AutoBioTip:
Automation of mechanobiological measurements by AFM, and their
analysis by machine learning Autobiotip
aims at awakening the bio-Atomic Force Microscope (Bio-AFM) to
cells populations. We propose a method for automating force
measurements that will generate massive data on at least 1000
cells. Traditional biophysical analyses and machine learning
methods will then be adapted to extract mechanobiological
information from the large amount of data generated and to
access the heterogeneity of cell populations. |
CE 42 : Capteurs et Instrumentations |
Task
1.1:
Development of cell chips compatible with automated AFM
analysis Task
1.2:
Development of the software for automatic movement of the AFM
tip from one cell to another Tasks 1.3: Study of the biophysical parameters that induce the heterogeneity of AFM mechanical measurements.
Task
2.2: Analysis by supervised learning (a priori)
Task
2.3: Extraction of signatures by unsupervised learning
(without a priori)
Task
3.1: Measure and analyze the biophysical properties of cells
synchronized in the different phases of the cell cycle
Task
3.3 Deconvolution of data obtained from unsynchronized cells
|
Related publications : -
Severac C.,, Proa-Coronado S., Formosa-Dague C., Martinez-Rivas
A., Dague E. 2020 - Proa-Coronado
S.,
Severac C., Martinez-Rivas A., Dague E. 2019 |
Researchers
implied
in the project The
consortium brings together researchers from 2 LAAS-CNRS teams
(ELIA and DISCO), a research engineer from ITAV-CNRS, a
researcher and a Post-Doc fromIPN-CIC (Mexico), and the BIOSOFT
joint laboratory. Etienne Dague Coordinator develops
biophysical thematics using AFM for the study of living
organisms. Member ofthe ELIA team of LAAS-CNRS, he is the author
of 76 publications (H index 33, >3000 citations). He has been
coordinator of an ANR JCJC project (2011-2014); Head of an
interdisciplinary project team at ITAV-CNRS(2011-2016);
Coordinator of an IDEX transversality project (2015-2017);
Coordinator of an ECOS-Nord collaboration (2015-2019);
Scientific head of ANRGraphics (avril 2018-mars 2021). Emmanuelle
TREVISIOL
is a full-time researcher at LAAS-CNRS in the ELiA Team. She
received a master of science degree in Biochemistry at the J.
Fourier University (Grenoble, France) and a PhD in Bioorganic
Chemistry (Grenoble,France).Emmanuelle has a strong background
in Biochemistry and Bioanalysis. Her main experiencecovers the
field of nucleic acid chemistry, bioconjugation and
biofunctionalization for molecular diagnosis purpose. Emmanuelle
devoted alarge part of her research activities to biomolecular
interaction detection and biosensors. In Autobiotip project,
Emmanuelle will provide expertise inbiochemistry, surface
biofunctionalization and particularly in the design, production
and characterization of cell microarrays. Christophe
Vieu
will be involved in the supervision of the fabrication of
individual cell arrays and their optimizationfor the interest of
the project and will contribute to the analysis of the
parameters of categorization extracted byAutomatic Learning
procedures of AFM Data and their confrontation
to biophysical models. Marie-Véronique
LE
LANN est professeur au département
de
Génie Electrique et Informatique de l'INSA
de Toulouse, et chercheuse au LAAS/CNRS
dans l'équipe DISCO
- DIagnostic Supervision et COnduite. Elle est en
charge des relations
partenariales et industrielles et de la formation
continue au GEI. Elle est aussi Membre de la Commission
des Titres d’Ingénieur (CTI).
The
Biosoft joint laboratory (ANR LabCom; LabComConsolidation) has
developed an automated technology for the deterministic
immobilization of livingcells on microarrays. Its expertise will
be essential to prepare the cells according to defined patterns
(deliverable 1). Biosoft is a joint laboratoryfunded by the ANR
between the LAAS-CNRS and the company Innopsys which shows the
effective nature of the collaboration. Secondly,
the participation (without funding) of the Computer Science
Research Center (CIC) of the IPN (Mexico City) provides us with
the expertiseand programming skills required to automate AFM tip
moves (deliverables 2 and 5). A. Martinez (CIC) and E. Dague
(LAAS-CNRS) supervised S. Proa's thesis ininternational
co-supervision (2017-20) and were recipients of ECOS-NORD
funding for the mobility of researchers and PhD students
(2016-20). Once the protocolshave been established (deliverable
4), data will be acquired, in large numbers, thanks to a
collaboration with ITAV-CNRS which has 2 AFMs (deliverable 1.3.1
to1.3.5). Finally,
the DISCO team of the LAAS-CNRS will bring its expertise in
automatic learning to analyse the data from automated AFM
measurements, withoutany a priori (deliverables 2.2.1, 2.2.2;
and 2.3.1 and 2.3.2). The DISCO team has an history of
collaboration with C. Séverac and ITAV since 2009
(2009-13,Fondation Innabiosanté and 2012-15, Toulouse
métropole). |
Etienne Dague Emmanuelle Trévisiol Marie-Véronqiue Lelann Christophe Vieu Childérick Severac |