Finding Protein Sequences Using PROWL
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- Abstract
- Table of Contents
- Figures
- Literature Cited
Abstract
PROWL is a collection of tools for the identification of protein sequences, using input data derived from mass spectrometry. Experimental data from various types of mass spectrometers can be input directly into PROWL's component software. This unit presents protocols for several of the individual PROWL tools. Specifically, PepFrag allows for the analysis of a single spectrum derived from tandem mass spectrometry. GPM, on the other hand, provides for the analysis of multiple MS/MS spectra. An additional protocol introduces ProFound for analyzing a single spectrum of peptide mass fingerprinting data.
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PDF or HTML at Wiley Online LibraryTable of Contents
- Basic Protocol 1: Using PROWL with the Web Interface from the Rockefeller Server with Tandem Mass Spectrometry (MS/MS) Data: PepFrag
- Basic Protocol 2: Using PROWL with the Web Interface from the Rockefeller Server with Tandem Mass Spectrometry (MS/MS) Data: GPM
- Support Protocol 1: Using Advanced Features for GPM Searches
- Basic Protocol 3: Using PROWL with the Web Interface from the Rockefeller Server with Peptide Fingerprinting Mass Spectrometry (MS) Data: ProFound
- Guidelines for Understanding Results
- Commentary
- Literature Cited
- Figures
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Figure 13.2.1 The start page for a PepFrag session. View Image -
Figure 13.2.2 Results obtained from a PepFrag search. View Image -
Figure 13.2.3 The start page for a GPM session. View Image -
Figure 13.2.4 Initial results page obtained from a GPM search. View Image -
Figure 13.2.5 Homologue page for one protein. View Image -
Figure 13.2.6 Protein model page, upper section showing sequence coverage. View Image -
Figure 13.2.7 Protein model page, lower section showing spectrum assignments. View Image -
Figure 13.2.8 The peptide model display page. View Image -
Figure 13.2.9 The start page for a ProFound session. View Image -
Figure 13.2.10 Results obtained from a ProFound search. View Image -
Figure 13.2.11 Details of a match between the data and a protein sequence. View Image
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Literature Cited
| Literature Cited | |
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