Stephanie K Bunt, Matthew Traxler, Bridget Zimmerman, Marcy Rosenbaum, Sally Heaberlin, Peter F Cronholm, Eliza W Kinsey, Kelly Skelly
Family Medicine Clinician Screening and Barriers to Communication on Food Insecurity: A CERA General Membership Survey
Journal of the American Board of Family Medicine : JABFM
past decade rna sequencing mass spectrometry based quantitative approaches used commonly identify differentially expressed biomarkers different biological conditions data generated approaches come different sizes eg count matrix normalized list differentially expressed biomarkers etc shapes eg sequences spectral data etc list differentially expressed biomarkers used functional interpretation retrieve biological meaning however requires moderate computational skills thus researchers programming expertise find difficulty data interpretation several bioinformatics tools available analyze data however less flexible performing multiple steps visualization functional interpretation developed easytouse shiny based web application named omnalysis provides users single platform analyze visualize differentially expressed data omnalysis accepts data tabular form edger deseq2 maxquant perseus r packages similar software typically contains list differentially expressed genes proteins log fold change log count per million p value qvalue etc key features omnalysis multiple image type visualization dimension customization options seven multiple hypothesis testing correction methods get significant gene ontology network topologybased pathway analysis multiple databases support kegg reactome panther biocarta ncinature pathway interaction database pharmgkb stringdb extensive pathway enrichment analysis omnalysis also fetches literature information pubmed provide supportive evidence biomarkers identified analysis nutshell present omnalysis wellorganized user interface supported peerreviewed r packages updated databases quick interpretation differential transcriptomics proteomics data biological meaning omnalysis codes entirely written r language freely available httpsgithubcompunit201016omnalysis omnalysis also accessed httplbmiuvlfskomnalysishtml omnalysis hosted shiny server httpsomnalysisshinyappsioomnalysis minimum system requirements 4 gigabytes ram i3 processor equivalent compatible operating system windows linux mac omnalysis heavily tested chrome web browsers thus chrome preferred browser omnalysis works firefox safari