Calibrate and tune your Orbitrap Exploris instruments - Calibrate and tune your Orbitrap Exploris instruments

MAM 2.0 Quick Start Guide
Product Tree
Ardia Platform > Solutions > MAM
Document Type
User Guide
Quick Start Guide
  • Quick Start Guide
  • Copyright and trademarks
  • Introduction
  • About the MAM 2.0 workflow
  • Reference documentation
  • Access product Help and documentation
  • Documentation conventions
  • Installation, configuration, and validation
  • Vanquish UHPLC systems
  • Orbitrap Exploris mass spectrometry instruments
  • Calibrate and tune your Orbitrap Exploris instruments
  • Chromeleon CDS software, BioPharma Finder software, and the Ardia Platform
  • Register with the Ardia Platform
  • Use the BioPharma Finder software in Ardia Platform mode
  • Use the Chromeleon CDS software in Ardia Platform mode
  • Connect to the Ardia Platform
  • System performance evaluation test
  • Protein characterization based on data-dependent MS/MS scans
  • Setting up the instrument method
  • Settings for the liquid chromatography
  • Settings for the mass spectrometric detection
  • An instrument method for shutdown
  • Running the injection sequence for sample characterization
  • Creating the sequence
  • Queueing and running the sequence
  • Saving acquired data to the Ardia Platform
  • Peptide mapping in BioPharma Finder software
  • Running a peptide mapping analysis
  • Adding a sequence to the Sequence Manager
  • Setting up the peptide mapping analysis experiment
  • Assessing peptide mapping results
  • Opening your peptide mapping analysis results
  • Viewing the results table
  • Defining PQAs for your analysis
  • Selecting PQAs in the results table
  • Reporting
  • Creating a target peptide workbook
  • Designing a PQA monitoring method in the Chromeleon CDS software
  • Setting up the processing method
  • Processing method settings for high-resolution MS data
  • Importing a target peptide workbook
  • Extracted ion chromatograms and the MS Quantitation channel
  • View settings suitable for MAM
  • Refining the processing method
  • Adjusting parameters related to components
  • Updating XIC filters for all components
  • Making the integration more robust
  • Dealing with isoforms from oxidation
  • Dealing with deamidation
  • Confirming peak identification with composite scoring
  • Setting up composite scoring
  • Adding isotopic distribution interactive chart to view settings
  • Dealing with components that did not pass composite scoring
  • Attribute monitoring using only full-MS data
  • Full-MS-only instrument method
  • Resolving issues with components with failed identification
  • New peak detection
  • Setting up new peak detection with PRTC-spiked injection
  • Filtering the component results
  • Scoring injections
  • System validation: System suitability test
  • Creating the SST processing method
  • Specifying the test cases
  • Viewing the test case results
  • Reporting PQA monitoring results in the Chromeleon CDS software
  • Sequence overview page
  • System suitability test page
  • Oxidation page, deamidation page, and N-glycans page
  • New peak detection page
  • Composite scoring page
  • General settings for the report template
  • Beyond the research lab: Quality control with Chromeleon eWorkflow procedures
  • Designing the eWorkflow procedure
  • Specify the sequence layout
  • Using eWorkflow procedures

IMPORTANT

Before running any step of the MAM 2.0 workflow, make sure that your MS instrument is fully tuned and calibrated. For detailed steps, refer to the Orbitrap Exploris Series Tune Help.

For details of the instrument method setup in the Chromeleon CDS software to run an analysis, see Setting up the instrument method and Attribute monitoring using only full-MS data.

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