Marinka Zitnik

Fusing bits and DNA

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ISMB 2015: Integrate Everything but the Kitchen Sink

Our poster at ISMB 2015 is concerned with data set selection and sensitivity estimation in collective factor models.

Molecular biology data is rich in volume as well as heterogeneity. We can view individual data sets as relations between objects of different types, for example, function annotations describe relationships between genes and functions. We represent a large data compendium with a multiscale and multiplex relation graph. Recently, latent factor models were developed to fuse such representations and collectively infer accurate prediction models (Zitnik & Zupan, IEEE TPAMI 2015). Here, we are interested in how changes in one relation (data set) affect the latent model of another relation in the context of a given collective latent factor model. For example, in a user-movie recommendation system, how would a change of casting affect user's movie preferences? In bioinformatics, how would a change in gene expression data influence prediction of gene-disease associations?

We address this challenge by developing an approach to estimate dependence between any two relations within a single run of inference algorithm. Forensic derives from the theory of Frechet derivation and matrix conditioning and can be used with any collective matrix factorization.

See our poster for more details.