Tao Ju

2024

Adaptive grid generation for discretizing implicit complexes

Ju, Y., Du, X., Zhou, Q., Carr, N. & Ju, T., Jul 19 2024, In: ACM Transactions on Graphics. 43, 4, 82.

Research output: Contribution to journal › Article › peer-review

Open Access

Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages

Iglesia, M. D., Jayasinghe, R. G., Chen, S., Terekhanova, N. V., Herndon, J. M., Storrs, E., Karpova, A., Zhou, D. C., Naser Al Deen, N., Shinkle, A. T., Lu, R. J. H., Caravan, W., Houston, A., Zhao, Y., Sato, K., Lal, P., Street, C., Martins Rodrigues, F., Southard-Smith, A. N. & Targino da Costa, A. L. N. & 40 others, Zhu, H., Mo, C. K., Crowson, L., Fulton, R. S., Wyczalkowski, M. A., Fronick, C. C., Fulton, L. A., Sun, H., Davies, S. R., Appelbaum, E. L., Chasnoff, S. E., Carmody, M., Brooks, C., Liu, R., Wendl, M. C., Oh, C., Bender, D., Cruchaga, C., Harari, O., Bredemeyer, A., Lavine, K., Bose, R., Margenthaler, J., Held, J. M., Achilefu, S., Ademuyiwa, F., Aft, R., Ma, C., Colditz, G. A., Ju, T., Oh, S. T., Fitzpatrick, J., Hwang, E. S., Shoghi, K. I., Chheda, M. G., Veis, D. J., Chen, F., Fields, R. C., Gillanders, W. E. & Ding, L., Nov 2024, In: Nature Cancer. 5, 11, p. 1713-1736 24 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

Large-scale medieval urbanism traced by UAV–lidar in highland Central Asia

Frachetti, M. D., Berner, J., Liu, X., Henry, E. R., Maksudov, F. & Ju, T., Oct 31 2024, In: Nature. 634, 8036, p. 1118-1124 7 p.

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

TopoRoot+: computing whorl and soil line traits of field-excavated maize roots from CT imaging

Ju, Y., Liu, A. E., Oestreich, K., Wang, T., Topp, C. N. & Ju, T., Dec 2024, In: Plant Methods. 20, 1, 132.

Research output: Contribution to journal › Article › peer-review

Open Access

Tumour evolution and microenvironment interactions in 2D and 3D space

Mo, C. K., Liu, J., Chen, S., Storrs, E., Targino da Costa, A. L. N., Houston, A., Wendl, M. C., Jayasinghe, R. G., Iglesia, M. D., Ma, C., Herndon, J. M., Southard-Smith, A. N., Liu, X., Mudd, J., Karpova, A., Shinkle, A., Goedegebuure, S. P., Abdelzaher, A. T. M. A., Bo, P. & Fulghum, L. & 26 others, Livingston, S., Balaban, M., Hill, A., Ippolito, J. E., Thorsson, V., Held, J. M., Hagemann, I. S., Kim, E. H., Bayguinov, P. O., Kim, A. H., Mullen, M. M., Shoghi, K. I., Ju, T., Reimers, M. A., Weimholt, C., Kang, L. I., Puram, S. V., Veis, D. J., Pachynski, R., Fuh, K. C., Chheda, M. G., Gillanders, W. E., Fields, R. C., Raphael, B. J., Chen, F. & Ding, L., Oct 31 2024, In: Nature. 634, 8036, p. 1178-1186 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1 Scopus citations

2023

Tree Recovery by Dynamic Programming

Gratacos, G., Chakrabarti, A. & Ju, T., Dec 1 2023, In: IEEE Transactions on Pattern Analysis and Machine Intelligence. 45, 12, p. 15870-15882 13 p.

Research output: Contribution to journal › Article › peer-review

Variational Pruning of Medial Axes of Planar Shapes

Rong, P. & Ju, T., Aug 2023, In: Computer Graphics Forum. 42, 5, e14902.

Research output: Contribution to journal › Article › peer-review

Open Access

2022

RFEPS: Reconstructing feature-line equipped polygonal surface

Xu, R., Wang, Z., Dou, Z., Zong, C., Xin, S., Jiang, M., Ju, T. & Tu, C., Nov 30 2022, In: ACM Transactions on Graphics. 41, 6, 228.

Research output: Contribution to journal › Article › peer-review

17 Scopus citations

Robust computation of implicit surface networks for piecewise linear functions

Du, X., Zhou, Q., Carr, N. & Ju, T., Jul 22 2022, In: ACM Transactions on Graphics. 41, 4, 3530176.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Spatially restricted drivers and transitional cell populations cooperate with the microenvironment in untreated and chemo-resistant pancreatic cancer

Cui Zhou, D., Jayasinghe, R. G., Chen, S., Herndon, J. M., Iglesia, M. D., Navale, P., Wendl, M. C., Caravan, W., Sato, K., Storrs, E., Mo, C. K., Liu, J., Southard-Smith, A. N., Wu, Y., Naser Al Deen, N., Baer, J. M., Fulton, R. S., Wyczalkowski, M. A., Liu, R. & Fronick, C. C. & 46 others, Fulton, L. A., Shinkle, A., Thammavong, L., Zhu, H., Sun, H., Wang, L. B., Li, Y., Zuo, C., McMichael, J. F., Davies, S. R., Appelbaum, E. L., Robbins, K. J., Chasnoff, S. E., Yang, X., Reeb, A. N., Oh, C., Serasanambati, M., Lal, P., Varghese, R., Mashl, J. R., Ponce, J., Terekhanova, N. V., Yao, L., Wang, F., Chen, L., Schnaubelt, M., Lu, R. J. H., Schwarz, J. K., Puram, S. V., Kim, A. H., Song, S. K., Shoghi, K. I., Lau, K. S., Ju, T., Chen, K., Chatterjee, D., Hawkins, W. G., Zhang, H., Achilefu, S., Chheda, M. G., Oh, S. T., Gillanders, W. E., Chen, F., DeNardo, D. G., Fields, R. C. & Ding, L., Sep 2022, In: Nature Genetics. 54, 9, p. 1390-1405 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

97 Scopus citations

Topological Simplification of Nested Shapes

Zeng, D., Chambers, E., Letscher, D. & Ju, T., Aug 2022, In: Computer Graphics Forum. 41, 5, p. 161-173 13 p.

Research output: Contribution to journal › Article › peer-review

1 Scopus citations

2021

Boundary-sampled halfspaces

Du, X., Zhou, Q., Carr, N. & Ju, T., Jul 1 2021, In: ACM Transactions on Graphics. 40, 4, 3459870.

Research output: Contribution to journal › Article › peer-review

Open Access

10 Scopus citations

Deforming with Sparsity

Ju, T., Nov 1 2021, Computer, 54, 11, p. 4-5 2 p.

Research output: Contribution to specialist publication › Article

Open Access

Optimizing global injectivity for constrained parameterization

Du, X., Kaufman, D. M., Zhou, Q., Kovalsky, S. Z., Yan, Y., Aigerman, N. & Ju, T., Dec 10 2021, In: ACM Transactions on Graphics. 40, 6, 260.

Research output: Contribution to journal › Article › peer-review

Open Access

7 Scopus citations

TopoRoot: a method for computing hierarchy and fine-grained traits of maize roots from 3D imaging

Zeng, D., Li, M., Jiang, N., Ju, Y., Schreiber, H., Chambers, E., Letscher, D., Ju, T. & Topp, C. N., Dec 2021, In: Plant Methods. 17, 1, 127.

Research output: Contribution to journal › Article › peer-review

Open Access

16 Scopus citations

2020

Comprehensive 3D phenotyping reveals continuous morphological variation across genetically diverse sorghum inflorescences

Li, M., Shao, M. R., Zeng, D., Ju, T., Kellogg, E. A. & Topp, C. N., Jun 1 2020, In: New Phytologist. 226, 6, p. 1873-1885 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

33 Scopus citations

Lifting simplices to find injectivity

Du, X., Aigerman, N., Zhou, Q., Kovalsky, S. Z., Yan, Y., Kaufman, D. M. & Ju, T., Jul 8 2020, In: ACM Transactions on Graphics. 39, 4, 120.

Research output: Contribution to journal › Article › peer-review

35 Scopus citations

To cut or to fill: A global optimization approach to topological simplification

Zeng, D., Chambers, E., Letscher, D. & Ju, T., Nov 26 2020, In: ACM Transactions on Graphics. 39, 6, 201.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

2019

Variational implicit point set surfaces

Huang, Z., Carr, N. & Ju, T., Jul 2019, In: ACM Transactions on Graphics. 38, 4, 124.

Research output: Contribution to journal › Article › peer-review

Open Access

59 Scopus citations

2018

Repairing inconsistent curve networks on non-parallel cross-sections

Huang, Z. Y., Holloway, M., Carr, N. & Ju, T., 2018, In: Computer Graphics Forum. 37, 2, p. 25-35 11 p.

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

Robust optimization for topological surface reconstruction

Lazar, R., Dym, N., Kushinsky, Y., Huang, Z., Ju, T. & Lipman, Y., 2018, In: ACM Transactions on Graphics. 37, 4, A7.

Research output: Contribution to journal › Article › peer-review

11 Scopus citations

Voxel cores: Efficient, robust, and provably good approximation of 3d medial axes

Yan, Y., Letscher, D. & Ju, T., 2018, In: ACM Transactions on Graphics. 37, 4, A5.

Research output: Contribution to journal › Article › peer-review

43 Scopus citations

2017

Extracting Sharp Features from RGB-D Images

Cao, Y. P., Ju, T., Xu, J. & Hu, S. M., Dec 2017, In: Computer Graphics Forum. 36, 8, p. 138-152 15 p.

Research output: Contribution to journal › Article › peer-review

9 Scopus citations

Feature-aligned segmentation using correlation clustering

Zhuang, Y., Dou, H., Carr, N. & Ju, T., Jun 1 2017, In: Computational Visual Media. 3, 2, p. 147-160 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

16 Scopus citations

Flexible Fitting of Atomic Models into Cryo-EM Density Maps Guided by Helix Correspondences

Dou, H., Burrows, D. W., Baker, M. L. & Ju, T., Jun 20 2017, In: Biophysical Journal. 112, 12, p. 2479-2493 15 p.

Research output: Contribution to journal › Article › peer-review

Open Access

11 Scopus citations

2016

Extrinsically smooth direction fields

Huang, Z. & Ju, T., Aug 1 2016, In: Computers and Graphics. 58, p. 109-117 9 p.

Research output: Contribution to journal › Article › peer-review

16 Scopus citations

Fusing Heterogeneous Features From Stacked Sparse Autoencoder for Histopathological Image Analysis

Zhang, X., Dou, H., Ju, T., Xu, J. & Zhang, S., Sep 2016, In: IEEE Journal of Biomedical and Health Informatics. 20, 5, p. 1377-1383 7 p., 7172448.

Research output: Contribution to journal › Article › peer-review

73 Scopus citations

Template-based surface reconstruction from cross-sections

Holloway, M., Grimm, C. & Ju, T., Aug 1 2016, In: Computers and Graphics. 58, p. 84-91 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8 Scopus citations

2015

Graph-based deformable matching of 3D line with application in protein fitting

Dou, H., Baker, M. L. & Ju, T., Jun 12 2015, In: Visual Computer. 31, 6-8, p. 967-977 11 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

2014

Anisotropic geodesics for live-wire mesh segmentation

Zhuang, Y., Zou, M., Carr, N. & Ju, T., Oct 1 2014, In: Computer Graphics Forum. 33, 7, p. 111-120 10 p.

Research output: Contribution to journal › Article › peer-review

27 Scopus citations

A robust parity test for extracting parallel vectors in 3D

Ju, T., Cheng, M., Wang, X. & Duan, Y., Dec 31 2014, In: IEEE Transactions on Visualization and Computer Graphics. 20, 12, p. 2526-2534 9 p., 06875965.

Research output: Contribution to journal › Article › peer-review

6 Scopus citations

Interactive Image-Guided Modeling of Extruded Shapes

Cao, Y. P., Ju, T., Fu, Z. & Hu, S. M., Oct 1 2014, In: Computer Graphics Forum. 33, 7, p. 101-110 10 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Middle cerebral artery bifurcation aneurysms: An anatomic classification scheme for planning optimal surgical strategies

Washington, C. W., Ju, T., Zipfel, G. J. & Dacey, R. G., 2014, In: Neurosurgery. 10, 1, p. 145-153 9 p.

Research output: Contribution to journal › Article › peer-review

12 Scopus citations

2013

A general and efficient method for finding cycles in 3D curve networks

Zhuang, Y., Zou, M., Carr, N. & Ju, T., Nov 2013, In: ACM Transactions on Graphics. 32, 6, 180.

Research output: Contribution to journal › Article › peer-review

26 Scopus citations

An algorithm for triangulating multiple 3D polygons

Zou, M., Ju, T. & Carr, N., Aug 2013, In: Computer Graphics Forum. 32, 5, p. 157-166 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

22 Scopus citations

Automated, foot-bone registration using subdivision-embedded atlases for spatial mapping of bone mineral density

Liu, L., Commean, P. K., Hildebolt, C., Sinacore, D., Prior, F., Carson, J. P., Kakadiaris, I. & Ju, T., Jun 2013, In: Journal of Digital Imaging. 26, 3, p. 554-562 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

4 Scopus citations

Cubic mean value coordinates

Li, X. Y., Ju, T. & Hu, S. M., Jul 2013, In: ACM Transactions on Graphics. 32, 4, 126.

Research output: Contribution to journal › Article › peer-review

63 Scopus citations

Does the γ dose distribution comparison technique default to the distance to agreement test in clinical dose distributions

Low, D. A., Morele, D., Chow, P., Dou, T. H. & Ju, T., Jul 2013, In: Medical physics. 40, 7, 071722.

Research output: Contribution to journal › Article › peer-review

24 Scopus citations

Feature correspondences using Morse Smale complex

Feng, W., Huang, J., Ju, T. & Bao, H., Jan 2013, In: Visual Computer. 29, 1, p. 53-67 15 p.

Research output: Contribution to journal › Article › peer-review

11 Scopus citations

Reliability of clinically relevant 3D foot bone angles from quantitative computed tomography

Gutekunst, D. J., Liu, L., Ju, T., Prior, F. W. & Sinacore, D. R., Sep 17 2013, In: Journal of Foot and Ankle Research. 6, 1, 38.

Research output: Contribution to journal › Article › peer-review

Open Access

43 Scopus citations

2012

Gorgon and pathwalking: Macromolecular modeling tools for subnanometer resolution density maps

Baker, M. L., Baker, M. R., Hryc, C. F., Ju, T. & Chiu, W., Sep 2012, In: Biopolymers. 97, 9, p. 655-668 14 p.

Research output: Contribution to journal › Article › peer-review

Open Access

40 Scopus citations

Region-based line field design using harmonic functions

Yao, C. Y., Chi, M. T., Lee, T. Y. & Ju, T., 2012, In: IEEE Transactions on Visualization and Computer Graphics. 18, 6, p. 902-913 12 p., 5928338.

Research output: Contribution to journal › Article › peer-review

14 Scopus citations

2011

A Geometric Study of V-style Pop-ups: Theories and Algorithms

Li, X. Y., Gu, Y., Hu, S. M. & Ju, T., Jul 1 2011, In: ACM Transactions on Graphics. 30, 4, p. 1-10 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

A semiautomated approach for artefact removal in serial tissue cryosections

Kindle, L. M., Kakadiaris, I. A., Ju, T. & Carson, J. P., Feb 2011, In: Journal of Microscopy. 241, 2, p. 200-206 7 p.

Research output: Contribution to journal › Article › peer-review

10 Scopus citations

Extended grassfire transform on medial axes of 2D shapes

Liu, L., Chambers, E. W., Letscher, D. & Ju, T., Nov 2011, In: CAD Computer Aided Design. 43, 11, p. 1496-1505 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

32 Scopus citations

Modeling protein structure at near atomic resolutions with Gorgon

Baker, M. L., Abeysinghe, S. S., Schuh, S., Coleman, R. A., Abrams, A., Marsh, M. P., Hryc, C. F., Ruths, T., Chiu, W. & Ju, T., May 2011, In: Journal of Structural Biology. 174, 2, p. 360-373 14 p.

Research output: Contribution to journal › Article › peer-review

81 Scopus citations

View-independent contour culling of 3D density maps for far-field viewing of iso-surfaces

Feng, P., Ju, T. & Warren, J., Jun 2011, In: Computers and Graphics. 35, 3, p. 561-568 8 p.

Research output: Contribution to journal › Article › peer-review

1 Scopus citations

Volumetric Quantitative Computed Tomography Measurement Precision for Volumes and Densities of Tarsal and Metatarsal Bones

Commean, P. K., Kennedy, J. A., Bahow, K. A., Hildebolt, C. F., Liu, L., Smith, K. E., Hastings, M. K., Ju, T., Prior, F. W. & Sinacore, D. R., Jul 2011, In: Journal of Clinical Densitometry. 14, 3, p. 313-320 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

19 Scopus citations

2010

A simple and robust thinning algorithm on cell complexes

Liu, L., Chambers, E. W., Letscher, D. & Ju, T., Sep 2010, In: Computer Graphics Forum. 29, 7, p. 2253-2260 8 p.

Research output: Contribution to journal › Article › peer-review

58 Scopus citations

Automated pipeline for atlas-based annotation of gene expression patterns: Application to postnatal day 7 mouse brain

Carson, J., Ju, T., Bello, M., Thaller, C., Warren, J., Kakadiaris, I. A., Chiu, W. & Eichele, G., Feb 2010, In: Methods. 50, 2, p. 85-95 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

18 Scopus citations

Tao Ju

Research output

Search results