The Laboratory of Computational and Quantitative Biology (LCQB), headed by A. Carbone, is an interdisciplinary laboratory working at the interface between biology and quantitative sciences. It is built to promote a balanced interaction of theoretical and experimental approaches in biology and to foster the definition of new experimental questions, data analysis and modeling of biological phenomena. Our projects address questions on biological structures and processes through the gathering of experimental measures, the in silico generation of new biological data that remain inaccessible to experiments today (modeling of biological systems), the development of statistical methods for data analysis, and the conception of original algorithms aimed to predictions. The lab is supported by the CNRS and Sorbonne Université.

News

June 10, 2019

What can proteins tell us about how they interact and function together? At LCQB, we develop computational approaches to predict protein interactions, model protein social behaviour and infer the effect of mutations on protein interaction networks. We just posted this video explaining these ideas to the large public. 

Link to the french video

Link to the italian video

May 27, 2021

A global study of 60 cities' microbes finds each has a signature microbial fingerprint. The project provides a great way to communicate about the invisible world of commensal microorganisms. Members at the LCQB, L3 and M1 Sorbonne’s students involved in our Bioinformatics courses and colleagues from other Sorbonne departments contributed to the collect of the samples for the Paris area. The article just appeared in Cell.

April 13, 2021

Juliana Bernardes of the Statistical Genomics and Biological Physics organized the MABI (Matinée sur les applications de la bio-informatique) on the 13th of April 2021.

MABI is an online event for undergraduate/graduate students interested in genomic/bioinformatic and their applications in biotechnology companies. GenoScreen, GenoSplice, iMEAN, and Pathoquest will talk about their activities and prospects in the field of bioinformatics.

To join this event, please fill this form: https://docs.google.com/forms/d/e/1FAIpQLSdspzSQi0I7pl5RSA4TxvyU8QtjK4ziiZVwDli-6BTwtklLxg/viewform

April 13, 2021

To avoid deleterious misfolding of proteins, the assembly of multiprotein complexes is tightly controlled and can either occur co-translationally in the cytoplasm or as a spatially restricted event by targetting ribosomes at particular subcellular locations. In an article recently published in Molecular Cell, Benoit Palancade's team (Institut Jacques Monod) showed that both phenomenon are at play in the biogenesis of the nucleopore, one of the largest multiprotein complex in the cells. The "genetics networks" team from LCQB contributed to this work by conducting genome-wide analyses of the interactions between nucleoporins (key nucleopore subunits) during translation 

link to the article

February 3, 2021

Our analysis of "soft disorder" makes the cover of the PLoS Computational Biology January issue.

Link to the paper
 

October 14, 2020

The first edition of Meet-EU was launched last Friday! Students enrolled in Bioinformatics Master programs from the 4EU+ alliance will join their efforts to predict chromatin organisation from Hi-C data. The LCQB is involved in the organisation of this edition, and in the training of the students!

The full opening session is available at: https://www.youtube.com/watch?v=-x5gzjqB6ms&feature=youtu.be.

July 15, 2020

The new book "Mathematical modelling of evolution. One-locus and multi-locus theory and recombination" by Igor Rouzine appeared in the Mathematical and Life Science Series of De Gruyter. Chp 1. Thought experiments based on a basic model of stochastic evolution of a single genomic site, with random mutation, directional natural selection, and random genetic drift. Chp 2. more advanced theory for a large number of linked loci. Chp 3. Genetic recombination and advantage of sexual reproduction for adaptation.
These models are directly applicable to both asexual and sexual populations, including virus populations in an animal host and a population of hosts.

Link to the book
Link to the book series

May 12, 2020

ANRS communicates today on our new webserver COVTree, designed to predict coevolving residues in overlapping genes and to detect mirrored coevolution.

Link to the article

May 11, 2020

Interested in phylogenetic reconstruction based on synteny rather than protein sequence? PhyChro is out in MBE. This is the last piece of a huge work, CHROnicle , done in collaboration by the Analytical Genomics and the Biology of Genomes teams.

Link to the article

 

May 10, 2020

Overlapping genes are commonplace in viruses and play an important role in their function and evolution. Coevolution in OVerlapped sequences by Tree analysis (COVTree) is a web server providing the online analysis of coevolving amino-acid pairs in overlapping genes, where residues might be located inside or outside the overlapping region.

Link to the article

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