Marinka Zitnik

Fusing bits and DNA

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Article: Invited Talk on Learning Latent Factor Models by Data Fusion

Our invited talk at the Workshop on Matrix Computations for Biomedical Informatics at the 15th Conference on Artificial Intelligence in Medicine, AIME in Pavia, Italy, discussed the use of collective latent factor models for various predictive...

Article: Data Fusion Tutorial at the Basel Computational Biology Conference

Together with Blaz Zupan we organize a tutorial on data fusion at the Basel Computational Biology Conference ([BC]^2). The tutorial is targeted at computational scientists, data mining researchers and molecular biologists interested in large-scale...

Article: Syst Biomed: Survival Regression by Data Fusion

Our recent paper in Systems Biomedicine describes a new computational approach that predicts patient’s survival time from a collection of heterogeneous data sets. This is the full paper of our award winning entry at CAMDA meeting at ISMB 2014, Boston,...

Article: J Comp Biol: Network-Guided Matrix Completion

Our recent paper in Journal of Computational Biology introduces an interaction data imputation method called network-guided matrix completion (NG-MC). The core part of NG-MC is low-rank probabilistic matrix completion that incorporates prior knowledge...

Article: ACM XRDS: The Anatomy of a Human Disease Network

The Winter 2014 issue of ACM XRDS is here! This issue is on health informatics, which has received considerable attention both in research and general public in recent years. You can read about the opportunities of social media in health and...

Article: ACM XRDS: Dynamics of News from The New York Times

New issue of ACM XRDS is here! The focus of this issue is on techniques for natural language processing in the broader sense. You will find interesting stories about how to detect influencers in social media discussions, how to successfully transition...

Article: @Heidelberg Laureate Forum 2014

Recently, I have participated as young researcher in computer science at Heidelberg Laureate Forum. I encourage the reader to check recordings of some of the talks, which are available at official HLF website. If limited by time I recommend at least ...

Article: Google Global Planning Committee for Women in Computer Science

I have been given an opportunity to join Google Global Planning Committee for Women in Computer Science in an effort to identify ways we can have the greatest impact and reach more women in tech. As member of this committee I will partner with Google...

Also labeled: Google

Article: @Stanford University, Department of Computer Science

I am visiting the Department of Computer Science at Stanford University, CA, USA in Summer and Fall 2014. During my stay we will study the interplay between network analysis, data integration and biology. There are many exciting challenges one can...

Article: ISMB 2014: Epistasis-Based Gene Network Inference

I have presented our recent approach for epistasis-based gene network inference at ISMB 2014. We propose a factorized model of interactions that is used for scoring of different types of gene-gene relationships, such as epistasis, parallelism and...

Article: CAMDA 2014: Survival Regression by Data Fusion

I have presented at CAMDA 2014 an extension of our recent matrix factorization-based data fusion approach that couples data fusion with survival regression. CAMDA 2014 runs as a satellite meeting at ISMB 2014, Boston, MA, USA. Our presentation got ...

Article: Gene network inference by probabilistic scoring of relationships from a factorized model of interactions

Bioinformatics just published a special issue devoted to ISMB 2014 proceedings papers that will be presented next month at the world's premier conference on computational biology -- ISMB 2014 in Boston, MA, USA. Our paper, Gene network inference by...

Article: ACM XRDS: Exploring Data with Topological Tools

The Summer issue of ACM XRDS is here! This issue focuses on diversity in computer science. You will find columns about how to make the tech more inclusive, women in computing, self-teaching and how hip-hop lyrics can be used in combination with...

Article: Young Researcher in the Heidelberg Laureate Forum 2014

I have been selected to participate as young researcher in the Heidelberg Laureate Forum 2014 (HLF). The Forum will take place in September and will bring together winners of the Abel Prize and Fields Medal (mathematics) as well as the Turing Award...

Article: ACM XRDS: Efficient Sensor Placement for Environmental Monitoring

The Spring 2014 issue of XRDS: Crossroads, the ACM magazine for students is about cyber-physical systems. My XRDS department contributed a column on efficient sensor placement for environmental monitoring. The column is about an important problem of...

Article: @RECOMB 2014, Pittsburgh, PA (Part II)

We are presenting a poster about our recent data fusion methodology (ArXiv preprint) at RECOMB Conference. Thanks to Prof. Blaz Zupan for the storyline and Prof. Richard H. Kessin for valuable comments. xkcd.com served as an inspiration of poster...

Article: @RECOMB 2014, Pittsburgh, PA (Part I)

We got accepted a paper on Imputation of Quantitative Genetic Interactions in Epistatic MAPs by Interaction Propagation Matrix Completion to RECOMB 2014. Epistatic Miniarray Profile (E-MAP) is a popular large-scale gene interaction discovery...

Article: @Pacific Symposium on Biocomputing 2014, Hawaii

I am participating at PSB 2014, Pacific Symposium on Biocomputing, an international conference of current research in the theory and application of computational methods in problems of biological significance, which is held on the Big Island of...

Article: @Baylor College of Medicine, Department of Molecular and Human Genetics

Between December 2013 and August 2014 I am visiting the Department of Molecular and Human Genetics at Baylor College of Medicine, Houston, TX, USA. During my stay we will do research on computational methods for data fusion and their applications in...

Article: ACM XRDS: On Constructing the Tree of Life

The Winter 2013 issue of XRDS: Crossroads, the ACM magazine for students features the latest in wearable computing, such as wearable brain computer interface, human motion capturing and tracking how we read, the augmented reality and airwriting. In ...