| scholarly article | Q13442814 |
| P356 | DOI | 10.1007/978-1-4939-7201-2_19 |
| P698 | PubMed publication ID | 28809010 |
| P2093 | author name string | Iulia M Lazar | |
| P2860 | cites work | Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. | Q34594316 |
| TOPP--the OpenMS proteomics pipeline | Q34604124 | ||
| Orbitrap mass spectrometry. | Q34650530 | ||
| Higher-energy C-trap dissociation for peptide modification analysis. | Q34667664 | ||
| ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry | Q35557900 | ||
| UniPep--a database for human N-linked glycosites: a resource for biomarker discovery | Q35606070 | ||
| UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View | Q35828128 | ||
| Current challenges in software solutions for mass spectrometry-based quantitative proteomics | Q36162392 | ||
| PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites | Q36482015 | ||
| The application of systems biology to drug discovery | Q36528149 | ||
| Workflow based framework for life science informatics. | Q36968546 | ||
| PIPs: human protein-protein interaction prediction database | Q37202592 | ||
| Quantitative analysis of peptides and proteins in biomedicine by targeted mass spectrometry | Q37618631 | ||
| Comparative and Quantitative Global Proteomics Approaches: An Overview | Q37636378 | ||
| A critical appraisal of techniques, software packages, and standards for quantitative proteomic analysis | Q38026929 | ||
| Exploring the glycoproteomics landscape with advanced MS technologies | Q38259771 | ||
| CORUM: the comprehensive resource of mammalian protein complexes--2009 | Q38377952 | ||
| Mass Spectrometry-Based Protein Quantification | Q39099907 | ||
| The MIPS mammalian protein-protein interaction database | Q34365947 | ||
| A statistical model-building perspective to identification of MS/MS spectra with PeptideProphet | Q34486639 | ||
| The Pfam protein families database: towards a more sustainable future | Q34505322 | ||
| InterPro in 2017-beyond protein family and domain annotations | Q34546171 | ||
| The GRID: the General Repository for Interaction Datasets | Q24791483 | ||
| GoMiner: a resource for biological interpretation of genomic and proteomic data | Q24796534 | ||
| KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites | Q24813228 | ||
| The PeptideAtlas project | Q25257813 | ||
| PathVisio 3: an extendable pathway analysis toolbox | Q25296662 | ||
| KinomeXplorer: an integrated platform for kinome biology studies | Q27495267 | ||
| Probability-based protein identification by searching sequence databases using mass spectrometry data | Q27860736 | ||
| Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources | Q27860739 | ||
| The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 | Q27860747 | ||
| An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database | Q27861106 | ||
| WikiPathways: building research communities on biological pathways | Q28090976 | ||
| Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists | Q28131785 | ||
| A statistical model for identifying proteins by tandem mass spectrometry | Q28186251 | ||
| PROSITE: a documented database using patterns and profiles as motif descriptors | Q28201713 | ||
| PEAKS: powerful software for peptide de novo sequencing by tandem mass spectrometry | Q28209613 | ||
| Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search | Q28211385 | ||
| Global quantification of mammalian gene expression control | Q28238103 | ||
| PhosphoSitePlus, 2014: mutations, PTMs and recalibrations | Q28254001 | ||
| Using galaxy to perform large-scale interactive data analyses | Q28277397 | ||
| Open mass spectrometry search algorithm | Q28286936 | ||
| The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud | Q28290043 | ||
| Collision-induced dissociation (CID) of peptides and proteins | Q28290550 | ||
| A common open representation of mass spectrometry data and its application to proteomics research | Q28291914 | ||
| ChEMBL: a large-scale bioactivity database for drug discovery | Q28315179 | ||
| Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry | Q28360826 | ||
| IIS--Integrated Interactome System: a web-based platform for the annotation, analysis and visualization of protein-metabolite-gene-drug interactions by integrating a variety of data sources and tools | Q28539905 | ||
| 2016 update of the PRIDE database and its related tools | Q28603110 | ||
| The MIntAct project--IntAct as a common curation platform for 11 molecular interaction databases | Q28660703 | ||
| A curated compendium of phosphorylation motifs | Q29029867 | ||
| MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification | Q29547200 | ||
| PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes | Q29547229 | ||
| Human Protein Reference Database--2009 update | Q29547392 | ||
| BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks | Q29547427 | ||
| UniProt: a hub for protein information | Q29547457 | ||
| UniRef: comprehensive and non-redundant UniProt reference clusters | Q29614376 | ||
| Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences | Q21092859 | ||
| OpenMS - an open-source software framework for mass spectrometry | Q21284208 | ||
| Gene ontology: tool for the unification of biology | Q23781406 | ||
| WikiPathways: capturing the full diversity of pathway knowledge | Q24082733 | ||
| Cytoscape: a software environment for integrated models of biomolecular interaction networks | Q24515682 | ||
| STRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene | Q24523893 | ||
| Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles | Q24536351 | ||
| BioGRID: a general repository for interaction datasets | Q24538650 | ||
| KEGG: Kyoto Encyclopedia of Genes and Genomes | Q24548371 | ||
| NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins | Q24558592 | ||
| Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry | Q24561920 | ||
| The Reactome pathway knowledgebase | Q24567743 | ||
| SMART, a simple modular architecture research tool: identification of signaling domains | Q24597380 | ||
| UniProt: the Universal Protein knowledgebase | Q24598826 | ||
| IntAct: an open source molecular interaction database | Q24600582 | ||
| DrugBank 3.0: a comprehensive resource for 'omics' research on drugs | Q24612505 | ||
| Phospho.ELM: a database of phosphorylation sites--update 2011 | Q24613280 | ||
| Pathway Commons, a web resource for biological pathway data | Q24615770 | ||
| Identifying biological themes within lists of genes with EASE | Q24630875 | ||
| GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function | Q24646439 | ||
| MyriMatch: highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis | Q24657366 | ||
| Large-scale proteomic analysis of the human spliceosome | Q24671785 | ||
| Systems Level Analysis of Histone H3 Post-translational Modifications (PTMs) Reveals Features of PTM Crosstalk in Chromatin Regulation | Q39682740 | ||
| Six alternative proteases for mass spectrometry-based proteomics beyond trypsin. | Q39814223 | ||
| SpectroGene: A Tool for Proteogenomic Annotations Using Top-Down Spectra. | Q40249755 | ||
| MS Amanda, a universal identification algorithm optimized for high accuracy tandem mass spectra | Q42113410 | ||
| ExPASy: SIB bioinformatics resource portal | Q42232951 | ||
| MSQuant, an open source platform for mass spectrometry-based quantitative proteomics | Q42638546 | ||
| XMAn: a Homo sapiens mutated-peptide database for the MS analysis of cancerous cell states | Q45003092 | ||
| InsPecT: identification of posttranslationally modified peptides from tandem mass spectra | Q46259455 | ||
| Standard guidelines for the chromosome-centric human proteome project | Q47988563 | ||
| OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data | Q48317444 | ||
| Development of MRM-based assays for the absolute quantitation of plasma proteins. | Q50908871 | ||
| Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos. | Q51467338 | ||
| PeaksPTM: Mass spectrometry-based identification of peptides with unspecified modifications. | Q51565262 | ||
| TANDEM: matching proteins with tandem mass spectra | Q29615238 | ||
| The minimum information about a proteomics experiment (MIAPE) | Q29615391 | ||
| STRING v10: protein-protein interaction networks, integrated over the tree of life | Q29615545 | ||
| Andromeda: a peptide search engine integrated into the MaxQuant environment | Q29615816 | ||
| Gene Ontology Consortium: going forward | Q29616846 | ||
| Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein | Q29617305 | ||
| UniCarb-DB: a database resource for glycomic discovery | Q30050750 | ||
| PEAKS DB: De Novo Sequencing Assisted Database Search for Sensitive and Accurate Peptide Identification | Q30053602 | ||
| Skyline: an open source document editor for creating and analyzing targeted proteomics experiments | Q30080030 | ||
| Validation of the curation pipeline of UniCarb-DB: building a global glycan reference MS/MS repository | Q30486117 | ||
| A guided tour of the Trans-Proteomic Pipeline | Q30497827 | ||
| The Protein Data Bank: unifying the archive | Q30667279 | ||
| MFCompress: a compression tool for FASTA and multi-FASTA data | Q30679030 | ||
| PSEA-Quant: a protein set enrichment analysis on label-free and label-based protein quantification data | Q30846922 | ||
| Functional annotation and biological interpretation of proteomics data. | Q30872957 | ||
| ProFound: an expert system for protein identification using mass spectrometric peptide mapping information | Q30880899 | ||
| Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry | Q30884824 | ||
| NDEx, the Network Data Exchange | Q31027277 | ||
| Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0. | Q31031694 | ||
| Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0. | Q31125225 | ||
| Significance analysis of spectral count data in label-free shotgun proteomics | Q31164168 | ||
| Development and validation of a spectral library searching method for peptide identification from MS/MS. | Q33273391 | ||
| Probabilistic prediction and ranking of human protein-protein interactions | Q33290139 | ||
| Building consensus spectral libraries for peptide identification in proteomics | Q33370900 | ||
| Recent advances in capillary and microfluidic platforms with MS detection for the analysis of phosphoproteins | Q33401313 | ||
| PPI spider: a tool for the interpretation of proteomics data in the context of protein-protein interaction networks | Q33436868 | ||
| Visualization of omics data for systems biology | Q33535721 | ||
| DIP: the database of interacting proteins | Q33609737 | ||
| The Protein Information Resource | Q33963623 | ||
| Target-decoy search strategy for mass spectrometry-based proteomics | Q34070061 | ||
| Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis | Q34133645 | ||
| MINT, the molecular interaction database: 2012 update | Q34233947 | ||
| TOPPAS: a graphical workflow editor for the analysis of high-throughput proteomics data | Q34267896 | ||
| Proteomic study reveals a functional network of cancer markers in the G1-Stage of the breast cancer cell cycle | Q34278751 | ||
| GlycoSuiteDB: a new curated relational database of glycoprotein glycan structures and their biological sources | Q34315781 | ||
| Large-scale gene function analysis with the PANTHER classification system | Q34358449 | ||
| P407 | language of work or name | English | Q1860 |
| P921 | main subject | bioinformatics | Q128570 |
| P304 | page(s) | 267-295 | |
| P577 | publication date | 2017-01-01 | |
| P1433 | published in | Methods in Molecular Biology | Q15752859 |
| P1476 | title | Bioinformatics Resources for Interpreting Proteomics Mass Spectrometry Data | |
| P478 | volume | 1647 |
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