THEGPM.ORG
THE GPMThe Global Proteome Machine Organisation. The organisation supports open source bioinformatics tools for large scale proteomics and systems biology
http://www.thegpm.org/
The Global Proteome Machine Organisation. The organisation supports open source bioinformatics tools for large scale proteomics and systems biology
http://www.thegpm.org/
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THE GPM | thegpm.org Reviews
https://thegpm.org
The Global Proteome Machine Organisation. The organisation supports open source bioinformatics tools for large scale proteomics and systems biology
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GPMDB Proteome Database
The Global Proteome Machine Database was constructed to utilize the information obtained by GPM servers to aid in the difficult process of validating peptide MS/MS spectra as well as protein coverage patterns. This database has been integrated into GPM server pages, allowing users to quickly compare their experimental results with the best results that have been previously observed by other scientists. Search by protein description keywords. Returns results with either. Mark with a plus : statin. Enter ...
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thegpm.org
The GPM News Archive, 2013
http://www.thegpm.org/news.html
Data set of the week: (2014/12/20). Different binding motifs of the celiac disease-associated HLA molecules DQ2.5, DQ2.2, and DQ7.5 revealed by relative quantitative proteomics of endogenous peptide repertoires. Excellent data (leading the field). This data set consisted of 51 results. Analyzed by reversed phase HPLC MS/MS. The data files were made available through ProteomeXchange, PXD001205. Data set of the week: (2014/12/10). Very good data (specialist interest). This data set consisted of 5 results.
The GPM Lists index
http://www.thegpm.org/lists/index.html
Index of GPMDB lists. Proteomics often requires the assembly of category wide lists of things. These categories can be proteins associated with particular sequence or biological properties, post-translational modifications, or types of experiments. GPMDB can be used to generate of these lists and this page serves as an index to the lists announced for the system. Available lists of things. List of all amino acid polymorphisms. GPMDB Guide to the Human Proteome. GPMDB Guide to the Mouse Proteome. GYP) Thi...
GPM - Basic Concepts in the Computational Analysis of Proteomics Data
http://www.thegpm.org/basics/index.html
Basic Concepts in the Computational Analysis of Proteomics Data. A blog by Ron Beavis that focuses on basic concepts in proteomics data analysis. The entries are supposed to provide some insight into topics of current interest in the field as well as some historical context for new developments. Proteomics basics 101 #6, by Ron Beavis (2015/05/20). Monte Carlo methods for evaluating LC/MS/MS data sets: II. Peptides and derviatives. Figure 1 illustrates relationship between S. And the number of unique pep...
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GPM Cyclone, simple search form
http://h003.thegpm.org/tandem/thegpm_tandem.html
Waiting for news from GPM. GPM Cyclone, simple search form. Common, mzXML, mzData, DTA, PKL or MGF only. Skyline data file name:. Parameter name = spectrum, skyline path. The full filename and path you want Skyline to use as the spectrum data source. This can be different from the name entered above. Leave blank if you do not want Skyline-style file annotation. Select one or more. Check for known PTMs. Potential modifications ( unimod. Check for known PTMs. Method: Select device and parent δm.
GPM Cyclone, simple search form
http://hs2.proteome.ca/tandem/thegpm_tandem.html
Waiting for news from GPM. GPM Jackhammer, simple search form. Common, mzXML, mzData, DTA, PKL or MGF only. Select one or more. Check for known PTMs. Potential modifications ( unimod. Check for known PTMs. Method: Select device and parent δm. Sciex 5500 (20 ppm). Sciex 5600 (20 ppm). Ion Trap (4 Da). Parameter name = gpmdb, add. This parameter is not used by the search engine: it is a GPMDB directive. This parameter can have three values, with the following interpretations:. Do not add the data to GPMDB.
GPM Cyclone, simple search form
http://bacteria.thegpm.org/tandem/thegpm_tandem.html
Waiting for news from GPM. GPM Cyclone, simple search form. Common, mzXML, mzData, DTA, PKL or MGF only. Skyline data file name:. Parameter name = spectrum, skyline path. The full filename and path you want Skyline to use as the spectrum data source. This can be different from the name entered above. Leave blank if you do not want Skyline-style file annotation. Select one or more. Check for known PTMs. Potential modifications ( unimod. Check for known PTMs. Method: Select device and parent δm.
home
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Ten Questions Before Grad School. Edited by Christopher Hogue. Edited by Christopher Hogue. Attachment from Christopher Hogue. Edited by Christopher Hogue. Edited by Christopher Hogue. Attachment from Christopher Hogue. Edited by Christopher Hogue. Christopher W.V. Hogue, Ph.D. Blog: http:/ bioimplement.blogspot.com/. LinkedIn: www.linkedin.com/in/cwvhogue/. Http:/ www.researcherid.com/rid/B-6726-2008. Updated 25 Oct 2014. 2 Now Open Source. - email chogue {at} blueprint.org. Xiang Wen Wei (MSc. 2013).
Images – Proteios SE
http://www.proteios.org/trac/wiki/Images
Beginning with Proteios SE 2.17, preconfigured server images are available in Amazon EC2 and VMware formats. The server images have. Preinstalled, and user accounts with files for tutorials. These images are ideal if you want to test Proteios without going through the installation and configuration procedures. The images can also be used as a basis for your own server. Just remember to change the relevant passwords in this case. Can be directly launched at this. Server image is available at this. Where t...
.:: ProMeta ::. - Links
http://www.prometa.kuleuven.be/en/links.htm
Skip to: page content. Links on this page. ProMeta - Interfacultary Center for Proteomics and Metabolomics. Contact or reach us. University Hospital of Leuven. Faculty of Agricult. and Appl. Biol. Sciences. Faculty of Pharmaceutical Sciences. HUPO Proteomics Standards Initiative. The Global Proteome Machine Organization.
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GPMDB @ CNIC, CAS
The Global Proteome Machine Database. What is the gpm. Search by GPM data accession number. Enter the GPM number for the data that you wish to access. GPM numbers are in the format GPMdddxnnnnnnnn where:. Ddd is the 3 digit identifier for the GPM installation used; and. Nnnnnnnn is the 8 digit serial number for that data set. Enter multiple GPM numbers for the data that you wish to access, entering one GPM number per line. For example:. Will display a gel-type display comparing these three datasets.
THE GPM
Proteomics basics 101 #6, by Ron Beavis (2015/05/20). Monte Carlo methods for evaluating LC/MS/MS data sets: II. Peptides and derviatives. Monte Carlo simulations for this type of analysis are performed in the same way as they were for proteins. more . Proteomics basics 101 #5, by Ron Beavis (2015/05/05). Monte Carlo methods for evaluating LC/MS/MS data sets: I. Protein ids. Guides to the Human and Mouse Proteomes v. 18 released (2015/4/20). Tandem PILEDRIVER released (2015/4/17). The latest version of X!
The GPMF - Home
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