Post on 13-Jul-2015
Harnessing the proteome: ProteoIQ Quantitative Proteomics Software Webinar
James AtwoodGeneral Manager US
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Our Mission: Our Mission: Empower Proteomic Data Analysis Empower Proteomic Data Analysis
With ProteoIQ With ProteoIQ all your proteomic analysis is centralizedall your proteomic analysis is centralized
Multiple software platforms for each type of proteomic analysis
Now a single software package for all proteomic studies
ProteoIQ is a Better WayProteoIQ is a Better WayCentralized vendor independent software to enable faster and more accurate data analysis
Sample Prep
MSMS/MS Search
QuantCompare Biology
ProteoIQ Provides a Comprehensive Feature SetProteoIQ Provides a Comprehensive Feature Set
Indicates features available in Scaffold Software
Robust Data Integration in ProteoIQRobust Data Integration in ProteoIQ
Robust data integration•Unlimited enzyme and modification support
• Combine multiple search engine and instrument results.
Accurately Model Your Experimental DesignAccurately Model Your Experimental Design
Experimental Design•ProteoIQ provides a unique multi-level file grouping structure
• Quantify protein expression across samples, replicates, or fractions
• Ensures support for all types of proteomic experiments including large scale clinical proteomics and basic protein identification
Value•Advanced normalizations•Error reduction•Improve quant confidence
ProteoIQ Delivers Industry Leading Data VisualizationProteoIQ Delivers Industry Leading Data Visualization
GlobalChange
ProteinCentric
PeptideCentric
MSCentric
ProteoIQ Delivers Unrivaled Data InteractionProteoIQ Delivers Unrivaled Data Interaction
50+ Data Types 2000+ Filter Conditions 20+ Dynamic Plots
Rapid Qualitative Comparisons with ProteoIQRapid Qualitative Comparisons with ProteoIQ
Qualitative Comparisons•Assess global proteome changes or sampling deviations
• Click to select unique proteins or proteins shared between multiple groups
• Perform set logic on selected protein sets
Value•Rapid identification of protein/peptide subsets•Drill down prior to quantification•No more need for excel
Enhanced Spectral Count Quantification in ProteoIQEnhanced Spectral Count Quantification in ProteoIQ
Spectral counting•Compare and normalize expression across replicates and groups
• Remove outliers and analyze reproducivility
• Quickly select up or down regulated proteins
Robust Isobaric Tag Quantification in ProteoIQRobust Isobaric Tag Quantification in ProteoIQ
Support for common workflowsiTRAQ duplexiTRAQ fourplexiTRAQ eightplexTandem Mass Tags (TMT) duplexTandem Mass Tags (TMT) sixplexOr create your own custom reagent
ProteoIQ Supports Isotopic Label Based QuantificationProteoIQ Supports Isotopic Label Based Quantification
Support for common workflowsSILACICATDimethyl labeling18O15NAcetylation
Value•Quantify more peptides by combining multiple search result types•Ensure accuracy through complete quant control•Deploy S/N thresholds, baseline detection and smoothing
Label Free Quantification in ProteoIQLabel Free Quantification in ProteoIQ
Simple workflow1. Define samples, replicates, or fractions2. Enter DB search results and instrument files3. Select customizable label free quant parameters4. ProteoIQ extracts peak intensities for every peptide from your MS files5. Extracted ion chromatograms are generated for every peptide
Anything but black box software
•Dynamic extracted ion chromatograms•Instant access to all MS and MS/MS data•Control every aspect of quant
ProteoIQ Helps You Get to Biology QuickerProteoIQ Helps You Get to Biology Quicker
“Another goal that I think is not quite so near-term but is certainly achievable or, at least, worth the attempt, is to use proteomics to eventually get enough information that we can understand how different biological processes are controlled within the cell and how they interconnect with each other. “ Ruedi Aebersold. Science Watch 2004
Biological Annotation in ProteoIQBiological pathwaysProtein localizationProtein functionMembrane spanning domainsSignal peptide predictionsCross referencing DNA/RNA expression
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