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perseus:start [2018/07/18 16:10]
rudolph [Cite]
perseus:start [2018/10/19 09:34] (current)
rudolph [Cite] Add link to PerseusNet manuscript
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 ====== Perseus ====== ====== Perseus ======
 +The Perseus software platform supports biological and biomedical researchers in interpreting protein quantification,​ interaction and post-translational modification data. Perseus contains a comprehensive portfolio of statistical tools for high-dimensional omics data analysis covering normalization,​ pattern recognition,​ time-series analysis, cross-omics comparisons and multiple-hypothesis testing. A machine learning module supports the classification and validation of patient groups for diagnosis and prognosis, and it also detects predictive protein signatures. Central to Perseus is a user-friendly,​ interactive workflow environment that provides complete documentation of computational methods used in a publication.
 {{ :​perseus:​perseus_figure1.jpg?​nolink&​600 |}} {{ :​perseus:​perseus_figure1.jpg?​nolink&​600 |}}
  
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   * Hands-on tutorials and theoretical lectures are available on the [[https://​www.youtube.com/​channel/​UCKYzYTm1cnmc0CFAMhxDO8w|MaxQuant youtube channel]].   * Hands-on tutorials and theoretical lectures are available on the [[https://​www.youtube.com/​channel/​UCKYzYTm1cnmc0CFAMhxDO8w|MaxQuant youtube channel]].
   * Participate in our annual [[http://​summerschool.maxquant.de|MaxQuant summer school]] to gain even deeper insights into MaxQuant and Perseus.   * Participate in our annual [[http://​summerschool.maxquant.de|MaxQuant summer school]] to gain even deeper insights into MaxQuant and Perseus.
 +  * Read the protocol-style [[https://​link.springer.com/​protocol/​10.1007/​978-1-4939-7493-1_7|book chapter]] on Perseus.
   * Join the discussion around Perseus and data analysis on the [[https://​groups.google.com/​forum/#​!forum/​perseus-list|Perseus mailing list]] -- a great place to ask any question and get answers from the community.   * Join the discussion around Perseus and data analysis on the [[https://​groups.google.com/​forum/#​!forum/​perseus-list|Perseus mailing list]] -- a great place to ask any question and get answers from the community.
  
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 ==== Cite ==== ==== Cite ====
-If you use Perseus in your project, please cite:\\ [[https://​www.nature.com/​articles/​nmeth.3901|"The Perseus computational platform for comprehensive analysis of (prote)omics data"]] //Nat. Methods 2016//.+If you use Perseus in your project, please cite:\\ 
 +[[https://​www.nature.com/​articles/​nmeth.3901|The Perseus computational platform for comprehensive analysis of (prote)omics data]] //Nat. Methods ​2016//. 
 + 
 +Network analysis, co-expression and PluginInterop:​\\ 
 +[[https://​www.biorxiv.org/​content/​early/​2018/​10/​18/​447268|A network module for the Perseus software for computational proteomics facilitates proteome interaction graph analysis]] //BioRxiv 2018//. 
 + 
 +Find a predictive protein signature using SVMs:\\ 
 +[[https://​www.nature.com/​articles/​ncomms10259|Proteomic maps of breast cancer subtypes]] //Nat. Comm. 2016//.
  
-=== Additional publications === +Perform 1D or 2D annotation enrichment:​\\ 
-Please consider citing the following articles if applicable. +[[https://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3489530/​|1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data]] //BMC Bioinformatics 2012//.
-  * Find a predictive protein signature using SVMs:\\ [[https://​www.nature.com/​articles/​ncomms10259|Proteomic maps of breast cancer subtypes]] //Nat. Comm. 2016//. +
-  * Perform 1D or 2D annotation enrichment:​\\ [[https://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3489530/​|1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data]] //BMC Bioinformatics 2012//.+
  
 ==== Report a bug ==== ==== Report a bug ====
  
 See our [[perseus:​common:​report_bug|'​Report a bug']] page. See our [[perseus:​common:​report_bug|'​Report a bug']] page.
perseus/start.1531923059.txt.gz · Last modified: 2018/07/18 16:10 by rudolph