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Smooth 2D manifold extraction from 3D image stack
A Shihavuddin*, S Basu*, E Rexhepaj, F Delestro, N Menezes, SM Sigoillot, E Del Nery, F Selimi, N Spassky, A Genovesio
2017, Nature Communications, doi:10.1038/ncomms15554

An RNAi Screen in a Novel Model of Oriented Divisions Identifies the Actin-Capping Protein Z β as an Essential Regulator of Spindle Orientation
F di Pietro, L Valon, Y Li, R Goïame, A Genovesio, X Morin
2017, Current Biology, Volume 27, Issue 16, 21 August, Pages 2452-2464.e8

Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface
Boulay AC, Saubaméa B, Adam N, Chasseigneaux S, Mazaré N, Gilbert A, Bahin M, Bastianelli L, Blugeon C, Perrin S, Pouch J, Ducos B, Le Crom S, Genovesio A, Chrétien F, Declèves X, Laplanche JL, Cohen-Salmon M.
2017 Cell Discov. doi : 10.1038/celldisc.2017.5

mTORC1 signaling and primary cilia are required for brain ventricle morphogenesis
P Foerster, M Daclin, A Shihavuddin, M Faucourt, A Boletta, A Genovesio, N Spassky
2016, Development : doi : 10.1242/dev.138271

Detection and tracking of overlapping cell nuclei for large scale mitosis analyses
Y Li*, F Rose*, F di Pietro, X Morin, A Genovesio
2016, BMC bioinformatics 17 (1), 1

High-throughput in vivo genotoxicity testing : an automated readout system for the somatic mutation and recombination test (SMART)
B Lombardot, CT Oh, J Kwak, A Genovesio, M Kang, MAE Hansen, SJ Han
2015, PloS one 10 (4), e0121287

Anti-infective compounds
P Brodin, T Christophe, Z No, J Kim, A Genovesio, DPC Fenistein, H Jeon, FA Ewann, S Kang, S Lee, MJ Seo, P Eunjung, M Contreras Dominguez, JY Nam, EH Kim
2014, US Patent 8,785,452

Genome Wide Visual Identification of Human Co-Factors of HIV-1 Infection
N Emans, A Genovesio, MP Windisch, YJ Kwon, S Jung, HC Kim, NY Kim, S Yeon
2014, European Patent 2307568, 2011 US Patent app 20110183313

Increasing the content of high-content screening an overview
S Singh, AE Carpenter, A Genovesio
2014, Journal of biomolecular screening 19 (5), 640-650

Dimerization, oligomerization, and aggregation of human amyotrophic lateral sclerosis Copper/Zinc superoxide dismutase 1 protein mutant forms in live cells
J Kim, H Lee, JH Lee, D Kwon, A Genovesio, D Fenistein, A Ogier, V Brondani, R Grailhe
2014, Journal of Biological Chemistry 289 (21), 15094-15103

Method and apparatus for imaging of features on a substrate
A Genovesio, N Emans
2014, US Patent 8,692,876

Anti-infective compounds
Z No, J Kim, P Brodin, MJ Seo, YM Kim, J Cechetto, H Jeon, A Genovesio, S Lee, S Kang, FA Ewann, JY Nam, T Christophe, DPC Fenistein, J Heo, J Jiyeon
2013, US Patent 8,865,734

Comparison of methods for image-based profiling of cellular morphological responses to small-molecule treatment
V Ljosa, PD Caie, R ter Horst, KL Sokolnicki, EL Jenkins, S Daya, ME Roberts, TR Jones, S Singh, A Genovesio, PA Clemons, NO Carragher, AE Carpenter
2013, Journal of biomolecular screening, 1087057113503553

Development of a multiplex phenotypic cell-based high throughput screening assay to identify novel hepatitis C virus antivirals
HY Kim, X Li, CT Jones, CM Rice, JM Garcia, A Genovesio, MAE Hansen, MP Windisch
2013, Antiviral research 99 (1), 6-11

Transcription Sites Are Developmentally Regulated during the Asexual Cycle of Plasmodium falciparum
CB Moraes, T Dorval, M Contreras-Dominguez, FM Dossin, MAE Hansen, A Genovesio, LH Freitas-Junior
2013, PloS one 8 (2)

Anti-infective pyrido (1, 2-a) pyrimidines
Z No, J Kim, P Brodin, MJ Seo, P Eunjung, J Cechetto, H Jeon, EH Kim, J Heo, JY Nam, DPC Fenistein, T Christophe, MC Dominguez, A Genovesio, S Lee, S Kang, FA Ewann
2013, US Patent App. 20130012506

An image-based drug susceptibility assay targeting the placental sequestration of Plasmodium falciparum-infected erythrocytes
MJ Ku, FM Dossin, MAE Hansen, A Genovesio, L Ayong, LH Freitas-Junior
2012, PloS one 7 (8), e41765

An image-based high-content screening assay for compounds targeting intracellular Leishmania donovani amastigotes in human macrophages
JL Siqueira-Neto, S Moon, J Jang, G Yang, C Lee, HK Moon, E Chatelain, A Genovesio, J Cechetto, LH Freitas-Junior
2012, PLoS Negl Trop Dis 6 (6), e1671

A high-content subtractive screen for selecting small molecules affecting internalization of GPCRs
YJ Kwon, W Lee, A Genovesio, N Emans
2012, Journal of biomolecular screening 17 (3), 379-385

Quantification of protein interaction in living cells by two‐photon spectral imaging with fluorescent protein fluorescence resonance energy transfer pair devoid of acceptor bleed‐through
J Kim, X Li, MS Kang, KB Im, A Genovesio, R Grailhe
2012, Cytometry Part A 81 (2), 112-119

A novel specific edge effect correction method for RNA interference screenings
JP Carralot, A Ogier, A Boese, A Genovesio, P Brodin, P Sommer, T Dorval
2012, Bioinformatics 28 (2), 261-268

Automated Identification and Analysis of Visual Micro-experiments on Cellular Microarray
A Genovesio
2012, Advances in Bio-Imaging : From Physics to Signal Understanding Issues, 27-33

Automated genome-wide visual profiling of cellular proteins involved in HIV infection
A Genovesio, YJ Kwon, MP Windisch, NY Kim, SY Choi, HC Kim, S Jung, F Mammano, V Perrin, AS Boese, N Casartelli, O Schwartz, U Nehrbass, N Emans
2011, Journal of biomolecular screening 16 (9), 945-958

A method for discontinuous neurite reconstruction based on diffusion tensor, Hessian eigenvector, and diffused gradient vector fields
HC Kim, G Stamon, A Genovesio
2011, ICIP. Proceedings of the 18th IEEE International Conference on Image Processing, 1401-1404

Visual genome-wide RNAi screening to identify human host factors required for Trypanosoma cruzi infection
A Genovesio, MA Giardini, YJ Kwon, F de Macedo Dossin, SY Choi, NY Kim, HC Kim, SY Jung, S Schenkman, IC Almeida, N Emans, LH Freitas-Junior
2011, PLoS One 6 (5), e19733

3D Detection of Mutant Hairs in Drosophila Wing Images
J Kwak, CT Oh, SJ Han, M Hansen, A. Genovesio, M Kang
2011, 한국산업응용수학회 학술대회 논문집 Vol. 6 No. 1 6 (1), 221-224

A modified fluorescence in situ hybridization protocol for Plasmodium falciparum greatly improves nuclear architecture conservation
M Contreras-Dominguez, CB Moraes, T Dorval, A Genovesio, F de Macedo Dossin, LH Freitas-Junior
2010, Molecular and biochemical parasitology 173 (1), 48-52

High content phenotypic cell-based visual screen identifies Mycobacterium tuberculosis acyltrehalose-containing glycolipids involved in phagosome remodeling
P Brodin, Y Poquet, F Levillain, I Peguillet, G Larrouy-Maumus, M Gilleron, F Ewann, T Christophe, D Fenistein, J Jang, MS Jang, SJ Park, J Rauzier, JP Carralot, R Shrimpton, A Genovesio, JA Gonzalo-Asensio, G Puzo, C Martin, R Brosch, GR Stewart, B Gicquel, O Neyrolles
2010, PLoS Pathog 6 (9), e1001100

Contextual automated 3D analysis of subcellular organelles adapted to high-content screening
T Dorval, A Ogier, A Genovesio, HK Lim, JH Lee, HJ Worman, W Dauer, R Grailhe
2010, Journal of biomolecular screening 15 (7), 847-857

Antileishmanial high-throughput drug screening reveals drug candidates with new scaffolds
JL Siqueira-Neto, OR Song, H Oh, JH Sohn, G Yang, J Nam, J Jang, J Cechetto, CB Lee, S Moon, A Genovesio, E Chatelain, T Christophe, LH Freitas-Junior
2010, PLoS Negl Trop Dis 4 (5), e675

Spatially adaptive relaxation for active contour cell segmentation
A Ogier, T Dorval, B Kim, A Genovesio
2010, Proceedings of the 2010 IEEE international conference on Biomedical imaging : from nano to Macro

Hair Separation and Detection in Mutant Drosophila Hair Images
J Kwak, CT Oh, SJ Han, M Kang, A Genovesio
2010, Proceedings of the Korean Society for Industrial and Applied Mathmatics 5 (1)

Active vector graph for regularized tesselation
A Genovesio
2009, ICIP. Proceedings of the 16th IEEE International Conference on Image Processing, 2429-2432

High content screening identifies decaprenyl-phosphoribose 2′ epimerase as a target for intracellular antimycobacterial inhibitors
T Christophe, M Jackson, HK Jeon, D Fenistein, M Contreras-Dominguez, J Kim, A Genovesio, JP Carralot, F Ewann, EH Kim, SY Lee, S Kang, MJ Seo, EJ Park, H Škovierová, H Pham, G Riccardi, JY Nam, L Marsollier, M Kempf, ML Joly-Guillou, T Oh, WK Shin, ZN, U Nehrbass, R Brosch, ST Cole, P Brodin
2009, PLoS Pathog 5 (10), e1000645

In vivo colocalisation of oskar mRNA and trans-acting proteins revealed by quantitative imaging of the Drosophila oocyte
MM Mhlanga, DP Bratu, A Genovesio, A Rybarska, N Chenouard, U Nehrbass, JC Olivo-Marin
2009, PloS one 4 (7), e6241

3D spatial drift correction using Kalman filtering for fluorescence based imaging
T Dorval, CB Moraes, A Ogier, LH Freitas, A Genovesio
2009, ISBI. Proceedings of the IEEE International Symposium on Biomedical Imaging : From Nano to Macro

Automated high-throughput siRNA transfection in raw 264.7 macrophages : a case study for optimization procedure
JP Carralot, TK Kim, B Lenseigne, AS Boese, P Sommer, A Genovesio, P Brodin
2009, Journal of biomolecular screening

Neuron branch detection and description using random walk
HC Kim, A Genovesio
2009, Proceedings of the IEEE Engineering in Medicine and Biology Society.

A fast, fully automated cell segmentation algorithm for high‐throughput and high‐content screening
D Fenistein, B Lenseigne, T Christophe, P Brodin, A Genovesio
2008, Cytometry part A 73 (10), 958-964

Im. Grid, a grid computing approach for image mining of high throughput-high content screening
HK Moon, A Genovesio
2008, Proceedings of the 9th IEEE/ACM International Conference on Grid Computing

Automated nuclear analysis of Leishmania major telomeric clusters reveals changes in their organization during the parasite’s life cycle
FM Dossin, A Dufour, E Dusch, JL Siqueira-Neto, CB Moraes, GS Yang, MI Cano, A Genovesio, LH Freitas-Junior
2008, PloS one 3 (6), e2313

Inhomogeneous deconvolution in a biological images context
A Ogier, T Dorval, A Genovesio
2008, ISBI. Proceedings of the 5th IEEE International Symposium on Biomedical Imaging : From Nano to Macro

Three‐dimensional point spread function model for line‐scanning confocal microscope with high‐aperture objective
E Dusch, T Dorval, N Vincent, M Wachsmuth, A Genovesio
2007, Journal of microscopy 228 (2), 132-138

Bias image correction via stationarity maximization
T Dorval, A Ogier, A Genovesio
2007, MICCAI. Medical Image Computing and Computer-Assisted Intervention, 693-700

3D automated nuclear morphometric analysis using Active Meshes
A Dufour, JH Lee, N Vincent, R Grailhe, A Genovesio
2007, Pattern Recognition in Bioinformatics, 356-367

3D fluorescent spots detection in line-scanning confocal microscopy
E Dusch, N Vincent, A Genovesio
2007, ICIP. Proceedings of the IEEE International Conference on Image Processing, 6, VI-241-VI-244

Biased image correction based on empirical mode decomposition
A Ogier, T Dorval, A Genovesio
2007, ICIP 2007. Proceedings of the IEEE International Conference on Image Processing, 1, I-533-I-536

A new color representation for intensity independent pixel classification in confocal microscopy images
B Lenseigne, T Dorval, A Ogier, A Genovesio
2007, Advanced Concepts for Intelligent Vision Systems, 597-606

High-content classification of nucleocytoplasmic import or export inhibitors
YJ Kwon, A Genovesio, NY Kim, HC Kim, S Jung, B David-Watine, U Nehrbass, N Emans
2007, Journal of biomolecular screening

Bias free features detection for high content screening
T Dorval, A Ogier, E Dusch, N Emans, A Genovesio
2007, ISBI. IEEE International Symposium on Biomedical Imaging : From Nano to Macro, 2007.

Support vector machines for automatic detection of tuberculosis bacteria in confocal microscopy images
B Lenseigne, P Brodin, HK Jeon, T Christophe, A Genovesio
2007, ISBI. IEEE International Symposium on Biomedical Imaging : From Nano to Macro, 2007.

3D Mumford-Shah based active mesh
A Dufour, N Vincent, A Genovesio
2006, Progress in Pattern Recognition, Image Analysis and Applications, 208-217

Automated confocal microscope bias correction
T Dorval, A Genovesio
2006, Information Optics : Proceedings of the 5th International Workshop on Information Optics (WIO’06)

Quantitative four-dimensional tracking of cytoplasmic and nuclear HIV-1 complexes
N Arhel*, A Genovesio*, KA Kim, S Miko, E Perret, JC Olivo-Marin, S Shorte, P Charneau
2006, Nature methods 3 (10), 817-824

Cerebral microcirculation shear stress levels determine Neisseria meningitidis attachment sites along the blood–brain barrier
E Mairey, A Genovesio, E Donnadieu, C Bernard, F Jaubert, E Pinard, J Seylaz, JC Olivo-Marin, X Nassif, G Duménil
2006, The Journal of experimental medicine 203 (8), 1939-1950

SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope
GG Cabal*, A Genovesio*, S Rodriguez-Navarro, C Zimmer, O Gadal, A Lesne, H Buc, F Feuerbach-Fournier, JC Olivo-Marin, E C Hurt, U Nehrbass
2006, Nature 441 (7094), 770-773

Multiple particle tracking in 3-D+ t microscopy : method and application to the tracking of endocytosed quantum dots
A Genovesio, T Liedl, V Emiliani, WJ Parak, M Coppey-Moisan, JC Olivo-Marin
2006, IEEE Transactions on Image Processing, 15 (5), 1062-1070

Telomere tethering at the nuclear periphery is essential for efficient DNA double strand break repair in subtelomeric region
P Therizols, C Fairhead, GG Cabal, A Genovesio, JC Olivo-Marin, B Dujon, E Fabre
2006, The Journal of cell biology 172 (2), 189-199

Adaptive gating in Gaussian Bayesian multi-target tracking
A Genovesio, Z Belhassine, JC Olivo-Marin
2004, ICIP. International Conference on Image Processing, 1, 147-150

Split and merge data association filter for dense multi-target tracking
A Genovesio, JC Olivo-Marin
2004, ICPR, Proceedings of the 17th International Conference on Pattern Recognition

Interacting multiple model based method to track moving fluorescent biological spots
A Genovesio, B Zhang, JC Olivo-Marin
2004, ISBI. Proceedings of the IEEE International Symposium on Biomedical Imaging : Nano to Macro.

Tracking of multiple fluorescent biological objects in three dimensional video microscopy
A Genovesio, B Zhang, JC Olivo-Marin
2003, ICIP Proceedings of the International Conference on Image Processing

Tracking fluroescent spots in biological video microscopy
A Genovesio, JC Olivo-Marin
2003, Biomedical Optics 2003, 98-105