification by searching sequence databases using mass spectrometry dataQ27860736
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein databaseQ27861106
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database searchQ28211385
Nitroproteins from a human pituitary adenoma tissue discovered with a nitrotyrosine affinity column and tandem mass spectrometryQ28246304
Open mass spectrometry search algorithmQ28286936
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometryQ29547311
DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomicsQ29615322
Comparison of Mascot and X!Tandem performance for low and high accuracy mass spectrometry and the development of an adjusted Mascot thresholdQ30486531
Open source system for analyzing, validating, and storing protein identification dataQ30978337
New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniquesQ30990466
Interpretation of shotgun proteomic data: the protein inference problemQ30993883
RScore: a peptide randomicity score for evaluating tandem mass spectraQ31102423
myProMS, a web server for management and validation of mass spectrometry-based proteomic dataQ31117678
Proteomics data validation: why all must provide dataQ31119188
What to do with "one-hit wonders"?Q33203363
Mass spectrometry and protein analysisQ33239890
MascotDatfile: an open-source library to fully parse and analyse MASCOT MS/MS search resultsQ33268182
Verification of automated peptide identifications from proteomic tandem mass spectraQ33640631
PRIDE: the proteomics identifications databaseQ34436630
Large-scale database searching using tandem mass spectra: looking up the answer in the back of the bookQ36079215
Diagonal reverse-phase chromatography applications in peptide-centric proteomics: ahead of catalogue-omics?Q36266746
Targets of tyrosine nitration in diabetic rat retinaQ36685034
A la carte proteomics with an emphasis on gel-free techniquesQ36886208
Methods, algorithms and tools in computational proteomics: a practical point of viewQ36912285
LIMS and the art of MS proteomicsQ37210209
Proteomic analysis of the intestinal epithelial cell response to enteropathogenic Escherichia coliQ40528871
Improved recovery of proteome-informative, protein N-terminal peptides by combined fractional diagonal chromatography (COFRADIC).Q46720210
VEMS 3.0: algorithms and computational tools for tandem mass spectrometry based identification of post-translational modifications in proteins.Q46841266
Assessing a novel microfluidic interface for shotgun proteome analysesQ49049574
Semisupervised model-based validation of peptide identifications in mass spectrometry-based proteomicsQ51897865
Mining a tandem mass spectrometry database to determine the trends and global factors influencing peptide fragmentationQ52008068
DBToolkit: processing protein databases for peptide-centric proteomicsQ58034927
P433issue12
P407language of work or nameEnglishQ1860
P304page(s)2364-2372
P577publication date2008-07-30
P1433published inMolecular & Cellular ProteomicsQ6895932
P1476titlePeptizer, a tool for assessing false positive peptide identifications and manually validating selected results
P478volume7

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cites work (P2860)
Q41829770A quantitative proteomics design for systematic identification of protease cleavage events.
Q49073215A stringent approach to improve the quality of nitrotyrosine peptide identifications
Q44324463Bioinformatics Challenges in Mass Spectrometry-Driven Proteomics
Q33863852Data Management in Mass Spectrometry-Based Proteomics
Q38392128Exploring oxidative modifications of tyrosine: an update on mechanisms of formation, advances in analysis and biological consequences.
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Q38417182Fast profiling of protease specificity reveals similar substrate specificities for cathepsins K, L and S.
Q34924031GRIM REAPER peptide binds to receptor kinase PRK5 to trigger cell death in Arabidopsis
Q33628873In vitro and in vivo protein-bound tyrosine nitration characterized by diagonal chromatography
Q40335166N-terminomics identifies Prli42 as a membrane miniprotein conserved in Firmicutes and critical for stressosome activation in Listeria monocytogenes
Q28660368Open source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective
Q35075580PepServe: a web server for peptide analysis, clustering and visualization
Q57842219Peptide identification quality control
Q36199807Profiling protease activities by dynamic proteomics workflows
Q33932582Proteomic Analysis and Discovery Using Affinity Proteomics and Mass Spectrometry
Q49052034Selecting protein N-terminal peptides by combined fractional diagonal chromatography
Q37829997Targeted large‐scale analysis of protein acetylation
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Q33840310compomics-utilities: an open-source Java library for computational proteomics

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