(by R. Vuillemot)
(oral, 2023) Workshop "Artificial intelligence and electron microscopy - State of the art and perspectives" [Link]
Paris, France, May 23, 2023
Deep Learning methods development for Cryo Electron Microscopy studies of biomolecular conformational dynamics
(oral selected from posters, 2022) Gordon Research Conference on Three Dimensional Electron Microscopy
Castelldefels, Spain, June 19-24, 2022
Methods for conformational variability analysis in cryo-ET subtomograms and their use in nucleosome
studies
Harastani, M., Eltsov M, Leforestier A, and Jonic, S.
(by M. Harastani)
(poster, 2022) Gordon Research Conference on Three Dimensional Electron Microscopy
Castelldefels, Spain, June 19-24, 2022
DeepHEMNMA: ResNet-based hybrid analysis of continuous conformational heterogeneity in cryo-EM single particle images
Hamitouche, I and Jonic, S.
(by I. Hamitouche)
(oral, 2021) 4th International Conference on Bio-engineering for Smart Technologies (BioSMART ) 2021
Paris, France. December 8 – 10, 2021
Comparison Between HEMNMA-3D and Traditional Classification Techniques for Analyzing Biomolecular Continuous Shape Variability in Cryo Electron Subtomograms
Harastani, M., Eltsov M, Leforestier A, and Jonic, S.
(by M. Harastani)
(oral, 2021) BioImage Informatics 2021 (Institute Pasteur)
Virtual. November 29 – December 1, 2021
Continuous conformational variability of macromolecules in cryogenic subtomograms based on 3D dense optical flow (TomoFlow), and its application to a case study of nucleosomes in situ
Harastani, M., Eltsov M, Leforestier A, and Jonic, S.
(by M. Harastani)
(oral, 2021) 29th European Signal Processing Conference, EUSIPCO 2021
Virtual. August 23-27, 2021
Combined Bayesian and normal mode flexible fitting with Hamiltonian Monte Carlo sampling for cryo electron microscopy
Vuillemot, R., and Jonic, S.
(by R. Vuillemot)
(poster, 2021) 29th European Signal Processing Conference, EUSIPCO 2021
Virtual. August 23-27, 2021
Deep learning of elastic 3D shapes for cryo electron microscopy analysis of continuous conformational changes of biomolecules
Hamitouche, I and Jonic, S.
(by I. Hamitouche)
(oral, 2021) 17ème Congrès de la
Société Française de Microscopies
Virtual. July 5-9, 2021
A hybrid approach to analyze continuous conformational variability of single particles based on deep learning
Hamitouche, I and Jonic, S.
(by I. Hamitouche)
(poster, 2021) 17ème Congrès de la
Société Française de Microscopies
Virtual. July 5-9, 2021
Combined Hamiltonian Monte Carlo and Normal Mode Flexible Fitting
Vuillemot, R and Jonic, S.
(by R. Vuillemot)
(oral, 2021) 17ème Congrès de la
Société Française de Microscopies
Virtual. July 5-9, 2021
HEMNMA-3D: a new method for continuous conformational variability analysis of macromolecules.
Application to cryo electron tomography of nucleosomes in situ
Harastani, M., Eltsov M, Leforestier A, and Jonic, S.
(by M. Harastani)
(poster,
2020, virtual) In situ Structural Biology: From Cryo−EM
to Integrative Modelling
EMBL Heidelberg, Germany. December 6−8, 2020
Development of a cryo-ET
data analysis approach to study continuous conformational changes of biomolecules
Harastani,
M., Eltsov, M., Leforestier, A., and Jonic,
S.
(by M. Harastani)
(poster, 2019) 16ème Congrès de la
Société Française de Microscopies
Poitiers, France. July 2-5, 2019
Development of a cryo-ET data
analysis approach to study continuous conformational changes of biomolecules
Harastani, M. and Jonic, S.
(poster,
2018) Princeton - Nature Conference: Frontiers in Electron Microscopy
for the Physical and Life Sciences
Princeton
University, Princeton, NJ, USA, July 11-13, 2018
Insulin-induced cristae formation via UCP1 in rat brown adipocytes mitochondria
Korac, A., Golic, I., Jonic, S., and Korac, B.
(by A. Korac)
(poster,
2017) Gordon Research Conference on Three Dimensional Electron Microscopy
Les Diablerets, Switzerland, June 11-16, 2017
A neural network approach to predict macromolecular conformations in
a continuous conformational space from single particle images
Jonic, S.
(poster,
2016) 2nd International Symposium on Cryo-EM
3D Image Analysis
Lake
Tahoe, California, USA, March 30-April 2, 2016
StructMap: Elastic distance analysis of
electron microscopy maps for studying conformational changes
Sorzano, C. O. S., Alvarez-Cabrera, A. L., Kazemi, M.,
Carazo, J. M., and Jonic, S.
(poster, 2015) 14ème Congrès de la
Société Française de Microscopies
Nice,
France. June 30-July 3, 2015
- (poster) StructMap: Method for mapping a set of electron-microscopy structures
onto a space defined by their distances
Sorzano, C. O. S., Alvarez-Cabrera, A. L., Carazo, J. M., and Jonic, S.
(poster,
2015) Gordon Research Conference on Three Dimensional Electron
Microscopy
Colby−Sawyer
College, New London, NH, USA,
June 21-26, 2015
- StructMap: Multivariate distance analysis of elastically aligned electron microscopy structures for exploring pathways of
conformational changes
Sorzano, C. O. S.,
Alvarez-Cabrera, A. L., Carazo, J. M., and Jonic, S.
(poster/oral, 2014)
18th European Bioenergetics Conference
Lisbon, Portugal,
July 12−17, 2014
Insulin induces cristae remodeling
by decreasing complex I and increasing UCP1 expression in rat brown adipose
tissue
Golic, I., Markelic, M., Velickovic, K., Jankovic, A.,
Stancic, A., Vucetic,
M., Otasevic, V., Buzadzic,
B., Korac, B., Jonic, S., and Korac,
A
(by I. Golic)
(poster,
2014) Gordon Research Conference on Three Dimensional Electron
Microscopy
Girona, Spain, June 22-27, 2014
HEMNMA: Hybrid Electron Microscopy Normal Mode Analysis to fully explore continuous-type conformational changes
Q. Jin, C. O. S. Sorzano, J.M.
Delarosa−Trevin, J.R.Bilbao−Castro,
R. Núñez−Ramírez, O. Llorca,
F. Tama, and S. Jonic
(poster,
2014) Cryo-EM 3D Image Analysis
Symposium
Lake
Tahoe, California, USA, March 12-15, 2014
HEMNMA: Hybrid Electron Microscopy Normal Mode Analysis to fully explore macromolecular dynamics
Q. Jin, C. O. S. Sorzano, J.M.
Delarosa−Trevin, J.R.Bilbao−Castro,
R. Núñez−Ramírez, O. Llorca,
F. Tama, and S. Jonic
(poster,
2013) Gordon Research Conference on Three Dimensional Electron Microscopy
Colby−Sawyer
College, New London, NH, USA, June
23−28, 2013
Normal mode analysis for electron
microscopy revitalized
Q. Jin, C. O. S. Sorzano, J.M.
Delarosa−Trevin, J.R.Bilbao−Castro,
R. Núñez−Ramírez, O. Llorca,
F. Tama, and S. Jonic
(poster,
2011) Gordon Research Conference on 3D Electron Microscopy
Colby-Sawyer
College, New London, NH, USA. June 26-July 1, 2011
Filming molecules in action using
transmission electron microscopy: Novel image analysis method for studying
conformational changes in 4D
S. Jonic, C. O. S. Sorzano,
and F. Tama
(3 posters and 1 oral, 2009) 11ème
Congrès de la Société Française de Microscopies
Paris,
France. June 22-26, 2009
- (poster) A
hybrid method coupling normal mode analysis with projection matching to study
structural flexibility of macromolecular assemblies
S. Jonic, C.O.S. Sorzano, F. Tama, E. Larquet,
and N. Boisset
- (poster) New insights into the
structure and function of rabbit skeletal muscle Phosphorylase
Kinase
C. Carrière, S. Jonic, E. Larquet, J.-P. Mornon, C. Venien-Bryan, I. Callebaut, and N. Boisset
(by I. Callebaut)
- (oral) The structure of Phosphorylase
Kinase holoenzyme at subnanometer resolution, location of the catalytic
subunit and the substrate glycogen phosphorylase
S. Jonic, E. Larquet , V. Skamnaki , N. Oikonomakos, N. Boisset, L. Johnson, and C. Vénien-Bryan
(by
C. Vénien-Bryan)
- (poster) Initiation de la Traduction
chez les Archaea : Etude du Complexe de Pre-Initiation par Cryomicroscopie
Electronique
Z. Devaux, S. Jonic, L. Cladière, J.M. Guigner, Y. Méchulam, E. Larquet, and E.
Schmitt
(by Z. Devaux)
(2 posters, 2009) Final Meeting of
the Network of Excellence 3DEM
Brdo, Slovenia. February 9-13, 2009
- A hybrid method
coupling normal mode analysis with projection matching to study
structural flexibility of macromolecular assemblies
S. Jonic, C.O.S. Sorzano, F. Tama, E. Larquet,
and N. Boisset,
- New insights on
the structure and function of rabbit skeletal muscle Phosphorylase Kinase
C. Carrière, S. Jonic, E. Larquet, V. Skamnaki, L.
Johnson, J.-P. Mornon, I. Callebaut, C. Venien-Bryan, and N. Boisset
(3 posters, 2008) 14th European Microscopy Congress - EMC
Aachen,
Germany, September 1-5, 2008
- Structural and functional studies of rabbit skeletal muscle Phosphorylase Kinase
S. Jonic, C. Carrière, E. Larquet, V. Skamnaki,
L. Johnson, C. Venien-Bryan, J.-P. Mornon, I. Callebaut, and N. Boisset
- Sequence analysis and modelling of
the two large subunits of Phosphorylase Kinase
C. Carrière, J.-P. Mornon, S. Jonic, E. Larquet, C. Venien-Bryan,
N. Boisset, and I. Callebaut
(by C. Carrière)
- Architecture of bacterial glutamate synthase
complexe using hybrid approaches
M. Cottevieille,
E. Larquet, S. Jonic, I. Callebaut, D. Svergun, M.A. Vanoni, and N. Boisset
(by E. Larquet)
(poster,
2008) Gordon Research Conference on Three Dimensional Electron
Microscopy
Il Ciocco, Italy,
June 15-20, 2008
A hybrid method coupling normal mode analysis with projection
matching to study structural flexibility of macromolecular assemblies
S. Jonic, C.O.S. Sorzano, F. Tama, E. Larquet, and N. Boisset
(2
posters, 2008) 4th Annual Meeting of the Network of
Excellence 3DEM
Schloss Marbach, Germany, January 28-30, 2008
- Enhanced diffractograms for image sorting
and improvement of robustness and accuracy of CTF estimation
S. Jonic, C.O.S. Sorzano,
E. Larquet, C. Vénien-Bryan, J.M. Carazo, and
N. Boisset
- Progress on
structural and functional studies of rabbit skeletal muscle Phosphorylase Kinase
C. Carrière, S. Jonic, E. Larquet, C. Venien-Bryan,
J.-P. Mornon, I. Callebaut, and N. Boisset
(by C. Carrière)
(poster,
2007) 3rd Serbian Congress for Microscopy
Belgrade,
Serbia, September 25-28, 2007
3D reconstruction of macromolecular assemblies at subnanometric resolution
M. Cottevieille, S. Jonic, C.O.S. Sorzano, E. Larquet,
and N. Boisset
(poster,
2007) Gordon Research Conference on Three Dimensional Electron
Microscopy
Colby-Sawyer
College, New London, NH, USA, June 24-29, 2007
Enhanced diffractograms for image sorting
and improvement of robustness and accuracy of CTF estimation: Application
on high-resolution reconstruction of glutamate synthase
and phosphorylase kinase
S. Jonic, C.O.S. Sorzano, M. Cottevieille,
E. Larquet, C. Vénien-Bryan,
and N. Boisset
(2 posters, 2007)
3rd Annual Meeting of the Network of Excellence 3DEM
Palma Mallorca, Spain, January 23-25, 2007
- Enhanced diffractogram
improves robustness and accuracy of determination of contrast transfer
function of transmission electron microscope
S. Jonic, C.O.S. Sorzano, R. Nuñez, J.M. Carazo, and N. Boisset
- Application of molecular modeling,
SAXS, and 3D-cryo-EM to Azospirillum brazilense glutamate synthase
multi-enzymatic complex
M. Cottevieille, C.
Carrière, S. Jonic, E. Larquet, I. Callebaut, M.A. Vanoni,
D. Svergun, and
N.
Boisset
(by
N. Boisset)
(3 posters and 1 oral, 2006) 20ème
Congrès de la Société Française de Biophysique
Anglet, France, October
14-19, 2006
- (poster) Nouvelle approche de
visualisation et tri des diffractogrammes de cryo-MET basé sur l’anisotropie
S. Jonic, C.O.S. Sorzano, M. Cottevieille,
E. Larquet, and N. Boisset
- (poster) Etude structurale de la
phosphorylase kinase (PhK) de mammifère par cryo-MET 3D et analyse d’images
N. Bischler, S. Jonic, E. Larquet, N. Oikonomakos, V. Skamnaki, L. Johnson, C. Vénien-Bryan,
and N. Boisset
(by
N. Boisset)
- (oral) Architecture du complexe
glutamate synthase à 9.5 Å de résolution par cryomicroscopie électronique 3D, modélisation par
homologie et diffusion des rayons X aux petits angles
M. Cottevieille,
E. Larquet, S. Jonic, M.V. Petoukhov, L. Dossena,
D.I. Svergun, M.A. Vanoni,
and N. Boisset
(by
M. Cottevieille)
- (poster) Mise en évidence d'une
conformation intermédiaire de l'alpha 2-macroglobuline humaine par cryo-MET et reconstruction 3D
T. Le Berre, M. Cottevieille,
S. Jonic, E. Larquet, and N. Boisset
(by E. Larquet)
(poster/oral,
2006) 16th International Microscopy Congress
Sapporo,
Japon, September 3-8, 2006
Hybrid approach for studying the architecture of bacterial glutalate synthase complexe using cryo-electron
microscopy, SAXS, X-ray cristallography, and
homology modeling
M. Cottevieille,
L. Dossena, S. Jonic, E. Larquet, M.V. Petoukhov,
D. Svergun, M.A. Vanoni,
and N. Boisset
(by N. Boisset)
(poster/oral,
2006) 3rd International Workshop on Biomedical Image
Registration (WBIR'06)
Utrecht,
Netherlands, July 9-11, 2006
Point similarity measures based on MRF modeling of difference
images for spline-based 2D-3D rigid registration
of X-ray fluoroscopy to CT images
G. Zheng, X. Zhang, S. Jonic, P. Thévenaz, M. Unser, and L.-P.
Nolte
(by G. Zheng)
(3
posters, 2006) Gordon Research Conference on Three Dimensional Electron
Microscopy
Il Ciocco, Italy,
June 25-30, 2006
- Improvement of visibility of
diffraction rings for sorting micrographs and their local areas
S. Jonic, C.O.S. Sorzano, M. Cottevieille,
E. Larquet, and N. Boisset
-
Three-dimensional structure of phosphorylase kinase at 10 Å resolution, localisation of individual
subunits
N. Bischler, S. Jonic, V. Skamnaki, N. Oikonomakos,
L. Johnson, N. Boisset, and C. Vénien-Bryan
(by C. Vénien-Bryan)
- Architecture of
bacterial glutamate synthase complexe
using hybrid approaches
M. Cottevieille,
L. Dossena, S. Jonic, E. Larquet, M.V. Petoukhov,
D. Svergun, M.A. Vanoni,
and N. Boisset
(by N. Boisset)
(oral,
2006) Trends in Enzymology, Como, Italy, June 7-10, 2006
Architecture of bacterial glutamate synthase
studied by SAXS, 3D cryo-electron microscopy, and
homology modelling
Cottevieille M, Jonic S, Larquet E, Petoukhov MV, Dossena L, Svergun D, Vanoni MA, and Boisset N
(by N. Boisset)
(3
posters, 2006) 2nd Annual Meeting of the Network of
Excellence 3DEM
Klosters, Switzerland, January
11-14, 2006
- Classification of cryo-EM frames
and local areas based on their power spectra
S. Jonic, C.O.S. Sorzano, M. Cottevieille,
E. Larquet, and N. Boisset
- Structural study of bacterial glutamate synthase
complex by 3D cryo-electron microscopy, homology modelling, and small-angle X-ray scattering
M. Cottevieille, E. Larquet, S. Jonic, M.V. Petoukhov, L. Dossena, D.I. Svergun, M.A. Vanoni, and N. Boisset
(by N. Boisset)
- Coupling 3D cryo-electron
microscopy with structure modeling at the atomic level: Hydrophobic cluster
analysis as a tool for the identification of templates and their accurate
alignments
I. Callebaut, R. Aramayo,
C. Carrière, S. Jonic,
E. Larquet, F. Mouche, F. Skouri-Panet, J.P. Mornon, and N.
Boisset
(by I. Callebaut)
(poster/oral, 2005) 15th IUPAB and
EBSA International Biophysics Congress
Montpellier, France, August 27 –
September 1, 2005
Structural study of bacterial glutamate synthase
complex by 3D cryo-electron microscopy, homology modelling, and small-angle X-ray scattering
M. Cottevieille,
E. Larquet, S. Jonic, M.V. Petoukhov, L. Dossena,
D.I. Svergun, M. A. Vanoni,
and N. Boisset
(by M. Cottevieille/N.
Boisset)
(poster/oral, 2005) 9ème Colloque de la
Société Française des Microscopies
Caen, France, July 4-8, 2005
Étude structurale du complexe glutamate synthase par cryomicroscopie
électronique 3D, modélisation comparative et diffusion des rayons X aux
petits angles
M. Cottevieille,
E. Larquet, S. Jonic, M.V. Petoukhov, L. Dossena,
D.I. Svergun, M.A. Vanoni,
and N. Boisset
(by M. Cottevieille/N.
Boisset)
(poster,
2005) Gordon Research conference on Three-dimensional cryoelectron microscopy
Colby-Sawyer
College, New Hampton, NH, USA, 2005
Structural study of bacterial glutamate synthase
complex through combined use of protein engineering, small-angle X-ray
scattering, and 3D cryo-electron microscopy
M. Cottevieille, S. Jonic, E. Larquet, M.V. Petoukhov,
L. Dossena, D.I. Svergun,
M.A. Vanoni, and N. Boisset
(by N. Boisset)
(oral, 2005) 2nd Symposium
on Imaging for Medical and Life Sciences (IMVIE2)
Illkirch, France, March
1-3, 2005
Spline-based approach to orientation assignment for three-dimensional
electron microscopy
S. Jonic, C.O.S. Sorzano, P. Thévenaz, M.
Unser, and
N. Boisset
(poster/oral,
2004) 13th European Microscopy Congress, 2004
Volumetric spectral signal-to-noise ratio
C.O.S. Sorzano, S. Jonic, C. El-Bez, S. De Carlo, P. Thévenaz,
J. Conway, B.L. Trus, M. Unser
(by C.O.S. Sorzano)
(poster,
2003) SPIE International Symposium on Medical Imaging: Image Processing
(MI'03)
San
Diego CA, USA, February 17-20, 2003
Multiresolution-based registration of
a volume to a set of its projections
S. Jonic, P. Thévenaz, and M. Unser
(poster,
2001) SPIE International Symposium on Medical Imaging: Image Processing
(MI'01)
San
Diego CA, USA, February 17-22, 2001
Multiresolution spline-based
3D/2D registration of CT volume and C-arm images for computer-assisted
surgery
S. Jonic, P. Thévenaz, and M. Unser
(oral, 1998) 3rd International
Information Technology Conference - IT’98 (conference
now sponsored by IEEE Link)
Zabljak, Serbia, March 1998
Radial basis function
neural networks for determining synergies between joint angles in
locomotion
S. Jonic, D. Popovic, and S. Obradovic
(oral and poster, 1997) 4th
International Symposium on Neural Networks and Applications - NEUREL’97 (organized by IEEE Yugoslavia Section, now IEEE
Serbia and Montenegro Link)
Belgrade,
Serbia, September 8-9, 1997
(poster)
Rule-based controller for locomotion - Use of radial basis function ANN
S. Jonic and D. Popovic
(oral) Identification of one-dimensional biomedical signals: Supervised machine learning
techniques
D.
Popovic and S. Jonic
(by D. Popovic)
(oral, 1997) 2nd International
Information Technology Conference - IT’97 (conference
now sponsored by IEEE Link)
Zabljak, Serbia, March 1997
Simulation of
optimal control of walking
S. Jonic and D. Popovic
