MathIOmica: a unique platform for omics analysis and integration. MathIOmica's current version: 1.1.3.
See also MathIOmica's github page.
"Personalized medicine is expected to benefit from combining genomic information with regular monitoring of physiological states by multiple high- throughput methods. Here, we present an integrative personal omics profile (iPOP), an analysis that combines genomic, transcriptomic, proteomic, metabolomic, and autoantibody profiles from a single individual over a 14 month period. Our iPOP analysis revealed various medical risks, including type II diabetes. It also uncovered extensive, dynamic changes in diverse molecular components and biological pathways across healthy and diseased conditions. Extremely high-coverage genomic and transcriptomic data, which provide the basis of our iPOP, discovered extensive heteroallelic changes during healthy and diseased states and an unexpected RNA editing mechanism. This study demonstrates that longitudinal iPOP can be used to interpret healthy and disease states by connecting genomic information with additional dynamic omics activity."
From Personal Omics Profiling Reveals Dynamic Molecular and Medical Phenotypes
Curated mapped subsets of the pilot iPOP data are utilized in MathIOmica for examples and documentation. The original raw data for the pilot iPOP study have been made publically available as follows:
snyderome contains local repository of iPOP data
Stand-alone helper tools to aid in visualization
MathIOmica utilizes in-built Mathematica Documentation. A printout of various documentation is provided below in pdf form.
A Python version is now in development
MathIOmica is released under an MIT License. If you use the package please cite the relevant publications: