Links & Acknowledgements

This project is under development by joint efforts from the Systems Engineering and Computer Science Program at the Federal University of Rio de Janreiro (Brazil) and the Biological Mass Spectrometry Laboratory (Yates Lab) from the Scripps Research institute (La Jolla, California).

Links - If your manuscript references PatternLab, or if you add a link to this website, please email me (paulo at pcarvalho.com) so I can link you here.

Publications related to PatternLab:

Weifeng Gu, et al., Molecular Cell, Volume 36, Supplemental Data, , Distinct Argonaute-Mediated 22G-RNA Pathways Direct Genome Surveillance in the C. elegans Germline, 2009.

YADA: A tool to take the most out of high-resolution mass spectra. Bioinformatics, 2009.

Genome analysis and genome-wide proteomics of Thermococcus gammatolerans, the most radioresistant organism known amongst the Archaea, Zivanovic et al., Genome Biology, 2009.

GO Explorer: A gene-ontology tool to aid in the interpretation of spectral counting data in shotgun proteomics
Proteome Science 2009, 7:6

Charge Prediction Machine, Analytical Chemistry, 2009, a podcast is also available here.

PatternLab for differential shotgun proteomics, Journal of Proteome Research, 2008; highlights

[Link to PatternLab for proteomics manuscript in BMC Bioinformatics]

[Link to PatternLab poster presented at the LaJolla Proteomics meeting in UCSD, 2008]

[Identifying differences in protein expression levels by spectral counting and feature selection, 2008]

 

Acknowledgments

** PatternLab uses SVMLight to perform any SVM calculation.

** PatternLab also makes use of ALGLIB