@Article{segonne-dale-etal:a04,
  author	= {S\'{e}gonne, F. and Dale, A.M. and Busa, E. and Glessner, M. and Salat, D. and Hahn, H.K. and Fischl, B.},
  title		= {A hybrid approach to the skull stripping problem in {MRI}},
  year		= {2004},
  journal	= {NeuroImage},
  volume	= {22},
  pages		= {1060--1075},
  number	= {3}
}

@Article{fischl-etal:a04,
  author	= {Fischl, B. and Van der Kouwe, A. and Destrieux, C. and Halgren, E. and S\'egonne, F. and Salat, D.H. and Busa, E. and Seidman, L.J. and Goldstein, J. and Kennedy, D. and Caviness, V. and Makris, N. and Rosen, B. and Dale, A.M.},
  title	  = {Automatically Parcellating the Human Cerebral Cortex},
  year	  = {2004},
  journal	= {Cerebral Cortex},
  volume	= {14},
  pages	  = {11--22}
}


@Article{angelone-potthast-etal:a04,
  author	= {Angelone, L.M., Potthast., A., Iwaki, S., Segonne, F., Belliveau, J.W., Bonmassar, G.},
  title	  = {Metallic electrodes and leads in simultaneous EEG-MRI: Specific Absorption Rate (SAR) simulation studies.},
  year	  = {May 2004},
  journal	= {Bioelectromagnetics},
  volume	= {25},
  number  = {4}
}

@Article{fischl-salat-etal:a04,
  author	= {Fischl, B. and Salat, D.H.  and Van der Kouwe, A. and Makris, N. and S\'egonne, F. and Dale, A.M.},
  title	  = {Sequence-Independant Segmentation of Magnetic Resonance Images},
  year	  = {2004},
  journal	= {NeuroImage},
  volume	= {23},
  pages	  = {S69--S84},
  number = {1}
}

@Article{fischl-salat-etal:a04,
  author	= {Fischl, B. and Salat, D.H.  and Van der Kouwe, A. and Makris, N. and S\'egonne, F. and Dale, A.M.},
  title	  = {Sequence-Independant Segmentation of Magnetic Resonance Images},
  year	  = {2004},
  journal	= {NeuroImage},
  note = {Special issue: Mathematics in Brain Imaging},
  editor = {P.M. Thompson and  M.I. Miller and T. Ratnanather and R.A. Poldrack and T.E. Nichols},
  volume	= {23},
  pages	  = {S69--S84},
  number = {S1}
}

@Article{faugeras-adde-etal:a04,
   author = {O. Faugeras and G. Adde and G. Charpiat and C. Chefd'Hotel and M. Clerc and T. Deneux and R. Deriche and G. Hermosillo and R. Keriven and P. Kornprobst and J. Kybic and C. Lenglet and L. Lopez-Perez and T. Papadopoulo and J.-P. Pons and F. Segonne and B. Thirion and D. Tschumperle and T. Vieville and N. Wotawa},
   title = {Variational, geometric, and statistical methods for modeling brain anatomy and function},
   journal = {Neuroimage},
   note = {Special issue: Mathematics in Brain Imaging},
   editor = {P.M. Thompson and  M.I. Miller and T. Ratnanather and R.A. Poldrack and T.E. Nichols},
   year = {2004},
   volume = {23},
   number = {S1},
   pages = {S46-S55}
}

@Article{fennema-notestine-etal:a06,
   author = {Fennema-Notestine, C., Ozyurt, I. B., Clark, C. P., Morris, S., Bischoff-Grethe, A., Bondi, M. W., Jernigan, T. L., Fischl, B., Segonne, F., Shattuck, D. W., Leahy, R. M., Rex, D. E., Toga, A. W., Zou, K. H., Morphometry BIRN, and Brown, G. G.},
   title = {Quantitative evaluation of automated skull-stripping methods applied to contemporary and legacy images: Effects of diagnosis, bias correction, and slice location.},
   journal = {Human Brain Mapping},
   year = {2006}
}

@Article{desikan-segonne-etal:a06,
  author	= {Desikan, R. and S\'egonne, F. and Fischl, B. and Quinn, B.T. and Dickerson, B.C. and Blacker, D. and Buckner, R.L. and Dale, A.M. and Hyman, B.T. and  Albert, M.S. and Killiany, R.J.},
  title	  = {A Computer Generated Labeling System for Subdividing the Human Cerebral Cortex on MRI Scans into Gyral Based Regions of Interest},
  year	  = {2006},
  journal	= {Human Brain Mapping}
  volume	= {},
  pages		= {},
  number	= {}  
}

@Article{segonne-pachenco-fischl:a07,
  author	= {S\'egonne, F. and Pacheco, J. and Fischl, B.},
  title	  = {A Geometrically Accurate Topology-Correction of Cortical Surfaces Using Nonseparating Loops},
  year	  = {2007},
  journal	= {IEEE TRANSACTIONS ON MEDICAL IMAGING}
  volume	= {26},
  pages		= {518--529},
  number	= {4}  
}

@Article{yu-etal:a07,
  author	= {Yu, P. and Grant, P.E. and Qi, Y. and Han, X. and S\'egonne, F. and Pienaar, R. and Busa, E. and Pacheco, J. and Makris, N. and Buckner, R.L.  and Golland, P. and Fischl, B.},
  title	  = {Cortical Surface Shape Analysis Based on Spherical Wavelets},
  year	  = {2007},
  journal	= {IEEE TRANSACTIONS ON MEDICAL IMAGING}
  volume	= {26},
  pages		= {582--597},
  number	= {4}  
}


@Article{segonne:07,
  author	= {S\'egonne, Florent},
  title	  = {Active Contours Under Topology Control - Genus Preserving Level Sets},
  year	  = {2007},
  journal	= {INTERNATIONAL JOURNAL OF COMPUTER VISION}
  volume	= {},
  pages		= {},
  number	= {}  
}

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% CONFERENCES

@InProceedings{segonne-grimson-fischl:ip03,
  author	      = {S\'egonne, F. and Grimson, E. and Fischl, B.},
  title	        = {Topological Correction of Subcortical Segmentation},
  year 	        = {2003},
  booktitle	    = {Proceedings of Medical Image Computing and Computer-Assited Intervention},
  volume        = {2879},
  pages	        = {695--702},
  modified	    = {fsegonne},
  number	      = {2}
}

@InProceedings{segonne-grimson-fischl:ip05,
  author	      = {S\'egonne, F. and Grimson, E. and Fischl, B.},
  title	        = {A Genetic Algorithm for the Topology Correction of Cortical Surfaces},
  year 	        = {2005},
  booktitle	    = {Proceedings of Information Processing in Medical Imaging, LNCS},
  volume        = {3565},
  pages	        = {393--405},
  modified	    = {fsegonne}
}

@InProceedings{segonne-pons-etal:ip05,
  author	= {S\'{e}gonne, F. and Pons, J.-P. and Grimson, E. and Fischl, B.},
  title		= {Active Contours Under Topology Control - Genus Preserving Level Sets},
  year		= {2005},
  booktitle	= {Workshop on Computer Vision for Biomedical Image Applications: Current Techniques and Future Trends},
  pages	    = {135--145}
}

@InProceedings{yu-han-etal:ip06a,
 	author = {Yu, P. and Han, X. and S\'egonne, F. and Buckner, R.L. and Pienaar, R. and Grant, P.E. and Golland, P. and Fischl, B.},
 	title = {Cortical Surface Shape Analysis Based on Spherical Wavelet Transformation},
 	booktitle = {CVPRW '06: Workshop on Mathematical Methods in Biomedical Image Analysis},
 	year = {June 2006},
 	pages = {60}
}

@InProceedings{yu-han-etal:ip06b,
  author = {Yu, P. and Han, X. and S\'egonne, F. and Liu, A. and Poldrack, P. and Golland, P. and Fischl, B.},
  title  =  {Shape-based Discrimination and Classification of Cortical Surfaces},
  booktitle = {International Conference on Pattern Recognition},
  year = {August 2006},
  pages = {445--448}
}

@InProceedings{pons-segonne-etal:07,
  author = { Pons, J.-P. and S\'egonne, F. and Boissonnat, J.-D.  and Rineau, L. Yvinec, Y. and Keriven, R.},
  title  =  {High-Quality Consistent Meshing of Multi-Label Datasets},
  booktitle = {Proceedings of Information Processing in Medical Imaging, LNCS},
  year = {August 2007}
}

@INPROCEEDINGS{etyngier-segonne-etal:07,
	AUTHOR       = {Etyngier, P. and Ségonne, F. and Keriven, R.},
	TITLE        = {Active-Contour-Based Image Segmentation using Machine Learning Techniques},
	BOOKTITLE    = {10th IEEE International Conference on Medical Image Computing and Computer Assisted Intervention},
	YEAR         = {2007},
	PAGES        = {891-899},
	ADDRESS      = {Brisbane, Australia},
	MONTH        = {Oct}
}

@INPROCEEDINGS{ICCV07c,
	AUTHOR       = {Etyngier, P. and Ségonne, F. and Keriven, R.},
	TITLE        = {Shape priors using Manifold Learning Techniques},
	BOOKTITLE    = {11th IEEE International Conference on Computer Vision},
	YEAR         = {2007},
	PAGES        = {},
	ADDRESS      = {Rio de Janeiro, Brazil},
	MONTH        = {Oct}
}

@INPROCEEDINGS{ICCV07b,
	AUTHOR       = {Aganj, E. and Pons, J.-P. and Ségonne, F. and Keriven, R.},
	TITLE        = {Spatio-temporal shape from silhouette using four-dimensional Delaunay meshing},
	BOOKTITLE    = {IEEE International Conference on Computer Vision},
	YEAR         = {2007},
	PAGES        = {},
	ADDRESS      = {Rio de Janeiro, Brazil},
	MONTH        = {Oct}
}

@INPROCEEDINGS{ICIP2007,
	AUTHOR       = {Etyngier, P. and Keriven, R. and Ségonne, F},
	TITLE        = {Projection Onto a Shape Manifold for Image Segmentation with Prior},
	BOOKTITLE    = {14th IEEE International Conference on Image Processing},
	YEAR         = {2007},
	PAGES        = {},
	ADDRESS      = {San Antonio, Texas, US},
	MONTH        = {Sep}
}


%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

@MASTERSTHESIS{segonne:th02,
   author = {Florent S\'egonne},
   title =  {Unsupervised Skull Stripping in {MRI}},
   school = {Massachusetts Institute of Technology},
   type = {{Masters} Thesis},
   month = {June},
   year = {2002}
}

@PHDTHESIS{segonne:th05,
   author = {Florent S\'egonne},
   title =  {Segmentation of Medical Images under Topological Constraints},
   school = {Massachusetts Institute of Technology},
   type = {{PhD} Dissertation},
   month = {December 10},
   year = {2005}
}

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

@TechReport{segonne-pons-etal:tr05,
  author	= {S\'egonne, F. and Pons, J.-P. and Fischl, F. and Grimson, E.},
  title		= {A Novel Active Contour Framework: Multi-Component Level Set Evolution Under Topology Control},
  year		= {2005},
  institution	= {CSAIL, MIT},
  number	= {AIM-2005-020},
  type		= {AI memo}
}

@TechReport{segonne-pacheco-fischl:tr06,
  author	= {S\'egonne, Florent and Pacheco, Jenni and Fischl, Bruce},
  title		= {Geometrically-Accurate Topology Simplification of Triangulated Cortical Surfaces Using Non-Separating Loops},
  year		= {2006},
  institution	= {CERTIS},
  number	= {RR 06-24},
  type		= {Certis memo}
}

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
@INBOOK{segonne-08,
	AUTHOR       = {S\'egonne, Florent},
	TITLE        = {Biomedical Image Analysis: Methodologies and Applications},
	CHAPTER      = {Integration of Topological Constraints in Medical Image SegmentationSegmentation},
	YEAR         = {2008},
	VOLUME       = {},
	ADDRESS      = {},
	MONTH        = {}
}