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  1. Protocols
  2. Parent Protocol 'Marelli_protocol (LCMS2)'

Protocol Step: Marelli_protocol LC MS2

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Standard Properties

 
Name Marelli_protocol LC MS2
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Instrument
Software
Description ICAT-labeled peptides were analyzed by µLC-ESI-MS/MS. Peptides were separated by on-line reversed-phase chromatography using a 75 µm x 10 cm self-packed Magic C18AQ column (Michrom BioResources) at a flow rate of 300 nL/min. Peptide fragmentation by collision-induced dissociation was performed in an automated fashion using the dynamic-exclusion option from the full-range MS spectra or by GPFm/z using an ion trap mass spectrometer (Thermofinnigan; Yi et al., 2002).
Max input data per instance 0
Max input material per instance 1
Output data per instance 1
Output material per instance 0

Protocol Parameters

 
OutputDataLSIDTemplate ${RunLSIDBase}:RAWFile
ApplicationLSIDTemplate ${RunLSIDBase}:${InputLSID.objectid}.LCMS2
OutputDataNameTemplate raw file (N/A)
ApplicationNameTemplate MS2 scan

Protocol Details

 
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Data Inputs
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Material Outputs
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Data Outputs
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Protocol Predecessors
Name
Description
Marelli_protocol Sample Prep10An organellar 20KgP fraction was subjected to isopycnic density gradient centrifugation and analyzed by SDS-PAGE and Coomassie blue staining. Fractions enriched for peroxisomes (EP) or mitochondria (M) were identified by Western blotting. Equal amounts of protein derived from each of the hypotonically lysed M and EP fractions were combined and analyzed by ICAT MS/MS.
Protocol Successors
Name
Description
Convert to mzXML40