Mattia Furlan

Mattia Furlan
Istituto Italiano di Tecnologia | IIT · Center for Genomic Science

Bachelor of Science in Physics - Master of Science in Physics of Complex Systems - PhD in Complex Systems for Life Sciences - Post Doc at CGS@SEMM (IIT), Epigenomics and Transcriptional Regulation Group

About

11
Publications
905
Reads
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97
Citations
Additional affiliations
October 2019 - present
Istituto Italiano di Tecnologia
Position
  • PostDoc Position
Description
  • Group of Epigenomics and Transcriptional Regulation
October 2016 - October 2019
Università degli Studi di Torino
Position
  • PhD Student
Description
  • PhD student in Complex Systems for Life Sciences (funded by Istituto Italiano di Tecnologia)
Education
October 2014 - October 2016
Università degli Studi di Torino
Field of study
  • Physics of Complex Systems
October 2011 - October 2014

Publications

Publications (11)
Article
Full-text available
The covalent modification of RNA molecules is a pervasive feature of all classes of RNAs and has fundamental roles in the regulation of several cellular processes. Mapping the location of RNA modifications transcriptome-wide is key to unveiling their role and dynamic behaviour, but technical limitations have often hampered these efforts. Nanopore d...
Chapter
The field of transcriptional regulation generally assumes that changes in transcripts levels reflect changes in transcriptional status of the corresponding gene. While this assumption might hold true for a large population of transcripts, a considerable and still unrecognized fraction of the variation might involve other steps of the RNA lifecycle,...
Article
Full-text available
Despite gene expression programs being notoriously complex, RNA abundance is usually assumed as a proxy for transcriptional activity. Recently developed approaches, able to disentangle transcriptional and post-transcriptional regulatory processes, have revealed a more complex scenario. It is now possible to work out how synthesis, processing and de...
Preprint
Full-text available
We propose a hierarchical Bayesian approach to infer the RNA synthesis, processing, and degradation rates from sequencing data. We parametrise kinetic rates with novel functional forms and estimate the parameters through a Dirichlet process defined at a low level of hierarchy. Despite the complexity of this approach, we manage to perform inference,...
Article
The quantification of the kinetic rates of RNA synthesis, processing, and degradation are largely based on the integrative analysis of total and nascent transcription, the latter being quantified through RNA metabolic labeling. We developed INSPEcT-, a computational method based on the mathematical modeling of premature and mature RNA expression th...
Article
Full-text available
The abundance of RNA species and their response to perturbations are set by the kinetics rates of RNA synthesis, processing, and degradation. However, the visualization, interpretation, and manipulation of these data require familiarity with mathematical modeling and command line tools. INSPEcT-GUI is an R-Shiny interface that allows researchers wi...
Article
Full-text available
It has been known for a few decades that transcripts can be marked by dozens of different modifications. Yet, we are just at the beginning of charting these marks and understanding their functional impact. High-quality methods were developed for the profiling of some of these marks, and approaches to finely study their impact on specific phases of...
Article
Upon activation, lymphocytes exit quiescence and undergo substantial increases in cell size, accompanied by activation of energy-producing and anabolic pathways, widespread chromatin decompaction, and elevated transcriptional activity. These changes depend upon prior induction of the Myc transcription factor, but how Myc controls them remains uncle...
Preprint
Upon activation, lymphocytes exit quiescence and undergo substantial increases in cell size, accompanied by activation of energy-producing and anabolic pathways, widespread chromatin decompaction and elevated transcriptional activity. These changes depend upon prior induction of the Myc transcription factor, but how Myc controls them remains unclea...
Preprint
Full-text available
The kinetic rates of RNA synthesis, processing and degradation determine the dynamics of transcriptional regulation by governing both the abundance and the responsiveness to modulations of premature and mature RNA species. The study of RNA dynamics is largely based on the integrative analysis of total and nascent transcription, with the latter bein...
Article
Full-text available
N6-methyladenosine (m6A) is the most abundant RNA modification. It has been involved in the regulation of RNA metabolism, including degradation and translation, in both physiological and disease conditions. A recent study showed that m6A-mediated degradation of key transcripts also plays a role in the control of T cells homeostasis and IL-7 induced...

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Projects

Project (1)
Archived project
Modelling mobility patterns of users on the public transport and study the dynamics of ticket validation and ticket inspection with intelligent agents in order to improve the strategy of the local transport company