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Guest Talk: BIOOPENER: Linking & Querying Cancer Genomics Repositories

Qaiser Mehmood

Date/Time: 11.05.2017, 09:00 

Loca­tion: D2.2.094 


Next Gene­ra­tion Sequen­cing (NGS) is playing a vital role in the thera­peutic deci­sion making for the cancer prognosis and treat­ment. NGS tech­no­lo­gies produces a massive amount of data­sets from diffe­rent publis­hers. Conse­quently, the process of sharing and aggre­ga­ting this hete­ro­ge­nous data­sets are thwarted by issues such as rele­vant data disco­very, linking and querying. One of the key chal­lenge in cancer geno­mics medi­cine is to discover the gene-­di­sea­se-drug asso­cia­tions that enhance the deve­lop­ment of new tech­ni­ques tailored specific for an indi­vi­dual patient targe­ting preven­tion, diagnosis and treat­ment of the disease. We propose a seman­ti­cally- inter­linked plat­form called BIOO­PENER that glues toge­ther hete­ro­ge­neous cancer and biome­dical repo­si­to­ries. The key approach is to discover, filling in missing links and querying these data­sets to bring back the desired results. Since BIOO­PENER works on top of graph data so inves­ti­ga­ting into best linking and opti­mized SPARQL query tech­ni­ques are parts of this rese­arch work.


Qaiser Mehmood holds the MSc degree in computer engi­nee­ring from Mid Sweden Univer­sity, Sweden. He is a PhD student at Insight Centre for Data Analy­tics (formerly: Digital Enter­pirse Rese­arch Insiti­tute DERI), National Univer­sity Of Ireland Galway Ireland. His rese­arch inte­rests include Semantic Web, Query Fede­ra­tion, Data Cata­lo­guing and Linking. As a PhD student his rese­arch work is mainly focused on SPARQL Property Paths and Graph mining.

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