M. Mallar Chakravarty

Publication Activity (10 Years)

Years Active: 2003-2024
Publications (10 Years): 32

Top Topics

Manual Segmentation

Automatically Generate

Top Venues

Frontiers Neuroinformatics

PLoS Comput. Biol.

Publications

Simon Oxenford, Ana Sofía Ríos, Barbara Hollunder, Clemens Neudorfer, Alexandre Boutet, Gavin J. B. Elias, Jürgen Germann, Aaron Loh, Wissam Deeb, Bryan Salvato, Leonardo Almeida, Kelly D. Foote, Robert Amaral, Paul B. Rosenberg, David F. Tang-Wai, David A. Wolk, Anna D. Burke, Marwan N. Sabbagh, Stephen Salloway, M. Mallar Chakravarty, Gwenn S. Smith, Constantine G. Lyketsos, Michael S. Okun, William S. Anderson, Zoltan Mari, Francisco A. Ponce, Andres Lozano, Wolf-Julian Neumann, Bassam Al-Fatly, Andreas Horn
WarpDrive: Improving spatial normalization using manual refinements. Medical Image Anal. 91 (2024)
Hadis Kalantar Hormozi, Raihaan Patel, Alyssa Dai, Justine Ziolkowski, Hao-Ming Dong, Avram Holmes, Armin Raznahan, Gabriel A. Devenyi, M. Mallar Chakravarty
A cross-sectional and longitudinal study of human brain development: The integration of cortical thickness, surface area, gyrification index, and cortical curvature into a unified analytical framework. NeuroImage 268 (2023)
Vanessa Valiquette, Elisa Guma, Lani Cupo, Daniel Gallino, Chloe Anastassiadis, Emily Snook, Gabriel A. Devenyi, M. Mallar Chakravarty
Examining litter specific variability in mice and its impact on neurodevelopmental studies. NeuroImage 269 (2023)
Corinne Robert, Raihaan Patel, Nadia Blostein, Chrisopher J. Steele, M. Mallar Chakravarty
Analyses of microstructural variation in the human striatum using non-negative matrix factorization. NeuroImage 246 (2022)
Paul-Noel Rousseau, M. Mallar Chakravarty, Christopher John Steele
Mapping pontocerebellar connectivity with diffusion MRI. NeuroImage 264 (2022)
Raihaan Patel, Clare E. Mackay, Michelle G. Jansen, Gabriel A. Devenyi, M. Clare O'Donoghue, Mika Kivimäki, Archana Singh-Manoux, Eniko Zsoldos, Klaus P. Ebmeier, M. Mallar Chakravarty, Sana Suri
Inter- and intra-individual variation in brain structural-cognition relationships in aging. NeuroImage 257 (2022)
Aurélie Bussy, Eric Plitman, Raihaan Patel, Stephanie Tullo, Alyssa Salaciak, Saashi A. Bedford, Sarah Farzin, Marie-Lise Béland, Vanessa Valiquette, Christina Kazazian, Christine Lucas Tardif, Gabriel A. Devenyi, M. Mallar Chakravarty
Hippocampal subfield volumes across the healthy lifespan and the effects of MR sequence on estimates. NeuroImage 233 (2021)
Eric Plitman, Aurélie Bussy, Vanessa Valiquette, Alyssa Salaciak, Raihaan Patel, Lani Cupo, Marie-Lise Béland, Stephanie Tullo, Christine Lucas Tardif, M. Natasha Rajah, Jamie Near, Gabriel A. Devenyi, M. Mallar Chakravarty
H-MRS indices: An MRI reliability study with implications for longitudinal study designs. NeuroImage 238 (2021)
Stefan Drakulich, Anne-Charlotte Thiffault, Emily Olafson, Olivier Parent, Aurélie Labbe, Matthew D. Albaugh, Budhachandra S. Khundrakpam, Simon Ducharme, Alan C. Evans, M. Mallar Chakravarty, Sherif Karama
Maturational trajectories of pericortical contrast in typical brain development. NeuroImage 235 (2021)
Athina Tzovara, Ishmael Amarreh, Valentina Borghesani, M. Mallar Chakravarty, Elizabeth Dupre, Christian Grefkes, Amelie Haugg, Lee Jollans, Hyang Woon Lee, Sharlene D. Newman, Rosanna K. Olsen, J. Tilak Ratnanather, Gina Rippon, Lucina Q. Uddin, Maria L. Bringas-Vega, Michele Veldsman, Tonya White, AmanPreet Badhwar
Embracing diversity and inclusivity in an academic setting: Insights from the Organization for Human Brain Mapping. NeuroImage 229 (2021)
Ari M. Fish, Ajay Nadig, Jakob Seidlitz, Paul K. Reardon, Catherine Mankiw, Cassidy L. McDermott, Jonathan D. Blumenthal, Liv S. Clasen, François Lalonde, Jason P. Lerch, M. Mallar Chakravarty, Russell T. Shinohara, Armin Raznahan
Sex-biased trajectories of amygdalo-hippocampal morphology change over human development. NeuroImage 204 (2020)
Raihaan Patel, Christopher John Steele, Anthony G. X. Chen, Sejal Patel, Gabriel A. Devenyi, Jürgen Germann, Christine L. Tardif, M. Mallar Chakravarty
Investigating microstructural variation in the human hippocampus using non-negative matrix factorization. NeuroImage 207 (2020)
Ting Guo, Vann Chau, Shabnam Peyvandi, Beatrice Latal, Patrick S. McQuillen, Walter Knirsch, Anne Synnes, Maria Feldmann, Nadja Naef, M. Mallar Chakravarty, Alessandra De Petrillo, Emma G. Duerden, A. James Barkovich, Steven P. Miller
White matter injury in term neonates with congenital heart diseases: Topology & comparison with preterm newborns. NeuroImage 185 (2019)
Francesca Mandino, Domenic H. Cerri, Clément M. Garin, Milou Straathof, Geralda A. F. van Tilborg, M. Mallar Chakravarty, Marc Dhenain, Rick M. Dijkhuizen, Alessandro Gozzi, Andreas Hess, Shella D. Keilholz, Jason P. Lerch, Yen-Yu Ian Shih, Joanes Grandjean
Animal Functional Magnetic Resonance Imaging: Trends and Path Toward Standardization. Frontiers Neuroinformatics 13 (2019)
Ahmed Ashraf, Shehroz S. Khan, Nikhil Bhagwat, M. Mallar Chakravarty, Babak Taati
Learning to Unlearn: Building Immunity to Dataset Bias in Medical Imaging Studies. CoRR (2018)
Nikhil Bhagwat, Joseph D. Viviano, Aristotle N. Voineskos, M. Mallar Chakravarty, Alzheimer's Disease Neuroimaging Initiative
Modeling and prediction of clinical symptom trajectories in Alzheimer's disease using longitudinal data. PLoS Comput. Biol. 14 (9) (2018)
Christopher John Steele, M. Mallar Chakravarty
Gray-matter structural variability in the human cerebellum: Lobule-specific differences across sex and hemisphere. NeuroImage 170 (2018)
Sejal Patel, Raihaan Patel, Min Tae M. Park, Mario Masellis, Jo Knight, M. Mallar Chakravarty
Heritability estimates of cortical anatomy: The influence and reliability of different estimation strategies. NeuroImage 178 (2018)
Elisa Guma, Jill Rocchetti, Gabriel A. Devenyi, Arnaud Tanti, Axel Mathieu, Jason P. Lerch, Guillaume Elgbeili, Blandine Courcot, Naguib Mechawar, M. Mallar Chakravarty, Bruno Giros
Regional brain volume changes following chronic antipsychotic administration are mediated by the dopamine D2 receptor. NeuroImage 176 (2018)
Dorothee Schoemaker, Claudia Buss, Kevin Head, Curt A. Sandman, Elysia Poggi Davis, M. Mallar Chakravarty, Serge Gauthier, Jens C. Pruessner
Corrigendum to "Hippocampus and amygdala volumes from magnetic resonance images in children: Assessing accuracy of FreeSurfer and FSL against manual segmentation"[NeuroImage 129 (2016) 1-14]. NeuroImage 173 (2018)
Carolina Makowski, Sophie Béland, Penelope Kostopoulos, Nikhil Bhagwat, Gabriel A. Devenyi, Ashok K. Malla, Ridha Joober, Martin Lepage, M. Mallar Chakravarty
Evaluating accuracy of striatal, pallidal, and thalamic segmentation methods: Comparing automated approaches to manual delineation. NeuroImage 170 (2018)
Siobhan Ewert, Philip Plettig, Ningfei Li, M. Mallar Chakravarty, D. Louis Collins, Todd M. Herrington, Andrea A. Kühn, Andreas Horn
Toward defining deep brain stimulation targets in MNI space: A subcortical atlas based on multimodal MRI, histology and structural connectivity. NeuroImage 170 (2018)
Robert S. C. Amaral, Min Tae M. Park, Gabriel A. Devenyi, Vivian Lynn, Jon Pipitone, Julie L. Winterburn, Sofia Chavez, Mark M. Schira, Nancy J. Lobaugh, Aristotle N. Voineskos, Jens C. Pruessner, M. Mallar Chakravarty
Manual segmentation of the fornix, fimbria, and alveus on high-resolution 3T MRI: Application via fully-automated mapping of the human memory circuit white and grey matter in healthy and pathological aging. NeuroImage 170 (2018)
José E. Romero, Pierrick Coupé, Rémi Giraud, Vinh-Thong Ta, Vladimir S. Fonov, Min Tae M. Park, M. Mallar Chakravarty, Aristotle N. Voineskos, José V. Manjón
CERES: A new cerebellum lobule segmentation method. NeuroImage 147 (2017)
Krzysztof J. Gorgolewski, Fidel Alfaro-Almagro, Tibor Auer, Pierre Bellec, Mihai Capota, M. Mallar Chakravarty, Nathan William Churchill, Alexander Li Cohen, R. Cameron Craddock, Gabriel A. Devenyi, Anders Eklund, Oscar Esteban, Guillaume Flandin, Satrajit S. Ghosh, J. Swaroop Guntupalli, Mark Jenkinson, Anisha Keshavan, Gregory Kiar, Franziskus Liem, Pradeep Reddy Raamana, David Raffelt, Christopher John Steele, Pierre-Olivier Quirion, Robert E. Smith, Stephen C. Strother, Gaël Varoquaux, Yida Wang, Tal Yarkoni, Russell A. Poldrack
BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods. PLoS Comput. Biol. 13 (3) (2017)
Sejal Patel, Min Tae M. Park, M. Mallar Chakravarty, Jo Knight
Gene Prioritization for Imaging Genetics Studies Using Gene Ontology and a Stratified False Discovery Rate Approach. Frontiers Neuroinformatics 10 (2016)
Dorothee Schoemaker, Claudia Buss, Kevin Head, Curt A. Sandman, Elysia Poggi Davis, M. Mallar Chakravarty, Serge Gauthier, Jens C. Pruessner
Hippocampus and amygdala volumes from magnetic resonance images in children: Assessing accuracy of FreeSurfer and FSL against manual segmentation. NeuroImage 129 (2016)
M. Mallar Chakravarty, Clement Hamani, Alonso Martinez-Canabal, Jacob Ellegood, Christine L. Laliberté, José N. Nobrega, Tejas Sankar, Andres M. Lozano, Paul W. Frankland, Jason P. Lerch
Deep brain stimulation of the ventromedial prefrontal cortex causes reorganization of neuronal processes and vasculature. NeuroImage 125 (2016)
Paul A. Yushkevich, Robert S. C. Amaral, Jean C. Augustinack, Andrew R. Bender, Jeffrey D. Bernstein, Marina Boccardi, Martina Bocchetta, Alison C. Burggren, Valerie A. Carr, M. Mallar Chakravarty, Gaël Chételat, Ana M. Daugherty, Lila Davachi, Song-Lin Ding, Arne D. Ekstrom, Mirjam I. Geerlings, Abdul Hassan, Yushan Huang, Juan Eugenio Iglesias, Renaud La Joie, Geoffrey A. Kerchner, Karen F. LaRocque, Laura A. Libby, Nikolai Malykhin, Susanne G. Mueller, Rosanna K. Olsen, Daniela J. Palombo, Mansi B. Parekh
Quantitative comparison of 21 protocols for labeling hippocampal subfields and parahippocampal subregions in in vivo MRI: Towards a harmonized segmentation protocol. NeuroImage 111 (2015)
Lawrence H. Baer, Min Tae M. Park, Jennifer Anne Bailey, M. Mallar Chakravarty, K. Z. H. Li, Virginia B. Penhune
Regional cerebellar volumes are related to early musical training and finger tapping performance. NeuroImage 109 (2015)
Yiming Xiao, Vladimir S. Fonov, Silvain Bériault, Fahd Al Subaie, M. Mallar Chakravarty, Abbas F. Sadikot, G. Bruce Pike, D. Louis Collins
Multi-contrast unbiased MRI atlas of a Parkinson's disease population. Int. J. Comput. Assist. Radiol. Surg. 10 (3) (2015)
Nikhil Bhagwat, Jon Pipitone, Aristotle N. Voineskos, Jens C. Pruessner, M. Mallar Chakravarty
Improving multi-atlas segmentation accuracy by leveraging local neighborhood information during label-fusion. ISBI (2015)
Jon Pipitone, Min Tae M. Park, Julie L. Winterburn, Tristram A. Lett, Jason P. Lerch, Jens C. Pruessner, Martin Lepage, Aristotle N. Voineskos, M. Mallar Chakravarty
Multi-atlas segmentation of the whole hippocampus and subfields using multiple automatically generated templates. NeuroImage 101 (2014)
Miriam Friedel, Matthijs C. van Eede, Jon Pipitone, M. Mallar Chakravarty, Jason P. Lerch
Pydpiper: a flexible toolkit for constructing novel registration pipelines. Frontiers Neuroinformatics 8 (2014)
Min Tae M. Park, Jon Pipitone, Lawrence H. Baer, Julie L. Winterburn, Yashvi Shah, Sofia Chavez, Mark M. Schira, Nancy J. Lobaugh, Jason P. Lerch, Aristotle N. Voineskos, M. Mallar Chakravarty
Derivation of high-resolution MRI atlases of the human cerebellum at 3 T and segmentation using multiple automatically generated templates. NeuroImage 95 (2014)
Angelita Pui-Yee Wong, Jon Pipitone, Min Tae M. Park, Erin W. Dickie, Gabriel Leonard, Michel Perron, G. Bruce Pike, Louis Richer, Suzanne Veillette, M. Mallar Chakravarty, Zdenka Pausova, Tomás Paus
Estimating volumes of the pituitary gland from T1-weighted magnetic-resonance images: Effects of age, puberty, testosterone, and estradiol. NeuroImage 94 (2014)
Julie L. Winterburn, Jens C. Pruessner, Sofia Chavez, Mark M. Schira, Nancy J. Lobaugh, Aristotle N. Voineskos, M. Mallar Chakravarty
A novel in vivo atlas of human hippocampal subfields using high-resolution 3 T magnetic resonance imaging. NeuroImage 74 (2013)
Matthijs C. van Eede, Jan Scholz, M. Mallar Chakravarty, R. Mark Henkelman, Jason P. Lerch
Mapping registration sensitivity in MR mouse brain images. NeuroImage 82 (2013)
Klára Marecková, M. Mallar Chakravarty, Mei Huang, Claire Lawrence, Gabriel Leonard, Michel Perron, G. Bruce Pike, Louis Richer, Suzanne Veillette, Zdenka Pausova, Tomás Paus
Does skull shape mediate the relationship between objective features and subjective impressions about the face? NeuroImage 79 (2013)
Yiming Xiao, Lara Bailey, M. Mallar Chakravarty, Silvain Bériault, Abbas F. Sadikot, G. Bruce Pike, D. Louis Collins
Atlas-Based Segmentation of the Subthalamic Nucleus, Red Nucleus, and Substantia Nigra for Deep Brain Stimulation by Incorporating Multiple MRI Contrasts. IPCAI (2012)
Stephen Frey, Deepak N. Pandya, M. Mallar Chakravarty, Lara Bailey, Michael Petrides, D. Louis Collins
An MRI based average macaque monkey stereotaxic atlas and space (MNI monkey space). NeuroImage 55 (4) (2011)
Sune Nørhøj Jespersen, Carsten R. Bjarkam, Jens R. Nyengaard, M. Mallar Chakravarty, Brian Hansen, Thomas Vosegaard, Leif Østergaard, Dmitriy A. Yablonskiy, Niels Chr. Nielsen, Peter Vestergaard-Poulsen
Neurite density from magnetic resonance diffusion measurements at ultrahigh field: Comparison with light microscopy and electron microscopy. NeuroImage 49 (1) (2010)
Sandra E. Leh, Alain Ptito, Marc Schönwiesner, M. Mallar Chakravarty, Kathy T. Mullen
Blindsight Mediated by an S-Cone-independent Collicular Pathway: An fMRI Study in Hemispherectomized Subjects. J. Cogn. Neurosci. 22 (4) (2010)
M. Mallar Chakravarty, Barry J. Bedell, Simone P. Zehntner, Alan C. Evans, D. Louis Collins
Three-dimensional reconstruction of serial histological mouse brain sections. ISBI (2008)
M. Mallar Chakravarty, Abbas F. Sadikot, Jürgen Germann, Gilles Bertrand, D. Louis Collins
Towards a validation of atlas warping techniques. Medical Image Anal. 12 (6) (2008)
M. Mallar Chakravarty, Pedro Rosa-Neto, Scott Broadbent, Alan C. Evans, D. Louis Collins
Development of FMRI techniques for planning in functional neurosurgery for Parkinson's disease. ISBI (2008)
Sandra E. Leh, M. Mallar Chakravarty, Alain Ptito
The Connectivity of the Human Pulvinar: A Diffusion Tensor Imaging Tractography Study. Int. J. Biomed. Imaging 2008 (2008)
M. Mallar Chakravarty, Abbas F. Sadikot, Sanjay Mongia, Gilles Bertrand, D. Louis Collins
Towards a Multi-modal Atlas for Neurosurgical Planning. MICCAI (2) (2006)
M. Mallar Chakravarty, Gilles Bertrand, Charles P. Hodge, Abbas F. Sadikot, D. Louis Collins
The creation of a brain atlas for image guided neurosurgery using serial histological data. NeuroImage 30 (2) (2006)
M. Mallar Chakravarty, Abbas F. Sadikot, Jürgen Germann, Gilles Bertrand, D. Louis Collins
Anatomical and Electrophysiological Validation of an Atlas for Neurosurgical Planning. MICCAI (2) (2005)
M. Mallar Chakravarty, Gilles Bertrand, Maxime Descoteaux, Abbas F. Sadikot, D. Louis Collins
The Creation of a Brain Atlas for Image Guided Neurosurgery Using Serial Histological Data. MICCAI (1) (2003)