Publications
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Space-Time Localization and Mapping
Minhaeng Lee, Charless Fowlkes
IEEE International Conference on Computer Vision, 2017.
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Cluster-wise Ratio Tests for Fast Camera Localization
Raúl Díaz, Charless Fowlkes
IEEE Conference on Computer Vision and Pattern Recognition, Workshop on Visual Odometry and Computer Vision Applications Base don Location Clues, 2017.
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Low-rank Bilinear Pooling for Fine-grained Classification
Shu Kong, Charless Fowlkes
IEEE Conference on Computer Vision and Pattern Recognition (CVPR), 2017.
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Intermittent Stem Cell Cycling Balances Self-Renewal and Senescence of the C. elegans Germ Line
Amanda Cinquin, Michael Chiang, Adrian Paz, Sam Hallman, Oliver Yuan, Indre Vysniauskaite, Charless Fowlkes, Olivier Cinquin
PLOS Genetics, 2016, 12.
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A gene expression atlas of a bicoid-depleted Drosophila embryo reveals early canalization of cell fate
Max Staller, Charless Fowlkes, Meghan Bragdon, Zeba Wunderlich, Javier Estrada, Angela DePace
Development, 2015, 142, 3, 587--596.
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Hierarchical Planar Correlation Clustering for Cell Segmentation
Julian Yarkony, Chong Zhang, Charless Fowlkes
Energy Minimization Methods in Computer Vision and Pattern Recognition, 2015, 492--504.
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Planar Ultrametrics for Image Segmentation
Julian Yarkony, Charless Fowlkes
Neural Information Processing Systems (NIPS), 2015.
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Whole-body tissue stabilization and selective extractions via tissue-hydrogel hybrids for high-resolution intact circuit mapping and phenotyping
Jennifer Treweek, Ken Chan, Nicholas Flytzanis, Bin Yang, Benjamin Deverman, Alon Greenbaum, Antti Lignell, Cheng Xiao, Long Cai, Mark Ladinsky, Pamela Bjorkman, Charless Fowlkes, Viviana Gradinaru
Nature Protocols, 2015, 10, 11, 1860--1896.
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Analysis of in vivo single cell behavior by high throughput, human-in-the-loop segmentation of three-dimensional images
Michael Chiang, Sam Hallman, Amanda Cinquin, Nabora Mochel, Adrian Paz, Shimako Kawauchi, Anne Calof, Ken Cho, Charless Fowlkes, Oliver Cinquin
BMC Bioinformatics, 2015, 16:397.
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Accurate Motion Deblurring using Camera Motion Tracking and Scene Depth
Hyeoungho Bae, Charless Fowlkes, Pai Chou
IEEE Workshop on Applications of Computer Vision (WACV), 2013.
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Quantitative Analysis of Axonal Transport by Using Compartmentalized and Surface Micropatterned Culture of Neurons
Hyung Kim, Jeong Park, Jae Byun, Wayne Poon, Carl Cotman, Charless Fowlkes, Noo Jeon
ACS Chemical Neuroscience, 2012, 3, 6, 433--438.
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Feed-forward hierarchical model of the ventral visual stream applied to functional brain image classification
David Keator, James Fallon, Anita Lakatos, Charless Fowlkes, Steven Potkin, Alexander Ihler
Human Brain Mapping, 2012.
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Patch Mosaic for Fast Motion Deblurring
Hyeoungho Bae, Charless Fowlkes, Pai Chou
Asian Conference on Computer Vision (ACCV), 2012.
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Shirnk-Film Configurable Multiscale Wrinkles for Functional Alignment of Human Embryonic Stem Cells and their Cardiac Derivatives
Aaron Chen, Deborah Lieu, Lauren Freshauf, Valerie Lew, Himanshu Sharma, Jianxian Wang, Diep Nguyen, Ioannis Karakikes, Roger Hajjar, Ajay Gopinathan, Elliot Botvinick, Charless Fowlkes, Ronald Li, Michelle Khine
Advanced Materials, 2011, 23, 5785-5791.
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Contour Detection and Hierarchical Image Segmentation
Pablo Arbelaez, Michael Maire, Charless Fowlkes, Jitendra Malik
IEEE PAMI, 2011, 33(5).
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Multi-scale Biomimetic Topography for the Alignment of Neonatal and Embryonic Stem Cell-derived Heart Cells
Jesus Luna, Jesus Ciriza, Marcos Ojeda-Garcia, Marco Kong, Anthony Herren, Deborah Lieu, Ronald Li, Charless Fowlkes, Michelle Khine, Kara McCloskey
Tissue Engineering: Part C, 2011, 17(5).
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Analysis of Gap Gene Reguation in a 3D Organism-Scale Model of the Drosophila melanogaster Embryo
James Hengenius, Michael Gribskov, Ann Rundell, Charless Fowlkes, David Umulis
PLoS ONE, 2011, 6, e26797.
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A Conserved Developmental Patterning Network Produces Quantitatively Different Output in Multiple Species of Drosophila
Charless Fowlkes, Kelly Eckenrode, Meghan Bragdon, Miriah Meyer, Zeba Wunderlich, Lisa Simirenko, Cris Luengo, Soile Keränen, Clara, Henriquez, David Knowles, Mark Biggin, Michael Eisen, Angela DePace
PLoS Genetics, 2011, 7, e1002346.
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Integrating Data Clustering and Visualization for the Analysis of 3D Gene Expression Data
Oliver Rübel, Gunther Weber, Min-Yu Huang, E. Bethel, Mark Biggin, Charless Fowlkes, Cris Hendriks, Soile Keränen, Michael Eisen, David Knowles, Jitendra Malik, Hans Hagen, Bernd Hamann
IEEE Transactions on Computational Biology and Bioinformatics, 2010, 7(1), 64-79.
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Discriminative models for static human-object interactions
Chaitanya Desai, Deva Ramanan, Charless Fowlkes
IEEE Conference on Computer Vision and Pattern Recognition, Workshop on Structured Prediction, 2010.
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Nonparametric identification of regulatory interactions from spatial and temporal gene expression data
Anil Aswani, Soile Keräen, James Brown, Charless Fowlkes, David Knowles, Mark Biggin, Peter Bickel, Claire Tomlin
BMC Bioinformatics, 2010, 11:413.
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Visual Exploration of Three-dimensional Gene Expression Using Physical Views and Linked Abstract Views
Gunther Weber, Oliber Rubel, Min-Yu Huang, Angela DePace, Charless Fowlkes, Soile Keranen, Cris Hendriks, Hans Hagen, David Knowles, Jitendra Malik, Mark Biggin, Bernd Hamann
IEEE Transactions on Computational Biology and Bioinformatics, 2009, 6(2), 296-309.
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From Contours to Regions: An Empirical Evaluation
Pablo Arbelaez, Michael Maire, Charless Fowlkes, Jitendra Malik
CVPR, 2009.
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Learning Probabilistic Models for Contour Completion.
Xiaofeng Ren, Charless Fowlkes, Jitendra Malik
IJCV, 2008, 77, 47-63.
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Using Contours to Detect and Localize Junctions in Natural Images
Michael Maire, Pablo Arbelaez, Charless Fowlkes, Jitendra Malik
CVPR, 2008.
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A Quantitative Spatiotemporal Atlas of Gene Expression in the Drosohpila Blastoderm
Charless Fowlkes, Cris Luengo, Soile Keränen, Gunther Weber, Oliver Rübel, Min-Yu, Huang, Sohail Chatoor, Lisa Simirenko, Angela DePace, Clara, Henriquez, Amy Beaton, Richard Weiszmann, Susan Celniker, Bernd Hamann, David Knowles, Mark Biggin, Michael Eisen, Jitendra Malik
Cell, 2008, 133, 364-374.
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Local figure-ground cues are valid for natural images
Charless Fowlkes, David Martin, Jitendra Malik
Journal of Vision, 2007, 7, 8, 1--9.
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PointCloudXplore: Visual Analysis of 3D Gene Expression Data Using Physical Views and Parallel Coordinates
O. Rubel, G.H. Weber, S.V.E. Keranen, Charless Fowlkes, C.L. Hendriks, L. Simirenko, N.Y. Shah, M.B. Eisen, M.D. Biggin, H. Hagen, D. Sudar, J. Malik, D.W. Knowles, B. Hamann
Eurographics/IEEE VGTC Symposium on Visualization, 2006, 203--210.
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Cue Integration for Figure/Ground Labeling
Xiaofeng Ren, Charless Fowlkes, Jitendra Malik
Advances in Neural Information Processing Systems 18, 2006, 1121--1128.
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Figure/Ground Assignment in Natural Images
Xiaofeng Ren, Charless Fowlkes, Jitendra Malik
ECCV, 2006, II: 614-627.
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3D Morphology and Gene Expression in the Drosophila Blastoderm at Cellular Resolution I: Data Acquisition Pipeline
Cris Hendriks, Soile Keränen, Charless Fowlkes, Lisa Simirenko, Gunther Weber, Clara Henriquez, David Kaszuba, Bernd Hamann, Michael Eisen, Jitendra Malik, Damir Sudar, Mark Biggin, David Knowles
Genome Biology, 2006, 7:R123.
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Inferring nuclear movements from fixed material
Charless Fowlkes, Jitendra Malik
UC Berkeley, 2006, UCB//EECS-06-142.
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3D Morphology and Gene Expression in the Drosophila Blastoderm at Cellular Resolution II: Dynamics
Soile Keränen, Charless Fowlkes, Cris Hendriks, Damir Sudar, David Knowles, Jitendra Malik, Mark Biggin
Genome Biology, 2006, 7:R124.
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Mid-level cues improve boundary detection
Xiaofeng Ren, Charless Fowlkes, Jitendra Malik
UC Berkeley, 2005, UCB//CSD-05-1382.
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Registering Drosophila Embryos at Cellular Resolution to Build a Quantitative 3D Atlas of Gene Expression Patterns and Morphology
Charless Fowlkes, Cris Hendriks, Soile Keränen, Mark Biggin, David Knowles, Damir Sudar, Jitendra Malik
CSB 2005 Workshop on BioImage Data Minning and Informatics, 2005.
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Spectral Grouping Using the Nyström Method
Charless Fowlkes, Serge Belongie, Fan Chung, Jitendra Malik
IEEE PAMI, 2004, 26, 2, 214-225.
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How Much Does Globalization Help Segmentation?
Charless Fowlkes, Jitendra Malik
UC Berkeley, 2004, UCB//CSD-04-1340.
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Extracting Global Structure from Gene Expression Profiles
Charless Fowlkes, Qun Shan, Serge Belongie, Jitendra Malik
Methods of Microarray Data Analysis II, 2002.
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Spectral Partitioning with Indefinite Kernels Using the Nyström Extension
Serge Belongie, Charless Fowlkes, Fan Chung, Jitendra Malik
ECCV, 2002, III: 531 ff..
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Efficient Spatiotemporal Grouping Using the Nyström Method
Charless Fowlkes, Serge Belongie, Jitendra Malik
CVPR, 2001, I:231-238.
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