Bioinformatics and Statistical Data Analysis

Description / Workflow

The PPM implements dedicated bioinformatics and biostatistics tools for the analysis and management of large-scale proteomics data. Services are tailored to each project to provide relevant decision-making indicators.

• Data reprocessing: quality control, bias identification, normalization, protein/peptide identification, quantification, validation
• Statistical data analysis: filtering, normalization, grouping, missing data imputation, t-tests, PCA, etc.
• Pipeline design and development: creation of customized data processing workflows
• Data management: submission to public repositories, secure storage, etc.

Applications

• Bottom-up proteomics analysis: peptide/protein identification, quantification, and statistical evaluation
• Functional analysis of biological networks: mapping proteins/biomarkers of interest onto biological networks
• Creation of secure, interfaced databases (clinical and proteomics data): design, development, and management

Requirements / Constraints

• Availability of public and/or private sequence databases for protein identification
• Experimental design with at least three replicates for statistical analysis

Technologies

• Mass spectrometry data management and interpretation software (MaxQuant, Proteome Discoverer, Skyline, etc.)
• Biostatistics software (Perseus, R, etc.)
• Network analysis tools (Cytoscape, Gene Ontology, etc.)
• Computing and storage servers

Sites