Ivan G Costa

Alumn

Ph.D. Bioinformatics, June 2008, FU Berlin.
Now Professor for computational biology, Interdisciplinary Center for Clinical Research (IZKF) Aachen, University Hospital Aachen.

E-mail: filho@molgen.mpg.de

I obtained my M.Sc. and B.Sc. degrees in computer science at the Universidade Federal de Pernambuco, Brazil. I joined the Algorithmics group in 2004, and completed my Ph.D.in 2008. My research interests are in the area of classification and clustering, as well as applications of these in transcriptomics and analysis of heterogeneous data.

Professor for computational biology, Interdisciplinary Center for Clinical Research (IZKF) Aachen, Helmholtz Institute for Biomedical Engineering, Centre of Medical Technology, University Hospital Aachen.

Publications

Marshall et al.. CLEVER: Clique-Enumerating Variant Finder. Bioinformatics 2012, 28:22, 2875–82..

Marshall et al.. CLEVER: Clique-Enumerating Variant Finder. Technical report, Jul 2012. Arxiv.

Mahmud et al.. Indel-tolerant Read Mapping with Trinucleotide Frequencies using Cache-Oblivious kd-Trees. Bioinformatics 2012, 28:18, i325–i332.

Hafemeister et al.. Classifying short gene expression time-courses with Bayesian estimation of piecewise constant functions. Bioinformatics 2011, 27:7, 946–52.

Schilling et al.. pGQL: A Probabilistic Graphical Query Language for Gene Expression Time Courses. BioData Mining 2011, 4:9.

Presentations

July 1, 2009. Constrained Mixture Estimation for Analysis and Robust Classification of Clinical Time Series. Contributed Talk at ISMB/ECCB, Stockholm, Sweden

July 21, 2008. Inferring Differentiation Pathways from Gene Expression. Contributed Talk at International Conference of Intelligent Systems for Molecular Biology, Toronto, Canada

Aug. 29, 2007. Validating Gene Clusterings by Selecting Informative Gene Ontology Terms with Mutual Information. Contributed Talk at Brazilian Symposium on Bioinformatics

Sept. 18, 2006. On the Feasibility of Heterogeneous Analysis of Large Scale Biological Data. Contributed Talk at ECML Workshop on Data and Text Mining for Integrative Biology

Aug. 8, 2006. Gene Expression Trees in Blood Cell Development. Contributed Talk at Plos Track of the International Conference on Intelligent Systems for Molecular Biology

Project or Software Lead

DrosophilaDevelopment: Gene regulation during early Drosophila development.

MASCAAT: Meta-Learning for Selection and Combination of Clustering Algorithms Applied to Gene Expression Analysis.

CellDiff: Understanding transcriptional regulation in cell differentiation.

GQL: Graphical Query Language.