At GLBIO 2016

header-glbio2016From 16th to 19th May 2016, I will be with my lab-mates at the Great Lakes Bioinformatics Conference (GLBIO) 2016 at University of Toronto. I will have an oral presentation about my work, entitled “Distal chromatin loop prediction with deep siamese neural networks“.


My poster at NIPS 2014

This year I will be again at NIPS 2014 international conference, and I will defend a poster entitled “Deep Autoencoder Neural Networks for Prediction of Biomolecular Annotations” at two workshops. One is MCLB 2014 – Workshop on Machine Learing in Computational Biology, and the other one is MLCDA 2014 – Workshop on Machine Learning for Clinical Data Analysis, Healthcare and Genomics.

NIPS 2014 will be held in Montreal (Quebec, Canada) from 8th to 13th of December 2014.

See you in Montreal!

Our paper accepted at ACM BCB 2014

I just got notified that our paper entitled “Deep Autoencoder Neural Networks for Gene Ontology Annotation Predictions” has been accepted for ACM BCB 2014, the 5th ACM Conference on Bioinformatics, Computational Biology and Health Informatics.

This article was written by me, Peter J. Sadowski and Pierre Baldi from University of California Irvine, and reports my project developed during my six month stay in the Orange County.

ACM BCB 2014 conference will be held in Newport Beach (Southern California, USA) in late September 2014. See you there!

Our paper accepted at CIBB 2014

They just informed us that our paper entitled “Correlation of Gene Function Annotation Lists through Enhanced Spearman and Kendall Measures” written mainly by me, by Eleonora Ciceri and Marco Masseroli, just got accepted at CIBB 2014 – the 11th International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics.

The conference will take place in Cambridge (United Kingdom) at the end of June 2014. See you there!

Our paper accepted at CIBCB 2014

We just got notified that our paper entitled “Latent Dirichlet Allocation based on Gibbs Sampling for Gene Function Prediction” just got accepted at the IEEE Computational Intelligence in Bioinformatics and Computational Biology¬†CIBCB 2014 conference.

The idea and the implementation of the article ideas were mainly conceived by my colleague Pietro Pinoli. The paper was written by him, me, and our supervisor Marco Masseroli.

The conference will be at Hawaii (Pacific ocean) in May. We’ll see you there, maybe!

Yan LeCun: Proposal for a new publishing model in computer science

I signal to you all this interesting article written by Yan LeCun (New York University Courant Institute & Facebook), in which he proposes a new publishing model for the computer science papers. This strategy seems excellent to me, and it has been adopted for the recent ICLR 2014 conference paper submission. I hope it will be used in the future for the computer science conferences. Here’s the proposal:

Our current publication system should be redesigned to maximize the rate of progress in our field. This means accelerating the speed at which new ideas and results are exchanged, disseminated, and evaluated. This also means minimizing the amount of time each of us spends evaluating other people’s work through reviewing and sifting through the literature. A major issue is that our current system, with its emphasis on highly-selective conferences, is highly biased against innovative ideas and favors incremental tweaks on well-established methods. Ideas that turn out to be highly influential are sometimes held up for months (if not years) in reviewing purgatory, particularly if they require several years to come to maturity (there are a few famous examples, mentioned). The friction in our publication system is slowing the progress of our field. It makes progress incremental. And it makes our conferences somewhat boring.

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