Posts by Collection

code

S.A.S.S.A.F.R.A.S.

A small script that looks for unread Google Scholar Alerts emails in your Gmail account and saves each paper in a Google Spreadsheet as:
Title/ Authors - Journal/ Google Scholar link/ Date/ number of Alerts that contained the paper

TDA summary for gene-expression: Mapper Algorithm in 2D

Code for reproducing results in the paper “Topological gene-expression networks recapitulate brain anatomy and function”.
We present a pipeline based on the Mapper algorithm, a topological simplification tool, to produce and analyze genes co-expression data.
The code contains an implementation of the Mapper algorithm with 2 filters and to compute the agreement edge density matrices for the optimal parameters.

portfolio

publications

GIT: Complex politics: A quantitative semantic and topological analysis of uk house of commons debates.

Gurciullo, S., Smallegan, M., Pereda, M., Battiston, F., Patania, A., Poledna, S., ... & Mikhaylov, S. (2015). "Complex politics: A quantitative semantic and topological analysis of uk house of commons debates." arXiv preprint. arXiv:1510.03797. arXiv:1510.03797., 2015

An exploratory attempt to use quantitative semantics techniques and topological analysis to analyze systemic patterns arising in a complex political system.

GIT: Topological analysis of data

Patania, A., Vaccarino, F., & Petri, G. (2017). "Topological analysis of data." EPJ Data Science. 6(1), 7. EPJ Data Science, 2017

An editorial where we briefly present the TDA paradigm and some applications, in order to highlight its relevance to the data science community.

GIT: The shape of collaborations.

Patania, A., Petri, G., & Vaccarino, F. (2017). "The shape of collaborations." EPJ Data Science. 6(1), 18. EPJ Data Science, 2017

A study on the structure of scientific collaborations using simplicial descriptions of publications. We extend the concept of triadic closure to simplicial complexes and introduce a new way of dealing with large simplex sizes when computing homology.

GIT: Topological gene-expression networks recapitulate brain anatomy and function.

Patania, A., Selvaggi, P., Veronese, M., DiPasquale, O., Expert, P., & Petri, G. (2018). "Topological gene-expression networks recapitulate brain anatomy and function." arXiv preprint. bioRxiv, 476382. bioRxiv, 476382, 2018

We present a pipeline based on Mapper to analyze genes co-expression data. We find that co-expression networks produced by Mapper returned a structure that matches the well-known anatomy of the dopaminergic pathway.

talks

teaching

GIT: Teaching experience 1

Undergraduate course, University 1, Department, 2014

This is a description of a teaching experience. You can use markdown like any other post.

GIT: Teaching experience 2

Workshop, University 1, Department, 2015

This is a description of a teaching experience. You can use markdown like any other post.