me


Instructor in Radiology at Harvard Medical School.
Boston Children's Hospital
300 Longwood Avenue
Department of Radiology, Wolbach 215
Boston MA 02115
USA

 
 
 

Tel : +1 617-355-5726
Fax : /
CV :   pdf   /  my iCV


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RESEARCH ACTIVITIES

I am currently an Instructor at the Computational Radiology Laboratory at Children's Hospital Boston, Harvard Medical School.

My research goal is to develop novel medical imaging technologies to improve our understanding of the brain and particularly of brain changes in disease and injuries. My research is driven by the motivation to overcome the current limitations of diffusion-weighted magnetic resonance imaging (DW-MRI) to enable fast high spatial resolution characterization of brain tissues in routine clinical practice. To do so, I focus on jointly considering the image acquisition process and processing, with the goal of combining both image acquisition advances and novel analysis methods.

I completed an engineering degree in Applied Mathematics and Computer Science in Toulouse University (France), a MS degree in Image Analysis, Vision and Robotics from the Grenoble University (France) and received my Ph.D. degree in Applied Mathematics and Computer Science from Grenoble University in December 2008. During my Ph.D., I focused on anatomical MRI analysis and, more precisely, on brain image segmentation. An important contribution developed in my thesis was the formulation of the notion of ‘collaborative computing’ in a unified and theoretically sound Bayesian framework. This work was awarded by the ``Young Investigator Award’’ at MICCAI’08 in New York and by the ``Best PhD in Applied Mathematics’’ price of INPG Grenoble University in 2009. 

I joined to the Computational Radiology Laboratory (CRL), directed by Dr. Simon K. Warfield in January 2009. I chose to shift my main research focus from anatomic MRI analysis to diffusion-weighted MRI. My research at the CRL has been focusing on novel models to characterize the brain white matter in DW-MRI and on innovative approaches to accelerate the acquisition of DW images and to increase the imaged spatial resolution. My research was awarded by a Trainee Abstract Award at HBM2011, two Magna Cum Laude Merit Award at ISMRM2012 and the Elsevier/MEDIA Best Paper Award 2012.

DOMAIN OF INTEREST

  • Diffusion MRI, Anatomical MRI
  • Novel MRI acquisitions, Q-space sampling techniques, MRI Physics
  • Tissue microstructure imaging, biophysical modeling
  • Bayesian Analysis, Markov Random Fields & Image Segmentation.
  • Medical & Neuroscience Applications.

SOFTWARE

MisterI
MisterI

Powerful Medical Image Viewer.
Link to web site

! Version 0.1.2 released on 02/15/2014 !

PROJECTS

LOcal and Cooperative Unified Segmentation (LOCUS)

In most approaches, tissue and subcortical structure segmentations of MR brain scans are handled globally over the entire brain volume through two relatively independent sequential steps. We investigated a fully Bayesian joint model that integrates within a multi-agent framework local tissue and structure segmentations and local... [more]

CUbe and SPhere - Multi-Fiber Model diffusion imaging (CUSP-MFM)

Parametric and non-parametric models have been proposed to represent the diffusion signal, in order to enable the assessment of white matter connectivity. While it has been widely accepted that a single diffusion tensor provides an excellent parametric representation for an individual white matter fiber bundle, the most appropriate... [more]

Super-Resolution in Diffusion-Weighted Imaging.

Diffusion-weighted imaging (DWI) enables non-invasive investigation and characterization of the white-matter but is strongly limited by the relatively poor resolution achievable. Increasing the resolution in DWI holds out the potential to reveal and investigate novel finer fiber structures not visible with conventional diffusion MRI, and will ... [more]

Early Predictors and Clinical Correlates of Autism in Tuberous Sclerosis Complex

Tuberous Sclerosis Complex (TSC) is a neurocutaneous autosomal dominant disorder involving mutations of the TSC1 or TSC2 genes. It is characterized by the presence of benign tumors throughout the body, including the brain where they are known as cortical tubers. TSC symptoms may take time to develop and vary considerably from ... [more]

SELECTED PUBLICATIONS   [Show All]


Taquet M., Scherrer B., Peters J.M., Prabhu S.P., Warfield S.K.,  A Fully Bayesian Inference Framework for Population Studies of the Brain Microstructure.,  Proc. of the 17th Int Conf Med Image Comput Comput Assist Interv (MICCAI)(8673),  Boston, USA,  2014,  25-32
pdf bibtex doi
Scherrer B., Schwartzman A., Taquet M., Prabhu S.P., Sahin M., Akhondi-Asl A., Warfield S.K.,  Characterizing the DIstribution of Anisotropic MicrO-structural eNvironments with Diffusion-weighted imaging (DIAMOND).,  Proc. of the 16th Int Conf Med Image Comput Comput Assist Interv (MICCAI)(8151),  Nagoya, Japan,  2013,  518-526
pdf bibtex doi Google Scholar Google Scholar Citation
Scherrer B., Warfield S.K.,  Parametric Representation of Multiple White Matter Fascicles from Cube and Sphere Diffusion MRI,  PLoS ONE,  7(11),  2012
pdf bibtex doi Google Scholar Google Scholar Citation
Scherrer B., Gholipour A., Warfield S.K.,  Super-resolution reconstruction to increase the spatial resolution of diffusion weighted images from orthogonal anisotropic acquisitions,  Med Imag Analysis,  16(7),  2012,  1465-1476
pdf bibtex doi Google Scholar Google Scholar Citation
Elsevier/MEDIA Best Paper Award 2012 : link, cache
10th MEDIA Hottest Article in 2012 : link, cache
Taquet M., Scherrer B., Commowick O., Peters J.M., Sahin M., Macq B., Warfield S.K.,  A Mathematical Framework for the Registration and Analysis of Multi-Fascicle Models for Population Studies of the Brain Microstructure,  IEEE Trans Med Imaging,  2(33),  2014,  504-17
pdf bibtex doi Google Scholar Google Scholar Citation
Hammond D., Scherrer B., Warfield S.K.,  Cortical graph smoothing : a novel method for exploiting DWI-derived anatomical brain connectivity to improve EEG source estimation,  IEEE Trans Med Imaging,  32(10),  2013,  1952-1963
pdf bibtex doi Google Scholar Google Scholar Citation
Scherrer B., Warfield S.K.,  Why multiple b-values are required for multi-tensor models. Evaluation with a constrained log-Euclidean model,  Proc. of the 7th IEEE International Symposium on Biomedical Imaging (ISBI),  Rotterdam, Netherlands,  2010,  1389-1392
pdf bibtex doi ppt Google Scholar Google Scholar Citation
(EN, Draft version)
Scherrer B., Forbes F., Garbay C., Dojat M.,  Distributed Local MRF Models for Tissue and Structure Brain Segmentation,  IEEE Transactions on Medical Imaging,  28(8),  2009,  1278-1295
pdf bibtex doi Google Scholar Google Scholar Citation
(EN, Draft version)
Scherrer B., Forbes F., Garbay C., Dojat M.,  Fully Bayesian Joint Model for MR Brain Scan Tissue and Structure Segmentation,  Proc. of the 11th Int Conf Med Image Comput Comput Assist Interv (MICCAI),  11(2),  New-York, USA,  2008,  1066-1074
pdf bibtex doi Google Scholar Google Scholar Citation
Young Investigator MICCAI Award in the category Segmentation
(EN, Draft version)

LAST PUBLICATIONS (2013-2014)  [Show All]

Taquet M., Scherrer B., Peters J.M., Prabhu S.P., Warfield S.K.,  A Fully Bayesian Inference Framework for Population Studies of the Brain Microstructure.,  Proc. of the 17th Int Conf Med Image Comput Comput Assist Interv (MICCAI)(8673),  Boston, USA,  2014,  25-32
pdf bibtex doi
Scherrer B., Taquet M., Sahin M., Prabhu S.P., Warfield S.K.,  A novel biophysical model that characterizes the distribution of anisotropic micro-structural environments with DWI,  Proc. the 22th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Milan, Italy,  2014
pdf bibtex ppt
Scherrer B., Gholipour A., Sahin M., Prabhu S.P., Warfield S.K.,  Super-resolution multi-fascicle imaging reveals the presence of both radial and tangential diffusion in the mature cortex using a clinical scanner,  Proc. the 22th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Milan, Italy,  2014
pdf bibtex ppt
Scherrer B., Taquet M., Sahin M., Prabhu S.P., Warfield S.K.,  Quantitative evaluation of biophysical models of the diffusion with in vivo data by assessment of the generalization error,  Proc. the 22th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Milan, Italy,  2014
pdf bibtex ppt
Hammond D., Scherrer B., Warfield S.K.,  Cortical graph smoothing : a novel method for exploiting DWI-derived anatomical brain connectivity to improve EEG source estimation,  IEEE Trans Med Imaging,  32(10),  2013,  1952-1963
pdf bibtex doi Google Scholar Google Scholar Citation
Scherrer B., Schwartzman A., Taquet M., Prabhu S.P., Sahin M., Akhondi-Asl A., Warfield S.K.,  Characterizing the DIstribution of Anisotropic MicrO-structural eNvironments with Diffusion-weighted imaging (DIAMOND).,  Proc. of the 16th Int Conf Med Image Comput Comput Assist Interv (MICCAI)(8151),  Nagoya, Japan,  2013,  518-526
pdf bibtex doi Google Scholar Google Scholar Citation
Scherrer B. *, Taquet M. *, Warfield S.K.,  Reliable Selection of the Number of Fascicles in Diffusion Images by Estimation of the Generalization Error,  Proc. of the 23rd Int Conf Inf Process Med Imaging (IPMI),  LNCS 7917,  Asilomar, USA,  2013,  742--753
pdf bibtex doi Google Scholar Google Scholar Citation
* Authors contributed equally
Taquet M., Scherrer B., Boumal N., Macq B., Warfield S.K.,  Estimation of a Multi-Fascicle Model from Single B-Value Data with a Population-Informed Prior.,  Proc. of the 16th Int Conf Med Image Comput Comput Assist Interv (MICCAI),  8149,  Nagoya, Japan,  2013,  695-702
bibtex doi Google Scholar Google Scholar Citation
MICCAI Student Travel Award for Maxime Taquet, first author
Lewis W.W., Sahin M., Scherrer B., Peters J.M., Suarez R.O., Vogel-Farley V.K., Jeste S.S., Gregas M.C., Prabhu S.P., Nelson C.A., Warfield S.K.,  Impaired Language Pathways in Tuberous Sclerosis Complex Patients with Autism Spectrum Disorders,  Cereb Cortex,  23(7),  2013,  1526-1532
pdf bibtex doi Google Scholar Google Scholar Citation
Peters J.M. *, Taquet M. *, Prohl A.K., Scherrer B., Van Eeghen A.M., Prabhu S.P., Sahin M., Warfield S.K.,  Diffusion Tensor Imaging and Related Techniques in Tuberous Sclerosis Complex: Review and Future Directions,  Future Neurology,  8(5),  2013,  583-597
bibtex doi Google Scholar Google Scholar Citation
* Authors contributed equally
Scherrer B., Warfield S.K.,  Accurate estimation of a multiple fascicle model is enabled by manipulation of gradient strength in a two-shell HARDI to achieve low TE,  Proc. the 21th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Salt Lake City, USA,  2013
pdf bibtex
Scherrer B., Taquet M., Afacan O., Warfield S.K.,  Does the signal arising from a single fascicle significantly deviates from a monoexponential decay with a clinical scanner?,  Proc. the 21th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Salt Lake City, USA,  2013
pdf bibtex
Taquet M., Scherrer B., Macq B., Warfield S.K.,  Multi-Fascicle Model Reconstruction from Acquisitions of DWI at a Single B-Value with a Population-Informed Prior,  Proc. the 21th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Salt Lake City, USA,  2013
pdf bibtex
Afacan O., Gholipour A., Scherrer B., Warfield S.K.,  Motion Detection for Diffusion Weighted MRI Using EPI Phase Correction Lines,  Proc. the 21th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Salt Lake City, USA,  2013
bibtex

[All Publications]

HONORS, AWARDS AND GRANTS

2014 MICCAI Young Investigator Award (second author of the paper)
Taquet M., Scherrer B., Peters J.M., Prabhu S.P., Warfield S.K.,  A Fully Bayesian Inference Framework for Population Studies of the Brain Microstructure.,  Proc. of the 17th Int Conf Med Image Comput Comput Assist Interv (MICCAI)(8673),  Boston, USA,  2014,  25-32
pdf bibtex doi
2013 MICCAI Student Travel Award (second author of the paper)
Taquet M., Scherrer B., Boumal N., Macq B., Warfield S.K.,  Estimation of a Multi-Fascicle Model from Single B-Value Data with a Population-Informed Prior.,  Proc. of the 16th Int Conf Med Image Comput Comput Assist Interv (MICCAI),  8149,  Nagoya, Japan,  2013,  695-702
bibtex doi Google Scholar Google Scholar Citation
MICCAI Student Travel Award for Maxime Taquet, first author
2012 Elsevier/MEDIA Best Paper Award 2012
Scherrer B., Gholipour A., Warfield S.K.,  Super-resolution reconstruction to increase the spatial resolution of diffusion weighted images from orthogonal anisotropic acquisitions,  Med Imag Analysis,  16(7),  2012,  1465-1476
pdf bibtex doi Google Scholar Google Scholar Citation
Elsevier/MEDIA Best Paper Award 2012 : link, cache
10th MEDIA Hottest Article in 2012 : link, cache

Two Magna Cum Laude Merit Award at ISMRM 2012 (Melbourne, Australia) for the papers:
Scherrer B., Sahin M., Stamoulis C., Prabhu S., Akhondi-Asl A., Warfield S.K.,  Globally impaired network of anatomical connectivity in tuberous sclerosis complex patients with autism spectrum disorders,  Proc. the 20th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Melbourne, Australia,  2012
pdf bibtex
ISMRM Magna Cum Laude Merit Award
Scherrer B., Gholipour A., Warfield S.K.,  Increasing the resolution of diffusion-weighted MRI with distortion compensated orthogonal acquisitions and super-resolution reconstruction,  Proc. the 20th International Symposium on Magnetic Resonance in Medicine (ISMRM),  Melbourne, Australia,  2012
pdf bibtex
ISMRM Magna Cum Laude Merit Award
IEEE ISBI 2012 Best Paper Award and IEEE ISBI Travel Grant at ISBI
Taquet M., Scherrer B., Benjamin C., Prabhu S., Macq B., Warfield S.K.,  Interpolating multi-fiber models by Gaussian mixture simplification,  Proc. of the 9th IEEE International Symposium on Biomedical Imaging (ISBI),  Barcelona, Spain,  2012,  928-931
pdf bibtex doi ppt Google Scholar Google Scholar Citation
IEEE ISBI 2012 Best Paper Award, IEEE ISBI Travel Grant (EN, Draft version)
2011 Trainee Abstract Award at HBM2011 (Quebec, CA):
Scherrer B., Warfield S.K.,  Selecting the number of fibers in a Multi-Fiber Model from CUbe and SPhere (CUSP) Diffusion Imaging,  Proc. of the Human Brain Mapping Conference (HBM),  Quebec, Canada,  2011
pdf bibtex ppt
Trainee Abstract Award
(EN, Draft version)
2009 Applied Mathematics Best PhD Thesis Price
Grenoble INP [link]
2008 Student paper award at MICCAI 2008 (New York, USA) in the category "Segmentation" for the paper:
Scherrer B., Forbes F., Garbay C., Dojat M.,  Fully Bayesian Joint Model for MR Brain Scan Tissue and Structure Segmentation,  Proc. of the 11th Int Conf Med Image Comput Comput Assist Interv (MICCAI),  11(2),  New-York, USA,  2008,  1066-1074
pdf bibtex doi Google Scholar Google Scholar Citation
Young Investigator MICCAI Award in the category Segmentation
(EN, Draft version)
2005-2008 Thesis Grant from the French Minister (MENRT Grant)
2007 Third place at the company creation contest organized by "La Maison de l'Entrepreneuriat"

Winner of the company creation contest organized during "les DOCTORIALES"
1996, 97, 98 Final of the national programming contest for people under 21 years old
Three time among the 100 in the final round (First time: younger finalist, 15years old). Best podium: 26th

Faculty Academic Appointment

12/2012-
present
Instructor in Radiology Harvard Medical School, Boston Children's Hospital

Postdoctoral training

2009-12/2012 Postdoctoral research fellow
Novel diffusion weighted imaging gradient encoding scheme, novel diffusion models and novel approaches to improve the spatial resolution of DW-MRI.
Harvard Medical School, Boston Children's Hospital

Education

2009 PhD in Applied Mathmatics and Computer Science
Distributed Markovian Segmentation of Tissues and Subcortical Structures on MR Brain Scan. Application to functional retinotopy mapping in the Human Brain Visual cortex
INPG Grenoble University, France
2005 M. Sc. Master of Science in Imagery, Vision and Robotics
Distributed Segmentation of MR Brain Scans
ENSIMAG, INPG Grenoble University, France
2004 B.E. in Applied Mathematics and Computer Science ENSEEIHT, Toulouse University, France

Committe service

  • WBIR'2014, 6th International Workshop on Biomedical Image Registration
  • CDMRI'2014, Workshop on Computational Diffusion MRI (CDMRI)
  • CDMRI'2013, Workshop on Computational Diffusion MRI (CDMRI)

Organizing Committee

  • ISBI'13 Tutorial on Motion-Robust Super-resolution Magnetic Resonance Imaging
  • AFIA 2007, French Association for Artificial Intelligence.
    PhD students coordinator

Oral session conference co-chair

  • ISBI 2012 (Barcelona, SP). Diffusion Imaging session
  • ISMRM 2011 (Montreal, CA). Advances in Image Analysis session

Ad hoc reviewer

  • Neuroimage
  • IEEE Transactions on Medical Imaging
  • Medical Imaging Analysis (MEDIA)
  • IEEE Transactions on Image Processing
  • IEEE Transactions on Biomedical Engineering
  • Medical Imaging Computing and Computer-Assisted Intervention (MICCAI)
  • IEEE International Symposium on Biomedical Imaging (ISBI)