title: MathIOmica: An Integrative Platform for Dynamic Omics.
abstract: Multiple omics data are rapidly becoming available, necessitating the use of new methods to integrate different technologies and interpret the results arising from multimodal assaying. The MathIOmica package for Mathematica provides one of the first extensive introductions to the use of the Wolfram Language to tackle such problems in bioinformatics. The package particularly addresses the necessity to integrate multiple omics information arising from dynamic profiling in a personalized medicine approach. It provides multiple tools to facilitate bioinformatics analysis, including importing data, annotating datasets, tracking missing values, normalizing data, clustering and visualizing the classification of data, carrying out annotation and enumeration of ontology memberships and pathway analysis. We anticipate MathIOmica to not only help in the creation of new bioinformatics tools, but also in promoting interdisciplinary investigations, particularly from researchers in mathematical, physical science and engineering fields transitioning into genomics, bioinformatics and omics data integration.
authors.affiliation: Michigan State University, Biochemistry and Molecular Biology, East Lansing, MI 48824, USA.
authors.forename: George I
authors.initials: GI
authors.lastname: Mias
authors.affiliation: University of Southern California, Department of Physics and Astronomy, Los Angeles, CA, 90089, USA.
authors.forename: Tahir
authors.initials: T
authors.lastname: Yusufaly
authors.affiliation: Michigan State University, Biochemistry and Molecular Biology, East Lansing, MI 48824, USA.
authors.forename: Raeuf
authors.initials: R
authors.lastname: Roushangar
authors.affiliation: Michigan State University, Biochemistry and Molecular Biology, East Lansing, MI 48824, USA.
authors.forename: Lavida R K
authors.initials: LR
authors.lastname: Brooks
authors.affiliation: Michigan State University, Biochemistry and Molecular Biology, East Lansing, MI 48824, USA.
authors.forename: Vikas V
authors.initials: VV
authors.lastname: Singh
authors.affiliation: Mercy Cancer Center, Department of Radiation Oncology, Mason City, IA 50401, USA.
authors.forename: Christina
authors.initials: C
authors.lastname: Christou
mesh_terms: D019295:Computational Biology; D063990:Gene Ontology; D006801:Humans; D058977:Molecular Sequence Annotation; D040901:Proteomics; D012984:Software