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• Background Link to CV
Since 1996, my research activities have been taking place at the
intersection between informatics, mathematics, physics and biology, with a
focus on conception and implementation of algorithms for biomedical signal
and image processing.
My first research activities (1996-1999, University of
Belgrade, Serbia) were in biomechanics modeling and signal
processing for control of walking in paraplegic subjects. They evolved
towards multidimensional biomedical data processing during my PhD thesis (1999-2003,
Swiss Federal Institute of Technology in Lausanne - EPFL, Switzerland), through development of image processing
algorithms for computer-assisted surgery and structural biology. During my postdoc (2004-2008, University Pierre and Marie
Curie, IMPMC-UMR 7590, Paris, France), I have specialized in
electron-microscopy image processing for three-dimensional reconstruction
of biological macromolecular complexes.
I obtained a Tenured Associate Scientist position at the French National
Centre for Scientific Research – CNRS in 2008,
a Research Director Habilitation from the Life
Sciences Department of the University Pierre and Marie
Curie - UPMC in 2015, and a CNRS
Research Director position in 2019.
• Research focus
Development of image analysis methods and computational tools
for structural and dynamics studies of biological macromolecular complexes
• Jobs
Postdoctoral Fellow
• Support
CNRS, Sorbonne Université/UPMC,
GENCI, ANR, European Commission
• Highlights
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Review of computational methods for analyzing conformational
variability of macromolecular complexes from electron microscopy (EM)
images [1]
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Methodology
HEMNMA (Hybrid
Electron Microscopy Normal Mode Analysis) to interpret heterogeneity of a set of EM images in terms of
continuous macromolecular conformational transitions Tutorial on HEMNMA within Scipion [2,3]
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Methodology
StructMap
(Structural Mapping) to interpret heterogeneity of a set of EM density maps
in terms of continuous macromolecular conformational transitions Tutorial on StructMap
within Scipion [4]
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Web
server 3DEM Loupe for Normal
Mode Analysis of EM density maps 3DEM Loupe [5]
(note that Normal Mode Analysis of both EM
density maps and PDB atomic structures can now also be done with HEMNMA
software)
[1] Jonic S: Computational
methods for analyzing conformational variability of macromolecular
complexes from cryo-electron microscopy images.
Curr Opin Struct Biol 2017, 43:114-121. [Link] [Author’s version] (invited)
[2] Jin Q, Sorzano CO, de la Rosa-Trevin
JM, Bilbao-Castro JR, Nunez-Ramirez R, Llorca O,
Tama F, Jonic S: Iterative elastic 3D-to-2D
alignment method using normal modes for studying structural dynamics of
large macromolecular complexes. Structure 2014, 22:496-506.
[Open-access]
[3] Sorzano CO, de la Rosa-Trevin JM, Tama F, Jonic S: Hybrid
Electron Microscopy Normal Mode Analysis graphical interface and protocol.
J Struct
Biol 2014, 188:134-141. [Link]
[4] Sanchez Sorzano CO, Alvarez-Cabrera AL, Kazemi
M, Carazo JM, Jonic S: StructMap:
Elastic Distance Analysis of Electron Microscopy Maps for Studying
Conformational Changes. Biophys J 2016, 110:1753-1765. [Open-access]
[5] Nogales-Cadenas R, Jonic S, Tama F, Arteni AA, Tabas-Madrid D,
Vazquez M, Pascual-Montano A, Sorzano
CO: 3DEM Loupe: Analysis of macromolecular dynamics using structures from
electron microscopy. Nucleic
Acids Res 2013, 41:W363-367. [Open-access] (the first two authors should be regarded as joint first authors)
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