Mallar Chakravarty

Dr. Mallar Chakravarty

Post-Doctoral Research Fellow Rotman Research Institute, Baycrest Hospital

Publications

Title Source (Journal/Book/Conference) Authors/Presenters Published On Type
A harmonized segmentation protocol for hippocampal and parahippocampal subregions: Why do we need one and what are the key goals? Hippocampus Wisse LEM, Daugherty AM, Olsen RK, Berron D, Carr VA, Stark CEL, Amaral RSC, Amunts K, Augustinack JC, Bender AR, Bernstein JD, Boccardi M, Bocchetta M, Burggren A, Chakravarty MM, Chupin M, Ekstrom A, de Flores R, Insausti R, Kanel P, Kedo O, Kennedy KM, Kerchner GA, LaRocque KF, Liu X, Maass A, Malykhin N, Mueller SG, Ofen N, Palombo DJ, Parekh MB, Pluta JB, Pruessner JC, Raz N, Rodrigue KM, Schoemaker D, Shafer AT, Steve TA, Suthana N, Wang L, Winterburn JL, Yassa MA, Yushkevich PA, la Joie R, 1483246800 Journal Article
The effect of lifelong bilingualism on regional grey and white matter volume. Brain research Olsen RK, Pangelinan MM, Bogulski C, Chakravarty MM, Luk G, Grady CL, Bialystok E 1420088400 Journal Article
Quantitative comparison of 21 protocols for labeling hippocampal subfields and parahippocampal subregions in in vivo MRI: Towards a harmonized segmentation protocol. NeuroImage Yushkevich PA, Amaral RS, Augustinack JC, Bender AR, Bernstein JD, Boccardi M, Bocchetta M, Burggren AC, Carr VA, Chakravarty MM, Chételat G, Daugherty AM, Davachi L, Ding SL, Ekstrom A, Geerlings MI, Hassan A, Huang Y, Iglesias JE, La Joie R, Kerchner GA, LaRocque KF, Libby LA, Malykhin N, Mueller SG, Olsen RK, Palombo DJ, Parekh MB, Pluta JB, Preston AR, Pruessner JC, Ranganath C, Raz N, Schlichting ML, Schoemaker D, Singh S, Stark CE, Suthana N, Tompary A, Turowski MM, Van Leemput K, Wagner AD, Wang L, Winterburn JL, Wisse LE, Yassa MA, Zeineh MM, 1420088400 Journal Article
Does skull shape mediate the relationship between objective features and subjective impressions about the face? NeuroImage Marečková K, Chakravarty MM, Huang M, Lawrence C, Leonard G, Perron M, Pike BG, Richer L, Veillette S, Pausova Z, Paus T 1357016400 Journal Article
FTO, obesity and the adolescent brain. Human molecular genetics Melka MG, Gillis J, Bernard M, Abrahamowicz M, Chakravarty MM, Leonard GT, Perron M, Richer L, Veillette S, Banaschewski T, Barker GJ, Büchel C, Conrod P, Flor H, Heinz A, Garavan H, Brühl R, Mann K, Artiges E, Lourdusamy A, Lathrop M, Loth E, Schwartz Y, Frouin V, Rietschel M, Smolka MN, Ströhle A, Gallinat J, Struve M, Lattka E, Waldenberger M, Schumann G, Pavlidis P, Gaudet D, Paus T, Pausova Z 1357016400 Journal Article
Oligodendrocyte Genes, White Matter Tract Integrity, and Cognition in Schizophrenia. Cerebral Cortex Voineskos AN, Felsky D, Kovacevic N, Tiwari AK, Zai C, Chakravarty MM, Lobaugh NJ, Shenton ME, Rajji TK, Miranda D, Pollock BG, Mulsant BH, McIntosh AR, Kennedy JL 1333598400 Journal Article
KCTD8 gene and brain growth in adverse intrauterine environment: a genome-wide association study. Cerebral cortex (New York, N.Y. : 1991) Paus T, Bernard M, Chakravarty MM, Davey Smith G, Gillis J, Lourdusamy A, Melka MG, Leonard G, Pavlidis P, Perron M, Pike GB, Richer L, Schumann G, Timpson N, Toro R, Veillette S, Pausova Z 1325394000 Journal Article
A genome-wide association study identifies five loci influencing facial morphology in Europeans. PLoS genetics Liu F, van der Lijn F, Schurmann C, Zhu G, Chakravarty MM, Hysi PG, Wollstein A, Lao O, de Bruijne M, Ikram MA, van der Lugt A, Rivadeneira F, Uitterlinden AG, Hofman A, Niessen WJ, Homuth G, de Zubicaray G, McMahon KL, Thompson PM, Daboul A, Puls R, Hegenscheid K, Bevan L, Pausova Z, Medland SE, Montgomery GW, Wright MJ, Wicking C, Boehringer S, Spector TD, Paus T, Martin NG, Biffar R, Kayser M 1325394000 Journal Article
Electroconvulsive therapy induces alterations in the dopaminergic system in the striatum of non-human primates: a longitudinal multi-tracer PET study. Neuropsychopharmacology Landau AM, Chakravarty MM, Clark CM, Zis AP, Doudet DJ 1315886400 Journal Article
Longitudinal MR study of brain structure and hippocampus volume in major depressive disorder Acta Psychiatrica Scandinavica Ahdidan J, Hviid LB, Chakravarty MM, Ravnkilde B, Rosenberg R, Rodell A, Stokilde-Jorgensen H, and Videbech P 1301371200 Journal Article
An MRI based average macaque monkey stereotaxic atlas and space (MNI monkey space) NeuroImage Frey S, Pandya D, Chakravarty MM, Bailey L, Petrides M, and Collins DL 1296277200 Journal Article
Electroconvulsive therapy alters dopamine signaling in the striatum of non-human primates. Neuropsychopharmacology Landau AM, Chakravarty MM, Clark CM, Zis AP, Doudet DJ 1293858000 Journal Article
MNI monkey space JAPANESE NEUROSCIENCE SOCIETY Frey S, Pandya DN, Chakravarty MM, Petrides M, Collins DL 1284609600 Abstract
Enlargement of thalamic nuclei in Tourette syndrome. Archives of General Psychiatry Miller AM, Bansal R, Hao X, Sanchez-Pena JP, Sobel LJ, Liu J, Xu D, Zhu H, Chakravarty MM, Durkin K, Ivanov I, Plessen KJ, Kellendonk CB, Peterson BS 1283313600 Journal Article
Enlargement of thalamic motor nuclei in persons with Tourettes Syndrome. Archives of General Psychiatry Miller AM, Bansal R, Xuejun H, Sanchez-Pena JP, Miller LJ, Liu J, Xu D, Zhu H, Chakravarty MM, Durkin K, Ivanov I, Plessen KJ, Kellendonk CB, Peterson BS 1281499200 Journal Article
Depression severity is correlated to the integrity of white matter fiber tracts in late-onset major depression Psychiatry Research: Neuroimaging Reese RB, Frandsen J, Chakravarty MM, Ahdidan J, Sorensen L, Rosenberg R, Videbech P, Ostergaard L 1281499200 Journal Article
Improved Java Internet Viewer: A web-based tool for 3D medical image data visualization and comparison ORGANIZATION FOR HUMAN BRAIN MAPPING Bailey L, Frey S, Cocosco C, Chakravarty MM, Collins DL 1275796800 Abstract
Integrating MR with 3D Gene Expression Data in the Mouse Brain INTERNATIONAL SOCIETY FOR MAGNETIC RESONANCE IN MEDICINE Lau C, Ng L, Kuan L, Chakravarty MM, Jones A, Johnson GA, Hawrylycz M 1272686400 Abstract
Cortical hypometabolism and hypoperfusion in Parkinson’s disease is probably extensive – even at early disease stages Brain Structure and Function Borghammer P, Chakravarty MM, Sato N, Ito K, Gjedde A 1270180800 Journal Article
Defining the intercommissural plane and stereotactic coordinates for the basal ganglia in the Göttingen minipig brain Journal of Sterotactic and Functional Neurosurgery Rosendal F, Chakravarty MM, Sunde N, Pedersen M, Bjarkam C, Rodell A, Sørensen JC 1267765200 Journal Article
Integrating imaging, anatomy and gene expression: Toward a new multi-modal atlas of the human brain IMAGING GENETICS Chakravarty MM, Hawrylycz M, Daly B, Overly CC, Shen E, Vawter M, Jones A 1263790800 Abstract
Morphological Abnormalities of the Thalamus in Youths With Attention Deficit Hyperactivity Disorder. American Journal of Psychiatry Ivanov I, Bansal R, Hao X, Zhu H, Kellendonk C, Miller L, Sanchez-Pena J, Miller AM, Chakravarty MM, Klahr K, Durkin K, Greenhill LL, Peterson BS 1262322000 Journal Article
Localization of white-matter lesions and effect of vascular risk factors in late-onset major depression. Psychological Medicine Dalby RB, Chakravarty MM, Ahdidan J, Sørensen L, Frandsen J, Jonsdottir KY, Tehrani E, Rosenberg R, Ostergaard L, Videbech P 1262322000 Journal Article
Surface-based mapping of gene expression and probabilistic expression maps in the mouse cortex. Methods Ng L, Lau C, Sunkin SM, Bernard A, Chakravarty MM, Lein ES, Jones AR, Hawrylycz M 1262322000 Journal Article
Areal and laminar differentiation in the mouse neocortex using large scale gene expression data. Methods Hawrylycz M, Bernard A, Lau C, Sunkin SM, Chakravarty MM, Lein ES, Jones AR, Ng L 1262322000 Journal Article
Neurite density from magnetic resonance diffusion measurements at ultrahigh field: comparison with light microscopy and electron microscopy. NeuroImage Jespersen SN, Bjarkam CR, Nyengaard JR, Chakravarty MM, Hansen B, Vosegaard T, Ostergaard L, Yablonskiy D, Nielsen NC, Vestergaard-Poulsen P 1262322000 Journal Article
Blindsight mediated by an S-cone-independent collicular pathway: an fMRI study in hemispherectomized subjects. Journal of Cognitive Neuroscience Leh SE, Ptito A, Schonwiesner M, Chakravarty MM, Mullen KT 1262322000 Journal Article
Creation of a neurodevelopmental gene expression atlas in postnatal rhesus macaque SOCIETY FOR NEUROSCIENCE ABSTRACTS Bernard A, Bennett J, Weller J, Chakravarty MM, Lee F, Luong L, Royall J, Amaral D, Jones A, Lein E 1255838400 Abstract
Blindsight is color-blind to S-cone isolating stimuli: an fMRI study JOURNAL OF VISION Leh S, Ptito A, Schöenwiser M, Chakravarty MM, Mullen KT 1249444800 Abstract
Got rhythm? Investigating the relationship between anatomy and rhythmic ability using DBM ANNALS OF THE NEW YORK ACADEMY OF SCIENCES Chakravarty MM, Vuust P 1248580800 Abstract
Electroconvulsive therapy induces alterations in Dopamine receptor and transporter binding in the striatum of healthy and MPTP-lesioned non-human primates JOURNAL OF CEREBRAL BLOOD FLOW & METABOLISM Landau AM, Chakravarty MM, Jivan S, Zis AP, Gjedde A, Doudet D 1246248000 Abstract
Informatics and imaging pipeline for the development of a new multi-modal atlas of the human brain: imaging, anatomy, and gene-expression NEUROIMAGE Chakravarty MM, Hawrylycz M, Bertagnolli D, Daly B, Dee N, Jeromin A, Guillozet-Bongaarts A, Lazarz E, Overly K, Riley Z, Slaughterbeck C, Shen E, Smith K, Vawter M, Jones A 1245297600 Abstract
A deformation-based morphometry study of patients with early-stage Parkinson's disease. European Journal of Neurology Borghammer P, Ostergaard K, Cumming P, Gjedde A, Rodell A, Hall N, Chakravarty MM 1230786000 Journal Article
New surgical technique reduces the susceptibility artefact at air-tissue interfaces on in vivo cerebral MRI in the Göttingen minipig. Brain Research Bulletin Rosendal F, Frandsen J, Chakravarty MM, Bjarkam CR, Pedersen M, Sangill R, Sørensen JC 1230786000 Journal Article
Musical morphology. Annals of the New York Academy of Sciences Chakravarty MM, Vuust P 1230786000 Journal Article
Design, construction, and validation of an MRI-compatible vibrotactile stimulator intended for clinical use. Journal of Neuroscience Methods Chakravarty MM, Broadbent S, Rosa-Neto P, Lambert CM, Collins DL 1230786000 Journal Article
Comparison of piece-wise linear, linear, and nonlinear atlas-to-patient warping techniques: analysis of the labeling of subcortical nuclei for functional neurosurgical applications. Human Brain Mapping Chakravarty MM, Sadikot AF, Germann J, Hellier P, Bertrand G, Collins DL 1230786000 Journal Article
Robust S1, S2, and thalamic activations in individual subjects with vibrotactile stimulation at 1.5 and 3.0 T. Human Brain Mapping Chakravarty MM, Rosa-Neto P, Broadbent S, Evans AC, Collins DL 1230786000 Journal Article
Diffusion tractography in white matter lesions in late on-set major depression SOCIETY FOR NEUROSCIENCE ABSTRACTS Dalby RB, Frandsen J, Chakravarty MM, Ahdidan J, Sørensen L, Tehrani E, Rosenberg R, Vildebech P, Østergaard L 1226725200 Abstract
The use of multi-tracers imaging to evaluate the effects of human retinal pigment epithelial cells on gelatin microcarriers (hRPE-GM) (Spheramine®) implanted in a primate model of Parkinson’s disease (PD) WORLD MOLECULAR IMAGING CONGRESS Doudet DJ, Ma Y, Flores J, Peng S, Chakravarty MM, Mitrovic B, Cornfeldt M, Eidelberg D 1221019200 Abstract
Age-related decline of dopamine D2/3 receptor availability measured with [11C]raclopride in non-striatal human brain regions: Comparison of four methods NEUROIMAGE Nomura Y, Geday J, Borghammer P, Vang K, Chakravarty MM, Gjedde A 1216267200 Abstract
Development of fMRI techniques for planning in functional neurosurgery in Parkinson’s disease International Society of Biomedical Imaging – ISBI Chakravarty MM, Rosa-Neto P, Broadbent S, Evans AC, Collins DL 1210737600 Presentation
Clinical Efficacy and PET Imaging of Human Retinal Pigment Epithelial Cells on Gelatin Microcarriers (hRPE-GM) (Spheramine) Versus Gelatin Microcarriers Alone (GM) Implanted in MPTP-Treated Primates NEUROLOGY Doudet DJ, Flores J, Chakravarty MM, Mitrovic B, Cornfeldt M 1208404800 Abstract
Synergistic tissue counterstaining and image segmentation techniques for accurate quantitative immunohistochemistry Journal of Histochemistry and Cytochemistry Zehntner SP, Chakravarty MM, Bolovan R, ChanC, Bedell BJ 1204693200 Journal Article
Digital atlas of the monkey brain in stereotactic co-ordinates The Rhesus Monkey Brain in Stereotactic Co-ordinates Chakravarty MM, Frey S, Collins DL 1204693200 Book Chapter
Three-dimensional reconstruction of serial mouse brain sections International Society of Biomedical Imaging – ISBI Chakravarty MM, Bedell BJ, Zehntner SP, Evans AC, Collins DL 1204693200 Presentation
Towards a validation of atlas warping techniques Medical Image Analysis Chakravarty MM, Sadikot AF, Germann J, Bertrand G, Collins DL 1199163600 Journal Article
The connectivity of the human pulvinar: a diffusion tensor imaging tractography study. International Journal of Biomedical Imaging Leh SE, Chakravarty MM, Ptito A 1199163600 Journal Article
Automated quantification of vascular and parenchymal beta-amyloid burdens in a transgenic mouse model of Alzheimer's disease JOURNAL OF THE NEUROLOGICAL SCIENCES Badhwar A, Chakravarty MM, Zehntner SP, Hamel E, Bedell BJ 1194498000 Abstract
Ex vivo molecular imaging in transgenic mouse models of Alzheimer’s disease ALZHEIMER’S ASSOCIATION Chakravarty MM, Collins DL, Zehntner SP, Hemmings K, Chan C, Zijdenbos AP, Hamel E, Evans AC, Bedell BJ 1183953600 Abstract
Three-dimensional reconstruction of histological sections and correlation with MRI from transgenic mouse models of Alzheimer’s disease ALZHEIMER’S ASSOCIATION Chakravarty MM, Bedell BJ, Zehntner SP, Hemmings K, Hamel E, Evans AC, Collins DL 1183953600 Abstract
The connectivity of the human pulvinar: A Diffusion Tensor Imaging Study JOURNAL OF VISION Leh SE, Chakravarty MM, Ptito A 1183176000 Abstract
Ipsilateral suppression of the sensory thalamo-cortical circuit during unilateral vibrotactile hand stimulation NEUROIMAGE Rosa-Neto P, Chakravarty MM, Collins DL, Evans AC 1181448000 Abstract
Development of a novel vibrotactile stimulator ISMRM-ESMRMB JOINT ANNUAL MEETING 2007 Chakravarty MM, Broadbent S, Rosa-Neto P, Collins DL 1179547200 Abstract
Nonlinear registration of histological images for 3-D middle-ear modeling CANADIAN ACOUSTICS Nambiar S, Chakravarty MM, Funnell RJ, Collins DL 1173157200 Abstract
Fronto-striatal connections in the human brain: a probabilistic diffusion tractography study. Neuroscience Letters Leh SE, Ptito A, Chakravarty MM, Strafella AP 1167627600 Journal Article
A digital atlas for functional neurosurgery: Derivation from high-resolution histological data and atlas-to-patient warping techniques Proceedings of American Association for Neurosurgery 2006 Chakravarty MM, Sadikot AF, Mongia S, Bertrand G, Collins DL 1161144000 Abstract
A novel probabilistic analysis of electrode positions in the subthalamic nucleus related to clinical outcome Proceedings of American Association for Neurosurgery 2006 Sadikot AF, Mongia S, Chakravarty MM, Panisset M, Collins DL 1161144000 Abstract
An integrated technology platform for the Study of animal models of CNS disease NEUROIMAGE Bedell BJ, Zijdenbos AP, Chakravarty MM, Jonathon Lau, Collins DL, Evans AC 1150171200 Abstract
Cortical connections of the basal-ganglia: A probabilistic diffusion tractography study SOCIETY FOR NEUROSCIENCE ABSTRACTS Strafella AP, Leh SE, Chakravarty MM, Ptito A 1141621200 Abstract
Towards a multi-modal atlas for neurosurgical planning Medical Image Computing and Computer-Assisted Intervention : MICCAI Chakravarty MM, Sadikot AF, Mongia S, Bertrand G, Collins DL 1136091600 Presentation
The creation of a brain atlas for image guided neurosurgery using serial histological data. NeuroImage Chakravarty MM, Bertrand G, Hodge CP, Sadikot AF, Collins DL 1136091600 Journal Article
Anatomical and electrophysiological validation of an atlas for neurosurgical planning. Medical Image Computing and Computer-Assisted Intervention : MICCAI Chakravarty MM, Sadikot AF, Germann J, Bertrand G, Collins DL 1104555600 Presentation
The creation of a brain atlas for image guided neurosurgery using serial histological data Medical Image Computing and Computer-Assisted Intervention - MICCAI Chakravarty MM, Bertrand G, Descoteaux M, Sadikot AF, Collins DL 1068872400 Presentation

Education

  • 2001: B.Eng., Electrical Engineering, University of Waterloo
  • 2003: M.Eng. (transfer to PhD.), Biomedical Engineering, McGill University Montreal, QC, Canada
  • 2007: PhD., Biomedical Engineering, McGill University Montreal, QC, Canada

Academic Appointments

  • 2007: Visiting PhD Student, INRIA/IRISA/INSERM Visages Team, Campus Beaulieu, Rennes, France
  • 2007–2009: Postdoctoral Fellow, Aarhus PET Center, Aarhus University Hospital
  • 2009–2010: Senior Informatics Analyst, Allen Institute for Brain Science
  • 2010–Present: Post-Doctoral Research Fellow, Rotman Research Institute, Baycrest Hospital, Toronto, Ontario, Canada
  • 2010: Post-Doctoral Research Fellow, Mouse Imaging Center, Sick Children's Hospital, Toronto, Ontario, Canada

Reviewership

Other

  • 2010: NeuroImage
  • 2010: IEEE Transactions in Medical Imaging
  • 2010: Journal of Neuroscience Letters
  • 2010: Journal of Neuroscience Methods
  • 2010: Elsevier Methods
  • 2010: International Journal of Computer Aided Radiology and Surgery
  • 2010: Academic Radiology
  • 2010: Pattern Recognition Letters
  • 2006–2010: Medical Image Computing and Computer-Assisted Intervention - MICCAI
  • 2010: International Society for Biomedical Imaging – ISBI
  • 2009: World Molecular Imaging Congress – WMIC
  • 2007–2009: Engineering in Medicine and Biology – EMBC
  • 2007–2009: International Conference on Pattern Recognition – ICPR

Distinctions and Awards

  • 2006: Best Poster, American Association of Neurological Surgeons Conference, First Prize (San Francisco, 2006)
  • 2006: Travel Award, EMRMB/ISMRM, For presentation of work on Vibrotactile Stimulation USD , 638
  • 2006: Collaboration Award, FQRNT – INRIA, $4850 CAD and $3000 Euro , 7850
  • 2006: Best Poster, American Association of Neurological Surgeons Conference, Second Prize (San Francisco, 2006)
  • 2006: Graduate Student Society Travel Award, Montreal Neurological Institute, 500
  • 2006: Arthur Victor Memorial Travel Award, Arthur Victor Movement Disorders Foundation, For students presenting outstanding research in Movement Disorders , 2000
  • 2003: Master’s to PhD. transfer from Biomedical Engineering
  • 2001: Undergraduate tutor and mentor for all first year students, University of Waterloo
  • 2001: Undergraduate Student Research Apprenticeship, University of Waterloo
  • 2001: WEEF tutor, University of Waterloo
  • 2000: Undergraduate tutor and mentor for all first year students, University of Waterloo

Sessions Chaired at International Conferences

  1. Gene Function Meets Brain Function – Organization for Human Brain Mapping, Barcelona, Spain 2010.  Participants: Michael D. Greicius (Stanford University, USA), Tomas Paus (Rotman Research Institute, University of Toronto, Canada), Ed Lein (Allen Institute for Brain Science, USA), and Peter Kirsch (Central Institute for Mental Health, Germany)

Volunteer Activities

  1. Brain Awareness Week – Presenter at various elementary and secondary schools in the greater Montreal Area. 2001-2006.
  2. President of Board of Directors for Santropol Roulant (2005-7) – Chairing board meetings, designing and implementing organization decisions and policies.  Santropol Roulant is a volunteer organization established and run by motivated and dynamic young people in the community. The organizational goal is to bring people and groups together across cultures and generations through innovative meals-on-wheels service and intergenerational programs. www.santroppolroulant.org