Haplone In 5min

Molecular Anthropology in the Genomic Era HaPlone: a User-Friendly Web-Based Application for the Management of Molecular Antropology Data Andrea Zauli1, Alessio Boattini2, Alberto Eusebi1, Mauro Amico1, Ivan Rossi*,1, Rita Casadio2, Donata Luiselli2, Davide Pettener*,2 (1) BioDec S.r.l., Via Calzavecchio 20/2, 40033 Casalecchio di Reno (BO), Italy (2) Dip. di Biologia E. S., Univ. of Bologna, Via Selmi 3 , 40126 Bologna, Italy (*) Email: davide.pettener@unibo.it , ivan@biodec.com Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

What is HaPlone? ● An application for the management of molecular anthropology data, built on top of the open-source enterprise-grade Plone Content Management System (http://plone.org) ● It has been developed for the “BiBi – Biodiversity and Bioinformatics” project of the University of Bologna. One of the goals was “the design, the implementation, the test and maintenance of a data base useful for theoretical studies”. Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

What HaPlone does ... ● Allows to store, inspect, search and retrieve data through the familiar interface of a standard web browser ● It now handles Y-UEP and Y-STR molecular data, together with personal data ● Population subsets can be easily selected (by location, haplogroup, sex, MRCA) using simple query forms, whose reports also provide basic grouping, statistics and charts on the selected sets. Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

What HaPlone does ... ● Massive data import may be performed from CSV files ● The selected data can be exported to external programs (via CSV files). ● By leveraging on Plone access- control features, the application can handle selective fine-grained access control to stored data, so it can be used both for internal information sharing and data dissemination simultaneously. Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

● Data are stored in the "Subject" data structure, containing both personal and molecular data. ● Easy editing of UEP and STR data. ● For each subject, the application calculates on-the-fly the haplogroup, based on its tested UEPs, as well as the most recent common ancestor for each sexual lineage, based on the stored population. Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

Error checking The system also takes care of checking data consistency and flags the user for potential errors through on-the-fly: ● error-checking on conflicting or inconsistent UEPs with respect to the calculated haplogroup and branch nodes; ● flagging out-of-range STRs Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

Would like to see more? ● The first public HaPlone installation is at http://anthropos.biocomp.unibo.it ● ..but if you stop by the poster, I have it running on my laptop and you may see it live Molecular Anthropology in the Genomic Era Rome, Dec. 3rd-5th 2009

Haplone In 5min

by BioDec Srl on Dec 09, 2009

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Haplone In 5min — Presentation Transcript