@inbook {bBellot17, title = {Efficient Combination of Pairwise Feature Networks}, booktitle = {Neural Connectomics Challenge}, year = {2017}, publisher = {Springer International Publishing}, organization = {Springer International Publishing}, chapter = {7}, issn = {978-3-319-53069-7}, doi = {10.1007/978-3-319-53070-3}, author = {P Bellot and Patrick Meyer}, editor = {Battaglia, D and Guyon, I. and Lemaire, V. and Orlandi, J. and Ray, B. and Soriano, J.} } @article {cBellot Pujalte14, title = {Efficient combination of pairwise feature networks}, journal = {JMLR: Workshop and Conference Proceedings }, volume = {46}, year = {2014}, month = {10/2015}, pages = {77 - 84}, publisher = {JMLR: Workshop and Conference Proceedings}, address = {Nancy, France}, abstract = {

This paper presents a novel method for the reconstruction of a neural network connectivity using calcium fluorescence data. We introduce a fast unsupervised method to integrate different networks that reconstructs structural connectivity from neuron activity. Our method improves the state-of-the-art reconstruction method General Transfer Entropy (GTE). We are able to better eliminate indirect links, improving therefore the quality of the network via a normalization and ensemble process of GTE and three new informative features. The approach is based on a simple combination of networks, which is remarkably fast. The performance of our approach is benchmarked on simulated time series provided at the connectomics challenge and also submitted at the public competition.

}, keywords = {connectomes, elimination of indirect links, network reconstruction algorithms}, author = {P. Bellot and Meyer, P. E.} } @conference {cBosio13a, title = {Ensemble learning and hierarchical data representation for microarray classification}, booktitle = {13th IEEE International Conference on BioInformatics and BioEngineering BIBE}, year = {2013}, month = {11/2013}, publisher = {13th IEEE International Conference on BioInformatics and BioEngineering,}, organization = {13th IEEE International Conference on BioInformatics and BioEngineering,}, address = {Chania, Crete}, abstract = {

Microarray data classification is an open and active research field.

The development of more accurate algorithms is of great interest also because many of the techniques can be straightforwardly applied in analyzing different kinds of omics data.

In this work, an ensemble feature selection algorithm is applied within a binary classification framework from [1] that already got good predictive results. Ensemble feature selection is a rich field of research.

Ensemble techniques take some individual experts (i.e. classifiers) to combine them to improve the individual expert results with a voting scheme.

In this case, a thinning algorithm is proposed which starts by using all the available experts and removes them one by one focusing on improving the ensemble vote.

Two versions of an ensemble thinning algorithm have been tested and three key elements have been introduced to work with microarray data: the ensemble cohort definition, the nonexpert notion, which defines a set of excluded expert from the thinning process, and a rule to break ties in the thinning process. Experiments have been done on seven public datasets from the Microarray Quality Control study, MAQC [2].

The studied ensemble technique improves the state of the art results by producing classifiers with significantly better results and the proposed key elements have shown to be useful for the prediction performance.

}, keywords = {Microarray classification; metagenes; hierarchical representation; Treelets; feature selection; LDA; ensemble.}, author = {Bosio, M. and Salembier, P. and Albert Oliveras and P. Bellot} }