Large Scale Annotation of Genomic Datasets with Genephony UFGI Large Scale Annotation of Genomic Datasets with Genephony Alberto Riva University of Florida ariva@ufl.edu © 2007, Alberto Riva 11/21/2018

Web-accessible; relies on local database for speed and consistency. Genephony Genephony is an interactive, flexible and easy to use system for the manipulation of large genomic datasets. Handles datasets of hundreds of thousands of elements; automates common annotation operations. Web-accessible; relies on local database for speed and consistency. © 2007, Alberto Riva 11/21/2018

Dataset creation Example: “Locate all validated SNPs falling in putative Transcription Factor binding sites in the promoters of all genes in the p14.3 band of chromosome 3.” Will use: positions of transcripts and SNPs, predicted TFBSs from MAPPER. © 2007, Alberto Riva 11/21/2018

Derivation and filtering © 2007, Alberto Riva 11/21/2018

Combining datasets © 2007, Alberto Riva 11/21/2018

Other features under development: SOAP interface; Multiple organisms (currently human only); Reannotation of uploaded files; Simple data analysis; Additions to knowledge base: PubMed, protein interactions, public gene expression data, etc… Prototype available at: http://bioinformatics.ufl.edu/tools/ © 2007, Alberto Riva 11/21/2018