---
_id: '1929'
abstract:
- lang: eng
text: We propose an algorithm for the generalization of cartographic objects that
can be used to represent maps on different scales.
acknowledgement: We would like to offer our special thanks to students of the Department
of Mathematics of Demidov Yaroslavl State University A. A. Gorokhov and V. N. Knyazev
for participation in developing the program and assistance in preparation of test
data. This work was supported by grant 11.G34.31.0053 from the government of the
Russian Federation.
article_processing_charge: No
article_type: original
author:
- first_name: V V
full_name: Alexeev, V V
last_name: Alexeev
- first_name: V G
full_name: Bogaevskaya, V G
last_name: Bogaevskaya
- first_name: M M
full_name: Preobrazhenskaya, M M
last_name: Preobrazhenskaya
- first_name: A Y
full_name: Ukhalov, A Y
last_name: Ukhalov
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Olga
full_name: Yakimova, Olga
last_name: Yakimova
citation:
ama: Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner H,
Yakimova O. An algorithm for cartographic generalization that preserves global
topology. Journal of Mathematical Sciences. 2014;203(6):754-760. doi:10.1007/s10958-014-2165-8
apa: Alexeev, V. V., Bogaevskaya, V. G., Preobrazhenskaya, M. M., Ukhalov, A. Y.,
Edelsbrunner, H., & Yakimova, O. (2014). An algorithm for cartographic generalization
that preserves global topology. Journal of Mathematical Sciences. Springer.
https://doi.org/10.1007/s10958-014-2165-8
chicago: Alexeev, V V, V G Bogaevskaya, M M Preobrazhenskaya, A Y Ukhalov, Herbert
Edelsbrunner, and Olga Yakimova. “An Algorithm for Cartographic Generalization
That Preserves Global Topology.” Journal of Mathematical Sciences. Springer,
2014. https://doi.org/10.1007/s10958-014-2165-8.
ieee: V. V. Alexeev, V. G. Bogaevskaya, M. M. Preobrazhenskaya, A. Y. Ukhalov, H.
Edelsbrunner, and O. Yakimova, “An algorithm for cartographic generalization that
preserves global topology,” Journal of Mathematical Sciences, vol. 203,
no. 6. Springer, pp. 754–760, 2014.
ista: Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner
H, Yakimova O. 2014. An algorithm for cartographic generalization that preserves
global topology. Journal of Mathematical Sciences. 203(6), 754–760.
mla: Alexeev, V. V., et al. “An Algorithm for Cartographic Generalization That Preserves
Global Topology.” Journal of Mathematical Sciences, vol. 203, no. 6, Springer,
2014, pp. 754–60, doi:10.1007/s10958-014-2165-8.
short: V.V. Alexeev, V.G. Bogaevskaya, M.M. Preobrazhenskaya, A.Y. Ukhalov, H. Edelsbrunner,
O. Yakimova, Journal of Mathematical Sciences 203 (2014) 754–760.
date_created: 2018-12-11T11:54:46Z
date_published: 2014-11-16T00:00:00Z
date_updated: 2022-05-24T10:39:06Z
day: '16'
department:
- _id: HeEd
doi: 10.1007/s10958-014-2165-8
intvolume: ' 203'
issue: '6'
language:
- iso: eng
month: '11'
oa_version: None
page: 754 - 760
publication: Journal of Mathematical Sciences
publication_identifier:
eissn:
- 1573-8795
issn:
- 1072-3374
publication_status: published
publisher: Springer
publist_id: '5165'
quality_controlled: '1'
scopus_import: '1'
status: public
title: An algorithm for cartographic generalization that preserves global topology
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 203
year: '2014'
...
---
_id: '1930'
abstract:
- lang: eng
text: (Figure Presented) Data acquisition, numerical inaccuracies, and sampling
often introduce noise in measurements and simulations. Removing this noise is
often necessary for efficient analysis and visualization of this data, yet many
denoising techniques change the minima and maxima of a scalar field. For example,
the extrema can appear or disappear, spatially move, and change their value. This
can lead to wrong interpretations of the data, e.g., when the maximum temperature
over an area is falsely reported being a few degrees cooler because the denoising
method is unaware of these features. Recently, a topological denoising technique
based on a global energy optimization was proposed, which allows the topology-controlled
denoising of 2D scalar fields. While this method preserves the minima and maxima,
it is constrained by the size of the data. We extend this work to large 2D data
and medium-sized 3D data by introducing a novel domain decomposition approach.
It allows processing small patches of the domain independently while still avoiding
the introduction of new critical points. Furthermore, we propose an iterative
refinement of the solution, which decreases the optimization energy compared to
the previous approach and therefore gives smoother results that are closer to
the input. We illustrate our technique on synthetic and real-world 2D and 3D data
sets that highlight potential applications.
acknowledgement: RTRA Digiteoproject; ERC grant; SNF award; Intel Doctoral Fellowship;
MPC-VCC
author:
- first_name: David
full_name: Günther, David
last_name: Günther
- first_name: Alec
full_name: Jacobson, Alec
last_name: Jacobson
- first_name: Jan
full_name: Reininghaus, Jan
id: 4505473A-F248-11E8-B48F-1D18A9856A87
last_name: Reininghaus
- first_name: Hans
full_name: Seidel, Hans
last_name: Seidel
- first_name: Olga
full_name: Sorkine Hornung, Olga
last_name: Sorkine Hornung
- first_name: Tino
full_name: Weinkauf, Tino
last_name: Weinkauf
citation:
ama: Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf
T. Fast and memory-efficient topological denoising of 2D and 3D scalar fields.
IEEE Transactions on Visualization and Computer Graphics. 2014;20(12):2585-2594.
doi:10.1109/TVCG.2014.2346432
apa: Günther, D., Jacobson, A., Reininghaus, J., Seidel, H., Sorkine Hornung, O.,
& Weinkauf, T. (2014). Fast and memory-efficient topological denoising of
2D and 3D scalar fields. IEEE Transactions on Visualization and Computer Graphics.
IEEE. https://doi.org/10.1109/TVCG.2014.2346432
chicago: Günther, David, Alec Jacobson, Jan Reininghaus, Hans Seidel, Olga Sorkine
Hornung, and Tino Weinkauf. “Fast and Memory-Efficient Topological Denoising of
2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics.
IEEE, 2014. https://doi.org/10.1109/TVCG.2014.2346432.
ieee: D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, and
T. Weinkauf, “Fast and memory-efficient topological denoising of 2D and 3D scalar
fields,” IEEE Transactions on Visualization and Computer Graphics, vol.
20, no. 12. IEEE, pp. 2585–2594, 2014.
ista: Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf
T. 2014. Fast and memory-efficient topological denoising of 2D and 3D scalar fields.
IEEE Transactions on Visualization and Computer Graphics. 20(12), 2585–2594.
mla: Günther, David, et al. “Fast and Memory-Efficient Topological Denoising of
2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics,
vol. 20, no. 12, IEEE, 2014, pp. 2585–94, doi:10.1109/TVCG.2014.2346432.
short: D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, T.
Weinkauf, IEEE Transactions on Visualization and Computer Graphics 20 (2014) 2585–2594.
date_created: 2018-12-11T11:54:46Z
date_published: 2014-12-31T00:00:00Z
date_updated: 2021-01-12T06:54:09Z
day: '31'
department:
- _id: HeEd
doi: 10.1109/TVCG.2014.2346432
intvolume: ' 20'
issue: '12'
language:
- iso: eng
month: '12'
oa_version: None
page: 2585 - 2594
publication: IEEE Transactions on Visualization and Computer Graphics
publication_status: published
publisher: IEEE
publist_id: '5164'
quality_controlled: '1'
scopus_import: 1
status: public
title: Fast and memory-efficient topological denoising of 2D and 3D scalar fields
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 20
year: '2014'
...
---
_id: '2012'
abstract:
- lang: eng
text: The classical sphere packing problem asks for the best (infinite) arrangement
of non-overlapping unit balls which cover as much space as possible. We define
a generalized version of the problem, where we allow each ball a limited amount
of overlap with other balls. We study two natural choices of overlap measures
and obtain the optimal lattice packings in a parameterized family of lattices
which contains the FCC, BCC, and integer lattice.
acknowledgement: We thank Herbert Edelsbrunner for his valuable discussions and ideas
on the topic of this paper. The second author has been supported by the Max Planck
Center for Visual Computing and Communication
article_number: '1401.0468'
article_processing_charge: No
arxiv: 1
author:
- first_name: Mabel
full_name: Iglesias Ham, Mabel
id: 41B58C0C-F248-11E8-B48F-1D18A9856A87
last_name: Iglesias Ham
- first_name: Michael
full_name: Kerber, Michael
last_name: Kerber
orcid: 0000-0002-8030-9299
- first_name: Caroline
full_name: Uhler, Caroline
id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
last_name: Uhler
orcid: 0000-0002-7008-0216
citation:
ama: Iglesias Ham M, Kerber M, Uhler C. Sphere packing with limited overlap. arXiv.
doi:10.48550/arXiv.1401.0468
apa: Iglesias Ham, M., Kerber, M., & Uhler, C. (n.d.). Sphere packing with limited
overlap. arXiv. https://doi.org/10.48550/arXiv.1401.0468
chicago: Iglesias Ham, Mabel, Michael Kerber, and Caroline Uhler. “Sphere Packing
with Limited Overlap.” ArXiv, n.d. https://doi.org/10.48550/arXiv.1401.0468.
ieee: M. Iglesias Ham, M. Kerber, and C. Uhler, “Sphere packing with limited overlap,”
arXiv. .
ista: Iglesias Ham M, Kerber M, Uhler C. Sphere packing with limited overlap. arXiv,
1401.0468.
mla: Iglesias Ham, Mabel, et al. “Sphere Packing with Limited Overlap.” ArXiv,
1401.0468, doi:10.48550/arXiv.1401.0468.
short: M. Iglesias Ham, M. Kerber, C. Uhler, ArXiv (n.d.).
date_created: 2018-12-11T11:55:12Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2023-10-18T08:06:45Z
day: '01'
department:
- _id: HeEd
- _id: CaUh
doi: 10.48550/arXiv.1401.0468
external_id:
arxiv:
- '1401.0468'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://cccg.ca/proceedings/2014/papers/paper23.pdf
month: '01'
oa: 1
oa_version: Submitted Version
publication: arXiv
publication_status: submitted
publist_id: '5064'
status: public
title: Sphere packing with limited overlap
type: preprint
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2043'
abstract:
- lang: eng
text: Persistent homology is a popular and powerful tool for capturing topological
features of data. Advances in algorithms for computing persistent homology have
reduced the computation time drastically – as long as the algorithm does not exhaust
the available memory. Following up on a recently presented parallel method for
persistence computation on shared memory systems [1], we demonstrate that a simple
adaption of the standard reduction algorithm leads to a variant for distributed
systems. Our algorithmic design ensures that the data is distributed over the
nodes without redundancy; this permits the computation of much larger instances
than on a single machine. Moreover, we observe that the parallelism at least compensates
for the overhead caused by communication between nodes, and often even speeds
up the computation compared to sequential and even parallel shared memory algorithms.
In our experiments, we were able to compute the persistent homology of filtrations
with more than a billion (109) elements within seconds on a cluster with 32 nodes
using less than 6GB of memory per node.
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Michael
full_name: Kerber, Michael
last_name: Kerber
orcid: 0000-0002-8030-9299
- first_name: Jan
full_name: Reininghaus, Jan
id: 4505473A-F248-11E8-B48F-1D18A9856A87
last_name: Reininghaus
citation:
ama: 'Bauer U, Kerber M, Reininghaus J. Distributed computation of persistent homology.
In: McGeoch C, Meyer U, eds. Proceedings of the Workshop on Algorithm Engineering
and Experiments. Society of Industrial and Applied Mathematics; 2014:31-38.
doi:10.1137/1.9781611973198.4'
apa: 'Bauer, U., Kerber, M., & Reininghaus, J. (2014). Distributed computation
of persistent homology. In C. McGeoch & U. Meyer (Eds.), Proceedings of
the Workshop on Algorithm Engineering and Experiments (pp. 31–38). Portland,
USA: Society of Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611973198.4'
chicago: Bauer, Ulrich, Michael Kerber, and Jan Reininghaus. “Distributed Computation
of Persistent Homology.” In Proceedings of the Workshop on Algorithm Engineering
and Experiments, edited by Catherine McGeoch and Ulrich Meyer, 31–38. Society
of Industrial and Applied Mathematics, 2014. https://doi.org/10.1137/1.9781611973198.4.
ieee: U. Bauer, M. Kerber, and J. Reininghaus, “Distributed computation of persistent
homology,” in Proceedings of the Workshop on Algorithm Engineering and Experiments,
Portland, USA, 2014, pp. 31–38.
ista: 'Bauer U, Kerber M, Reininghaus J. 2014. Distributed computation of persistent
homology. Proceedings of the Workshop on Algorithm Engineering and Experiments.
ALENEX: Algorithm Engineering and Experiments, 31–38.'
mla: Bauer, Ulrich, et al. “Distributed Computation of Persistent Homology.” Proceedings
of the Workshop on Algorithm Engineering and Experiments, edited by Catherine McGeoch
and Ulrich Meyer, Society of Industrial and Applied Mathematics, 2014, pp. 31–38,
doi:10.1137/1.9781611973198.4.
short: U. Bauer, M. Kerber, J. Reininghaus, in:, C. McGeoch, U. Meyer (Eds.), Proceedings
of the Workshop on Algorithm Engineering and Experiments, Society of Industrial
and Applied Mathematics, 2014, pp. 31–38.
conference:
end_date: 2014-01-05
location: Portland, USA
name: 'ALENEX: Algorithm Engineering and Experiments'
start_date: 2014-01-05
date_created: 2018-12-11T11:55:23Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2021-01-12T06:54:56Z
day: '01'
department:
- _id: HeEd
doi: 10.1137/1.9781611973198.4
ec_funded: 1
editor:
- first_name: Catherine
full_name: ' McGeoch, Catherine'
last_name: ' McGeoch'
- first_name: Ulrich
full_name: Meyer, Ulrich
last_name: Meyer
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1310.0710
month: '01'
oa: 1
oa_version: Submitted Version
page: 31 - 38
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Proceedings of the Workshop on Algorithm Engineering and Experiments
publication_status: published
publisher: Society of Industrial and Applied Mathematics
publist_id: '5008'
quality_controlled: '1'
scopus_import: 1
status: public
title: Distributed computation of persistent homology
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2044'
abstract:
- lang: eng
text: We present a parallel algorithm for computing the persistent homology of a
filtered chain complex. Our approach differs from the commonly used reduction
algorithm by first computing persistence pairs within local chunks, then simplifying
the unpaired columns, and finally applying standard reduction on the simplified
matrix. The approach generalizes a technique by Günther et al., which uses discrete
Morse Theory to compute persistence; we derive the same worst-case complexity
bound in a more general context. The algorithm employs several practical optimization
techniques, which are of independent interest. Our sequential implementation of
the algorithm is competitive with state-of-the-art methods, and we further improve
the performance through parallel computation.
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Michael
full_name: Kerber, Michael
last_name: Kerber
orcid: 0000-0002-8030-9299
- first_name: Jan
full_name: Reininghaus, Jan
id: 4505473A-F248-11E8-B48F-1D18A9856A87
last_name: Reininghaus
citation:
ama: 'Bauer U, Kerber M, Reininghaus J. Clear and Compress: Computing Persistent
Homology in Chunks. In: Bremer P-T, Hotz I, Pascucci V, Peikert R, eds. Topological
Methods in Data Analysis and Visualization III. Mathematics and Visualization.
Springer; 2014:103-117. doi:10.1007/978-3-319-04099-8_7'
apa: 'Bauer, U., Kerber, M., & Reininghaus, J. (2014). Clear and Compress: Computing
Persistent Homology in Chunks. In P.-T. Bremer, I. Hotz, V. Pascucci, & R.
Peikert (Eds.), Topological Methods in Data Analysis and Visualization III
(pp. 103–117). Springer. https://doi.org/10.1007/978-3-319-04099-8_7'
chicago: 'Bauer, Ulrich, Michael Kerber, and Jan Reininghaus. “Clear and Compress:
Computing Persistent Homology in Chunks.” In Topological Methods in Data Analysis
and Visualization III, edited by Peer-Timo Bremer, Ingrid Hotz, Valerio Pascucci,
and Ronald Peikert, 103–17. Mathematics and Visualization. Springer, 2014. https://doi.org/10.1007/978-3-319-04099-8_7.'
ieee: 'U. Bauer, M. Kerber, and J. Reininghaus, “Clear and Compress: Computing Persistent
Homology in Chunks,” in Topological Methods in Data Analysis and Visualization
III, P.-T. Bremer, I. Hotz, V. Pascucci, and R. Peikert, Eds. Springer, 2014,
pp. 103–117.'
ista: 'Bauer U, Kerber M, Reininghaus J. 2014.Clear and Compress: Computing Persistent
Homology in Chunks. In: Topological Methods in Data Analysis and Visualization
III. , 103–117.'
mla: 'Bauer, Ulrich, et al. “Clear and Compress: Computing Persistent Homology in
Chunks.” Topological Methods in Data Analysis and Visualization III, edited
by Peer-Timo Bremer et al., Springer, 2014, pp. 103–17, doi:10.1007/978-3-319-04099-8_7.'
short: U. Bauer, M. Kerber, J. Reininghaus, in:, P.-T. Bremer, I. Hotz, V. Pascucci,
R. Peikert (Eds.), Topological Methods in Data Analysis and Visualization III,
Springer, 2014, pp. 103–117.
date_created: 2018-12-11T11:55:23Z
date_published: 2014-03-19T00:00:00Z
date_updated: 2021-01-12T06:54:56Z
day: '19'
department:
- _id: HeEd
doi: 10.1007/978-3-319-04099-8_7
ec_funded: 1
editor:
- first_name: Peer-Timo
full_name: Bremer, Peer-Timo
last_name: Bremer
- first_name: Ingrid
full_name: Hotz, Ingrid
last_name: Hotz
- first_name: Valerio
full_name: Pascucci, Valerio
last_name: Pascucci
- first_name: Ronald
full_name: Peikert, Ronald
last_name: Peikert
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1303.0477
month: '03'
oa: 1
oa_version: Submitted Version
page: 103 - 117
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Topological Methods in Data Analysis and Visualization III
publication_status: published
publisher: Springer
publist_id: '5007'
quality_controlled: '1'
scopus_import: 1
series_title: Mathematics and Visualization
status: public
title: 'Clear and Compress: Computing Persistent Homology in Chunks'
type: book_chapter
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2153'
abstract:
- lang: eng
text: 'We define a simple, explicit map sending a morphism f : M → N of pointwise
finite dimensional persistence modules to a matching between the barcodes of M
and N. Our main result is that, in a precise sense, the quality of this matching
is tightly controlled by the lengths of the longest intervals in the barcodes
of ker f and coker f . As an immediate corollary, we obtain a new proof of the
algebraic stability theorem for persistence barcodes [5, 9], a fundamental result
in the theory of persistent homology. In contrast to previous proofs, ours shows
explicitly how a δ-interleaving morphism between two persistence modules induces
a δ-matching between the barcodes of the two modules. Our main result also specializes
to a structure theorem for submodules and quotients of persistence modules. Copyright
is held by the owner/author(s).'
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Michael
full_name: Lesnick, Michael
last_name: Lesnick
citation:
ama: 'Bauer U, Lesnick M. Induced matchings of barcodes and the algebraic stability
of persistence. In: Proceedings of the Annual Symposium on Computational Geometry.
ACM; 2014:355-364. doi:10.1145/2582112.2582168'
apa: 'Bauer, U., & Lesnick, M. (2014). Induced matchings of barcodes and the
algebraic stability of persistence. In Proceedings of the Annual Symposium
on Computational Geometry (pp. 355–364). Kyoto, Japan: ACM. https://doi.org/10.1145/2582112.2582168'
chicago: Bauer, Ulrich, and Michael Lesnick. “Induced Matchings of Barcodes and
the Algebraic Stability of Persistence.” In Proceedings of the Annual Symposium
on Computational Geometry, 355–64. ACM, 2014. https://doi.org/10.1145/2582112.2582168.
ieee: U. Bauer and M. Lesnick, “Induced matchings of barcodes and the algebraic
stability of persistence,” in Proceedings of the Annual Symposium on Computational
Geometry, Kyoto, Japan, 2014, pp. 355–364.
ista: 'Bauer U, Lesnick M. 2014. Induced matchings of barcodes and the algebraic
stability of persistence. Proceedings of the Annual Symposium on Computational
Geometry. SoCG: Symposium on Computational Geometry, 355–364.'
mla: Bauer, Ulrich, and Michael Lesnick. “Induced Matchings of Barcodes and the
Algebraic Stability of Persistence.” Proceedings of the Annual Symposium on
Computational Geometry, ACM, 2014, pp. 355–64, doi:10.1145/2582112.2582168.
short: U. Bauer, M. Lesnick, in:, Proceedings of the Annual Symposium on Computational
Geometry, ACM, 2014, pp. 355–364.
conference:
end_date: 2014-06-11
location: Kyoto, Japan
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2014-06-08
date_created: 2018-12-11T11:56:01Z
date_published: 2014-06-01T00:00:00Z
date_updated: 2021-01-12T06:55:38Z
day: '01'
department:
- _id: HeEd
doi: 10.1145/2582112.2582168
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1311.3681
month: '06'
oa: 1
oa_version: Submitted Version
page: 355 - 364
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Proceedings of the Annual Symposium on Computational Geometry
publication_status: published
publisher: ACM
publist_id: '4853'
quality_controlled: '1'
scopus_import: 1
status: public
title: Induced matchings of barcodes and the algebraic stability of persistence
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2155'
abstract:
- lang: eng
text: Given a finite set of points in Rn and a positive radius, we study the Čech,
Delaunay-Čech, alpha, and wrap complexes as instances of a generalized discrete
Morse theory. We prove that the latter three complexes are simple-homotopy equivalent.
Our results have applications in topological data analysis and in the reconstruction
of shapes from sampled data. Copyright is held by the owner/author(s).
acknowledgement: This research is partially supported by ESF under the ACAT Research
Network Programme, and by the Russian Government under mega project 11.G34.31.0053
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: 'Bauer U, Edelsbrunner H. The morse theory of Čech and Delaunay filtrations.
In: Proceedings of the Annual Symposium on Computational Geometry. ACM;
2014:484-490. doi:10.1145/2582112.2582167'
apa: 'Bauer, U., & Edelsbrunner, H. (2014). The morse theory of Čech and Delaunay
filtrations. In Proceedings of the Annual Symposium on Computational Geometry
(pp. 484–490). Kyoto, Japan: ACM. https://doi.org/10.1145/2582112.2582167'
chicago: Bauer, Ulrich, and Herbert Edelsbrunner. “The Morse Theory of Čech and
Delaunay Filtrations.” In Proceedings of the Annual Symposium on Computational
Geometry, 484–90. ACM, 2014. https://doi.org/10.1145/2582112.2582167.
ieee: U. Bauer and H. Edelsbrunner, “The morse theory of Čech and Delaunay filtrations,”
in Proceedings of the Annual Symposium on Computational Geometry, Kyoto,
Japan, 2014, pp. 484–490.
ista: 'Bauer U, Edelsbrunner H. 2014. The morse theory of Čech and Delaunay filtrations.
Proceedings of the Annual Symposium on Computational Geometry. SoCG: Symposium
on Computational Geometry, 484–490.'
mla: Bauer, Ulrich, and Herbert Edelsbrunner. “The Morse Theory of Čech and Delaunay
Filtrations.” Proceedings of the Annual Symposium on Computational Geometry,
ACM, 2014, pp. 484–90, doi:10.1145/2582112.2582167.
short: U. Bauer, H. Edelsbrunner, in:, Proceedings of the Annual Symposium on Computational
Geometry, ACM, 2014, pp. 484–490.
conference:
end_date: 2014-06-11
location: Kyoto, Japan
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2014-06-08
date_created: 2018-12-11T11:56:01Z
date_published: 2014-06-01T00:00:00Z
date_updated: 2021-01-12T06:55:38Z
day: '01'
department:
- _id: HeEd
doi: 10.1145/2582112.2582167
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1312.1231
month: '06'
oa: 1
oa_version: Submitted Version
page: 484 - 490
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Proceedings of the Annual Symposium on Computational Geometry
publication_status: published
publisher: ACM
publist_id: '4851'
quality_controlled: '1'
scopus_import: 1
status: public
title: The morse theory of Čech and Delaunay filtrations
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2156'
abstract:
- lang: eng
text: We propose a metric for Reeb graphs, called the functional distortion distance.
Under this distance, the Reeb graph is stable against small changes of input functions.
At the same time, it remains discriminative at differentiating input functions.
In particular, the main result is that the functional distortion distance between
two Reeb graphs is bounded from below by the bottleneck distance between both
the ordinary and extended persistence diagrams for appropriate dimensions. As
an application of our results, we analyze a natural simplification scheme for
Reeb graphs, and show that persistent features in Reeb graph remains persistent
under simplification. Understanding the stability of important features of the
Reeb graph under simplification is an interesting problem on its own right, and
critical to the practical usage of Reeb graphs. Copyright is held by the owner/author(s).
acknowledgement: National Science Foundation under grants CCF-1319406, CCF-1116258.
author:
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Xiaoyin
full_name: Ge, Xiaoyin
last_name: Ge
- first_name: Yusu
full_name: Wang, Yusu
last_name: Wang
citation:
ama: 'Bauer U, Ge X, Wang Y. Measuring distance between Reeb graphs. In: Proceedings
of the Annual Symposium on Computational Geometry. ACM; 2014:464-473. doi:10.1145/2582112.2582169'
apa: 'Bauer, U., Ge, X., & Wang, Y. (2014). Measuring distance between Reeb
graphs. In Proceedings of the Annual Symposium on Computational Geometry
(pp. 464–473). Kyoto, Japan: ACM. https://doi.org/10.1145/2582112.2582169'
chicago: Bauer, Ulrich, Xiaoyin Ge, and Yusu Wang. “Measuring Distance between Reeb
Graphs.” In Proceedings of the Annual Symposium on Computational Geometry,
464–73. ACM, 2014. https://doi.org/10.1145/2582112.2582169.
ieee: U. Bauer, X. Ge, and Y. Wang, “Measuring distance between Reeb graphs,” in
Proceedings of the Annual Symposium on Computational Geometry, Kyoto, Japan,
2014, pp. 464–473.
ista: 'Bauer U, Ge X, Wang Y. 2014. Measuring distance between Reeb graphs. Proceedings
of the Annual Symposium on Computational Geometry. SoCG: Symposium on Computational
Geometry, 464–473.'
mla: Bauer, Ulrich, et al. “Measuring Distance between Reeb Graphs.” Proceedings
of the Annual Symposium on Computational Geometry, ACM, 2014, pp. 464–73,
doi:10.1145/2582112.2582169.
short: U. Bauer, X. Ge, Y. Wang, in:, Proceedings of the Annual Symposium on Computational
Geometry, ACM, 2014, pp. 464–473.
conference:
end_date: 2014-06-11
location: Kyoto, Japan
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2014-06-08
date_created: 2018-12-11T11:56:02Z
date_published: 2014-06-01T00:00:00Z
date_updated: 2021-01-12T06:55:39Z
day: '01'
department:
- _id: HeEd
doi: 10.1145/2582112.2582169
ec_funded: 1
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1307.2839
month: '06'
oa: 1
oa_version: Submitted Version
page: 464 - 473
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Proceedings of the Annual Symposium on Computational Geometry
publication_status: published
publisher: ACM
publist_id: '4850'
quality_controlled: '1'
scopus_import: 1
status: public
title: Measuring distance between Reeb graphs
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2177'
abstract:
- lang: eng
text: We give evidence for the difficulty of computing Betti numbers of simplicial
complexes over a finite field. We do this by reducing the rank computation for
sparse matrices with to non-zero entries to computing Betti numbers of simplicial
complexes consisting of at most a constant times to simplices. Together with the
known reduction in the other direction, this implies that the two problems have
the same computational complexity.
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Salman
full_name: Parsa, Salman
id: 4BDBD4F2-F248-11E8-B48F-1D18A9856A87
last_name: Parsa
citation:
ama: 'Edelsbrunner H, Parsa S. On the computational complexity of betti numbers
reductions from matrix rank. In: Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms. SIAM; 2014:152-160. doi:10.1137/1.9781611973402.11'
apa: 'Edelsbrunner, H., & Parsa, S. (2014). On the computational complexity
of betti numbers reductions from matrix rank. In Proceedings of the Annual
ACM-SIAM Symposium on Discrete Algorithms (pp. 152–160). Portland, USA: SIAM.
https://doi.org/10.1137/1.9781611973402.11'
chicago: Edelsbrunner, Herbert, and Salman Parsa. “On the Computational Complexity
of Betti Numbers Reductions from Matrix Rank.” In Proceedings of the Annual
ACM-SIAM Symposium on Discrete Algorithms, 152–60. SIAM, 2014. https://doi.org/10.1137/1.9781611973402.11.
ieee: H. Edelsbrunner and S. Parsa, “On the computational complexity of betti numbers
reductions from matrix rank,” in Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, Portland, USA, 2014, pp. 152–160.
ista: 'Edelsbrunner H, Parsa S. 2014. On the computational complexity of betti numbers
reductions from matrix rank. Proceedings of the Annual ACM-SIAM Symposium on Discrete
Algorithms. SODA: Symposium on Discrete Algorithms, 152–160.'
mla: Edelsbrunner, Herbert, and Salman Parsa. “On the Computational Complexity of
Betti Numbers Reductions from Matrix Rank.” Proceedings of the Annual ACM-SIAM
Symposium on Discrete Algorithms, SIAM, 2014, pp. 152–60, doi:10.1137/1.9781611973402.11.
short: H. Edelsbrunner, S. Parsa, in:, Proceedings of the Annual ACM-SIAM Symposium
on Discrete Algorithms, SIAM, 2014, pp. 152–160.
conference:
end_date: 2014-01-07
location: Portland, USA
name: 'SODA: Symposium on Discrete Algorithms'
start_date: 2014-01-05
date_created: 2018-12-11T11:56:09Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2021-01-12T06:55:48Z
day: '01'
department:
- _id: HeEd
doi: 10.1137/1.9781611973402.11
language:
- iso: eng
month: '01'
oa_version: None
page: 152 - 160
publication: Proceedings of the Annual ACM-SIAM Symposium on Discrete Algorithms
publication_status: published
publisher: SIAM
publist_id: '4805'
quality_controlled: '1'
scopus_import: 1
status: public
title: On the computational complexity of betti numbers reductions from matrix rank
type: conference
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2184'
abstract:
- lang: eng
text: 'Given topological spaces X,Y, a fundamental problem of algebraic topology
is understanding the structure of all continuous maps X→ Y. We consider a computational
version, where X,Y are given as finite simplicial complexes, and the goal is to
compute [X,Y], that is, all homotopy classes of suchmaps.We solve this problem
in the stable range, where for some d ≥ 2, we have dim X ≤ 2d-2 and Y is (d-1)-connected;
in particular, Y can be the d-dimensional sphere Sd. The algorithm combines classical
tools and ideas from homotopy theory (obstruction theory, Postnikov systems, and
simplicial sets) with algorithmic tools from effective algebraic topology (locally
effective simplicial sets and objects with effective homology). In contrast, [X,Y]
is known to be uncomputable for general X,Y, since for X = S1 it includes a well
known undecidable problem: testing triviality of the fundamental group of Y. In
follow-up papers, the algorithm is shown to run in polynomial time for d fixed,
and extended to other problems, such as the extension problem, where we are given
a subspace A ⊂ X and a map A→ Y and ask whether it extends to a map X → Y, or
computing the Z2-index-everything in the stable range. Outside the stable range,
the extension problem is undecidable.'
acknowledgement: The research by M. K. was supported by project GAUK 49209. The research
by M. K. was also supported by project 1M0545 by the Ministry of Education of the
Czech Republic and by Center of Excellence { Inst. for Theor. Comput. Sci., Prague
(project P202/12/G061 of GACR). The research by U. W. was supported by the Swiss
National Science Foundation (SNF Projects 200021-125309, 200020-138230, and PP00P2-138948).
article_number: '17 '
author:
- first_name: Martin
full_name: Čadek, Martin
last_name: Čadek
- first_name: Marek
full_name: Krcál, Marek
id: 33E21118-F248-11E8-B48F-1D18A9856A87
last_name: Krcál
- first_name: Jiří
full_name: Matoušek, Jiří
last_name: Matoušek
- first_name: Francis
full_name: Sergeraert, Francis
last_name: Sergeraert
- first_name: Lukáš
full_name: Vokřínek, Lukáš
last_name: Vokřínek
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: Čadek M, Krcál M, Matoušek J, Sergeraert F, Vokřínek L, Wagner U. Computing
all maps into a sphere. Journal of the ACM. 2014;61(3). doi:10.1145/2597629
apa: Čadek, M., Krcál, M., Matoušek, J., Sergeraert, F., Vokřínek, L., & Wagner,
U. (2014). Computing all maps into a sphere. Journal of the ACM. ACM. https://doi.org/10.1145/2597629
chicago: Čadek, Martin, Marek Krcál, Jiří Matoušek, Francis Sergeraert, Lukáš Vokřínek,
and Uli Wagner. “Computing All Maps into a Sphere.” Journal of the ACM.
ACM, 2014. https://doi.org/10.1145/2597629.
ieee: M. Čadek, M. Krcál, J. Matoušek, F. Sergeraert, L. Vokřínek, and U. Wagner,
“Computing all maps into a sphere,” Journal of the ACM, vol. 61, no. 3.
ACM, 2014.
ista: Čadek M, Krcál M, Matoušek J, Sergeraert F, Vokřínek L, Wagner U. 2014. Computing
all maps into a sphere. Journal of the ACM. 61(3), 17.
mla: Čadek, Martin, et al. “Computing All Maps into a Sphere.” Journal of the
ACM, vol. 61, no. 3, 17, ACM, 2014, doi:10.1145/2597629.
short: M. Čadek, M. Krcál, J. Matoušek, F. Sergeraert, L. Vokřínek, U. Wagner, Journal
of the ACM 61 (2014).
date_created: 2018-12-11T11:56:12Z
date_published: 2014-05-01T00:00:00Z
date_updated: 2021-01-12T06:55:50Z
day: '01'
department:
- _id: UlWa
- _id: HeEd
doi: 10.1145/2597629
intvolume: ' 61'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1105.6257
month: '05'
oa: 1
oa_version: Preprint
publication: Journal of the ACM
publication_status: published
publisher: ACM
publist_id: '4797'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computing all maps into a sphere
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 61
year: '2014'
...
---
_id: '2255'
abstract:
- lang: eng
text: Motivated by applications in biology, we present an algorithm for estimating
the length of tube-like shapes in 3-dimensional Euclidean space. In a first step,
we combine the tube formula of Weyl with integral geometric methods to obtain
an integral representation of the length, which we approximate using a variant
of the Koksma-Hlawka Theorem. In a second step, we use tools from computational
topology to decrease the dependence on small perturbations of the shape. We present
computational experiments that shed light on the stability and the convergence
rate of our algorithm.
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Florian
full_name: Pausinger, Florian
id: 2A77D7A2-F248-11E8-B48F-1D18A9856A87
last_name: Pausinger
orcid: 0000-0002-8379-3768
citation:
ama: Edelsbrunner H, Pausinger F. Stable length estimates of tube-like shapes. Journal
of Mathematical Imaging and Vision. 2014;50(1):164-177. doi:10.1007/s10851-013-0468-x
apa: Edelsbrunner, H., & Pausinger, F. (2014). Stable length estimates of tube-like
shapes. Journal of Mathematical Imaging and Vision. Springer. https://doi.org/10.1007/s10851-013-0468-x
chicago: Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates
of Tube-like Shapes.” Journal of Mathematical Imaging and Vision. Springer,
2014. https://doi.org/10.1007/s10851-013-0468-x.
ieee: H. Edelsbrunner and F. Pausinger, “Stable length estimates of tube-like shapes,”
Journal of Mathematical Imaging and Vision, vol. 50, no. 1. Springer, pp.
164–177, 2014.
ista: Edelsbrunner H, Pausinger F. 2014. Stable length estimates of tube-like shapes.
Journal of Mathematical Imaging and Vision. 50(1), 164–177.
mla: Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like
Shapes.” Journal of Mathematical Imaging and Vision, vol. 50, no. 1, Springer,
2014, pp. 164–77, doi:10.1007/s10851-013-0468-x.
short: H. Edelsbrunner, F. Pausinger, Journal of Mathematical Imaging and Vision
50 (2014) 164–177.
date_created: 2018-12-11T11:56:36Z
date_published: 2014-09-01T00:00:00Z
date_updated: 2023-09-07T11:41:25Z
day: '01'
ddc:
- '000'
department:
- _id: HeEd
doi: 10.1007/s10851-013-0468-x
ec_funded: 1
file:
- access_level: open_access
checksum: 2f93f3e63a38a85cd4404d7953913b14
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:16:18Z
date_updated: 2020-07-14T12:45:35Z
file_id: '5204'
file_name: IST-2016-549-v1+1_2014-J-06-LengthEstimate.pdf
file_size: 3941391
relation: main_file
file_date_updated: 2020-07-14T12:45:35Z
has_accepted_license: '1'
intvolume: ' 50'
issue: '1'
language:
- iso: eng
month: '09'
oa: 1
oa_version: Submitted Version
page: 164 - 177
project:
- _id: 255D761E-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '318493'
name: Topological Complex Systems
publication: Journal of Mathematical Imaging and Vision
publication_identifier:
issn:
- '09249907'
publication_status: published
publisher: Springer
publist_id: '4691'
pubrep_id: '549'
quality_controlled: '1'
related_material:
record:
- id: '2843'
relation: earlier_version
status: public
- id: '1399'
relation: dissertation_contains
status: public
scopus_import: 1
status: public
title: Stable length estimates of tube-like shapes
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 50
year: '2014'
...
---
_id: '6853'
abstract:
- lang: eng
text: This monograph presents a short course in computational geometry and topology.
In the first part the book covers Voronoi diagrams and Delaunay triangulations,
then it presents the theory of alpha complexes which play a crucial role in biology.
The central part of the book is the homology theory and their computation, including
the theory of persistence which is indispensable for applications, e.g. shape
reconstruction. The target audience comprises researchers and practitioners in
mathematics, biology, neuroscience and computer science, but the book may also
be beneficial to graduate students of these fields.
alternative_title:
- SpringerBriefs in Applied Sciences and Technology
article_processing_charge: No
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
citation:
ama: 'Edelsbrunner H. A Short Course in Computational Geometry and Topology.
1st ed. Cham: Springer Nature; 2014. doi:10.1007/978-3-319-05957-0'
apa: 'Edelsbrunner, H. (2014). A Short Course in Computational Geometry and Topology
(1st ed.). Cham: Springer Nature. https://doi.org/10.1007/978-3-319-05957-0'
chicago: 'Edelsbrunner, Herbert. A Short Course in Computational Geometry and
Topology. 1st ed. SpringerBriefs in Applied Sciences and Technology. Cham:
Springer Nature, 2014. https://doi.org/10.1007/978-3-319-05957-0.'
ieee: 'H. Edelsbrunner, A Short Course in Computational Geometry and Topology,
1st ed. Cham: Springer Nature, 2014.'
ista: 'Edelsbrunner H. 2014. A Short Course in Computational Geometry and Topology
1st ed., Cham: Springer Nature, IX, 110p.'
mla: Edelsbrunner, Herbert. A Short Course in Computational Geometry and Topology.
1st ed., Springer Nature, 2014, doi:10.1007/978-3-319-05957-0.
short: H. Edelsbrunner, A Short Course in Computational Geometry and Topology, 1st
ed., Springer Nature, Cham, 2014.
date_created: 2019-09-06T09:22:33Z
date_published: 2014-01-01T00:00:00Z
date_updated: 2022-03-04T07:47:54Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/978-3-319-05957-0
edition: '1'
language:
- iso: eng
month: '01'
oa_version: None
page: IX, 110
place: Cham
publication_identifier:
eisbn:
- 9-783-3190-5957-0
eissn:
- 2191-5318
isbn:
- 9-783-3190-5956-3
issn:
- 2191-530X
publication_status: published
publisher: Springer Nature
quality_controlled: '1'
related_material:
link:
- description: available as eBook via catalog IST BookList
relation: other
url: https://koha.app.ist.ac.at/cgi-bin/koha/opac-detail.pl?biblionumber=356106
- description: available via catalog IST BookList
relation: other
url: https://koha.app.ist.ac.at/cgi-bin/koha/opac-detail.pl?biblionumber=373842
scopus_import: '1'
series_title: SpringerBriefs in Applied Sciences and Technology
status: public
title: A Short Course in Computational Geometry and Topology
type: book
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2014'
...
---
_id: '2807'
abstract:
- lang: eng
text: 'We consider several basic problems of algebraic topology, with connections
to combinatorial and geometric questions, from the point of view of computational
complexity. The extension problem asks, given topological spaces X; Y , a subspace
A ⊆ X, and a (continuous) map f : A → Y , whether f can be extended to a map X
→ Y . For computational purposes, we assume that X and Y are represented as finite
simplicial complexes, A is a subcomplex of X, and f is given as a simplicial map.
In this generality the problem is undecidable, as follows from Novikov''s result
from the 1950s on uncomputability of the fundamental group π1(Y ). We thus study
the problem under the assumption that, for some k ≥ 2, Y is (k - 1)-connected;
informally, this means that Y has \no holes up to dimension k-1" (a basic
example of such a Y is the sphere Sk). We prove that, on the one hand, this problem
is still undecidable for dimX = 2k. On the other hand, for every fixed k ≥ 2,
we obtain an algorithm that solves the extension problem in polynomial time assuming
Y (k - 1)-connected and dimX ≤ 2k - 1. For dimX ≤ 2k - 2, the algorithm also provides
a classification of all extensions up to homotopy (continuous deformation). This
relies on results of our SODA 2012 paper, and the main new ingredient is a machinery
of objects with polynomial-time homology, which is a polynomial-time analog of
objects with effective homology developed earlier by Sergeraert et al. We also
consider the computation of the higher homotopy groups πk(Y ), k ≥ 2, for a 1-connected
Y . Their computability was established by Brown in 1957; we show that πk(Y )
can be computed in polynomial time for every fixed k ≥ 2. On the other hand, Anick
proved in 1989 that computing πk(Y ) is #P-hard if k is a part of input, where
Y is a cell complex with certain rather compact encoding. We strengthen his result
to #P-hardness for Y given as a simplicial complex. '
author:
- first_name: Martin
full_name: Čadek, Martin
last_name: Čadek
- first_name: Marek
full_name: Krcál, Marek
id: 33E21118-F248-11E8-B48F-1D18A9856A87
last_name: Krcál
- first_name: Jiří
full_name: Matoušek, Jiří
last_name: Matoušek
- first_name: Lukáš
full_name: Vokřínek, Lukáš
last_name: Vokřínek
- first_name: Uli
full_name: Wagner, Uli
id: 36690CA2-F248-11E8-B48F-1D18A9856A87
last_name: Wagner
orcid: 0000-0002-1494-0568
citation:
ama: 'Čadek M, Krcál M, Matoušek J, Vokřínek L, Wagner U. Extending continuous maps:
Polynomiality and undecidability. In: 45th Annual ACM Symposium on Theory of
Computing. ACM; 2013:595-604. doi:10.1145/2488608.2488683'
apa: 'Čadek, M., Krcál, M., Matoušek, J., Vokřínek, L., & Wagner, U. (2013).
Extending continuous maps: Polynomiality and undecidability. In 45th Annual
ACM Symposium on theory of computing (pp. 595–604). Palo Alto, CA, United
States: ACM. https://doi.org/10.1145/2488608.2488683'
chicago: 'Čadek, Martin, Marek Krcál, Jiří Matoušek, Lukáš Vokřínek, and Uli Wagner.
“Extending Continuous Maps: Polynomiality and Undecidability.” In 45th Annual
ACM Symposium on Theory of Computing, 595–604. ACM, 2013. https://doi.org/10.1145/2488608.2488683.'
ieee: 'M. Čadek, M. Krcál, J. Matoušek, L. Vokřínek, and U. Wagner, “Extending continuous
maps: Polynomiality and undecidability,” in 45th Annual ACM Symposium on theory
of computing, Palo Alto, CA, United States, 2013, pp. 595–604.'
ista: 'Čadek M, Krcál M, Matoušek J, Vokřínek L, Wagner U. 2013. Extending continuous
maps: Polynomiality and undecidability. 45th Annual ACM Symposium on theory of
computing. STOC: Symposium on the Theory of Computing, 595–604.'
mla: 'Čadek, Martin, et al. “Extending Continuous Maps: Polynomiality and Undecidability.”
45th Annual ACM Symposium on Theory of Computing, ACM, 2013, pp. 595–604,
doi:10.1145/2488608.2488683.'
short: M. Čadek, M. Krcál, J. Matoušek, L. Vokřínek, U. Wagner, in:, 45th Annual
ACM Symposium on Theory of Computing, ACM, 2013, pp. 595–604.
conference:
end_date: 2013-06-04
location: Palo Alto, CA, United States
name: 'STOC: Symposium on the Theory of Computing'
start_date: 2013-06-01
date_created: 2018-12-11T11:59:42Z
date_published: 2013-06-01T00:00:00Z
date_updated: 2021-01-12T06:59:51Z
day: '01'
ddc:
- '510'
department:
- _id: UlWa
- _id: HeEd
doi: 10.1145/2488608.2488683
file:
- access_level: open_access
checksum: 06c2ce5c1135fbc1f71ca15eeb242dcf
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:14:29Z
date_updated: 2020-07-14T12:45:48Z
file_id: '5081'
file_name: IST-2016-533-v1+1_Extending_continuous_maps_polynomiality_and_undecidability.pdf
file_size: 447945
relation: main_file
file_date_updated: 2020-07-14T12:45:48Z
has_accepted_license: '1'
language:
- iso: eng
month: '06'
oa: 1
oa_version: Submitted Version
page: 595 - 604
publication: 45th Annual ACM Symposium on theory of computing
publication_status: published
publisher: ACM
publist_id: '4078'
pubrep_id: '533'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'Extending continuous maps: Polynomiality and undecidability'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2013'
...
---
_id: '2812'
abstract:
- lang: eng
text: 'We consider the problem of deciding whether the persistent homology group
of a simplicial pair (K, L) can be realized as the homology H* (X) of some complex
X with L ⊂ X ⊂ K. We show that this problem is NP-complete even if K is embedded
in ℝ3. As a consequence, we show that it is NP-hard to simplify level and sublevel
sets of scalar functions on S3 within a given tolerance constraint. This problem
has relevance to the visualization of medical images by isosurfaces. We also show
an implication to the theory of well groups of scalar functions: not every well
group can be realized by some level set, and deciding whether a well group can
be realized is NP-hard.'
acknowledgement: Some of the authors were partially supported by the GIGA ANR grant
(contract ANR-09-BLAN-0331-01) and the European project CG-Learning (contract 255827).
author:
- first_name: Dominique
full_name: Attali, Dominique
last_name: Attali
- first_name: Ulrich
full_name: Bauer, Ulrich
id: 2ADD483A-F248-11E8-B48F-1D18A9856A87
last_name: Bauer
orcid: 0000-0002-9683-0724
- first_name: Olivier
full_name: Devillers, Olivier
last_name: Devillers
- first_name: Marc
full_name: Glisse, Marc
last_name: Glisse
- first_name: André
full_name: Lieutier, André
last_name: Lieutier
citation:
ama: 'Attali D, Bauer U, Devillers O, Glisse M, Lieutier A. Homological reconstruction
and simplification in R3. In: Proceedings of the 29th Annual Symposium on Computational
Geometry. ACM; 2013:117-125. doi:10.1145/2462356.2462373'
apa: 'Attali, D., Bauer, U., Devillers, O., Glisse, M., & Lieutier, A. (2013).
Homological reconstruction and simplification in R3. In Proceedings of the
29th annual symposium on Computational Geometry (pp. 117–125). Rio de Janeiro,
Brazil: ACM. https://doi.org/10.1145/2462356.2462373'
chicago: Attali, Dominique, Ulrich Bauer, Olivier Devillers, Marc Glisse, and André
Lieutier. “Homological Reconstruction and Simplification in R3.” In Proceedings
of the 29th Annual Symposium on Computational Geometry, 117–25. ACM, 2013.
https://doi.org/10.1145/2462356.2462373.
ieee: D. Attali, U. Bauer, O. Devillers, M. Glisse, and A. Lieutier, “Homological
reconstruction and simplification in R3,” in Proceedings of the 29th annual
symposium on Computational Geometry, Rio de Janeiro, Brazil, 2013, pp. 117–125.
ista: 'Attali D, Bauer U, Devillers O, Glisse M, Lieutier A. 2013. Homological reconstruction
and simplification in R3. Proceedings of the 29th annual symposium on Computational
Geometry. SoCG: Symposium on Computational Geometry, 117–125.'
mla: Attali, Dominique, et al. “Homological Reconstruction and Simplification in
R3.” Proceedings of the 29th Annual Symposium on Computational Geometry,
ACM, 2013, pp. 117–25, doi:10.1145/2462356.2462373.
short: D. Attali, U. Bauer, O. Devillers, M. Glisse, A. Lieutier, in:, Proceedings
of the 29th Annual Symposium on Computational Geometry, ACM, 2013, pp. 117–125.
conference:
end_date: 2013-06-20
location: Rio de Janeiro, Brazil
name: 'SoCG: Symposium on Computational Geometry'
start_date: 2013-06-17
date_created: 2018-12-11T11:59:44Z
date_published: 2013-06-01T00:00:00Z
date_updated: 2023-02-23T10:15:15Z
day: '01'
department:
- _id: HeEd
doi: 10.1145/2462356.2462373
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://hal.archives-ouvertes.fr/hal-00833791/
month: '06'
oa: 1
oa_version: Submitted Version
page: 117 - 125
publication: Proceedings of the 29th annual symposium on Computational Geometry
publication_status: published
publisher: ACM
publist_id: '4072'
quality_controlled: '1'
related_material:
record:
- id: '1805'
relation: later_version
status: public
scopus_import: 1
status: public
title: Homological reconstruction and simplification in R3
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2013'
...
---
_id: '2815'
abstract:
- lang: eng
text: The fact that a sum of isotropic Gaussian kernels can have more modes than
kernels is surprising. Extra (ghost) modes do not exist in ℝ1 and are generally
not well studied in higher dimensions. We study a configuration of n+1 Gaussian
kernels for which there are exactly n+2 modes. We show that all modes lie on a
finite set of lines, which we call axes, and study the restriction of the Gaussian
mixture to these axes in order to discover that there are an exponential number
of critical points in this configuration. Although the existence of ghost modes
remained unknown due to the difficulty of finding examples in ℝ2, we show that
the resilience of ghost modes grows like the square root of the dimension. In
addition, we exhibit finite configurations of isotropic Gaussian kernels with
superlinearly many modes.
acknowledgement: This research is partially supported by the National Science Foundation
(NSF) under Grant DBI-0820624, by the European Science Foundation under the Research
Networking Programme, and the Russian Government Project 11.G34.31.0053.
article_processing_charge: No
article_type: original
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Brittany Terese
full_name: Fasy, Brittany Terese
id: F65D502E-E68D-11E9-9252-C644099818F6
last_name: Fasy
- first_name: Günter
full_name: Rote, Günter
last_name: Rote
citation:
ama: 'Edelsbrunner H, Fasy BT, Rote G. Add isotropic Gaussian kernels at own risk:
More and more resilient modes in higher dimensions. Discrete & Computational
Geometry. 2013;49(4):797-822. doi:10.1007/s00454-013-9517-x'
apa: 'Edelsbrunner, H., Fasy, B. T., & Rote, G. (2013). Add isotropic Gaussian
kernels at own risk: More and more resilient modes in higher dimensions. Discrete
& Computational Geometry. Springer. https://doi.org/10.1007/s00454-013-9517-x'
chicago: 'Edelsbrunner, Herbert, Brittany Terese Fasy, and Günter Rote. “Add Isotropic
Gaussian Kernels at Own Risk: More and More Resilient Modes in Higher Dimensions.”
Discrete & Computational Geometry. Springer, 2013. https://doi.org/10.1007/s00454-013-9517-x.'
ieee: 'H. Edelsbrunner, B. T. Fasy, and G. Rote, “Add isotropic Gaussian kernels
at own risk: More and more resilient modes in higher dimensions,” Discrete
& Computational Geometry, vol. 49, no. 4. Springer, pp. 797–822, 2013.'
ista: 'Edelsbrunner H, Fasy BT, Rote G. 2013. Add isotropic Gaussian kernels at
own risk: More and more resilient modes in higher dimensions. Discrete & Computational
Geometry. 49(4), 797–822.'
mla: 'Edelsbrunner, Herbert, et al. “Add Isotropic Gaussian Kernels at Own Risk:
More and More Resilient Modes in Higher Dimensions.” Discrete & Computational
Geometry, vol. 49, no. 4, Springer, 2013, pp. 797–822, doi:10.1007/s00454-013-9517-x.'
short: H. Edelsbrunner, B.T. Fasy, G. Rote, Discrete & Computational Geometry
49 (2013) 797–822.
date_created: 2018-12-11T11:59:44Z
date_published: 2013-06-01T00:00:00Z
date_updated: 2023-02-23T11:13:49Z
day: '01'
department:
- _id: HeEd
doi: 10.1007/s00454-013-9517-x
intvolume: ' 49'
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1007/s00454-013-9517-x
month: '06'
oa: 1
oa_version: Published Version
page: 797 - 822
publication: Discrete & Computational Geometry
publication_identifier:
eissn:
- 1432-0444
issn:
- 0179-5376
publication_status: published
publisher: Springer
publist_id: '3991'
quality_controlled: '1'
related_material:
record:
- id: '3134'
relation: earlier_version
status: public
scopus_import: '1'
status: public
title: 'Add isotropic Gaussian kernels at own risk: More and more resilient modes
in higher dimensions'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 49
year: '2013'
...
---
_id: '2822'
abstract:
- lang: eng
text: Identification of genes that control root system architecture in crop plants
requires innovations that enable high-throughput and accurate measurements of
root system architecture through time. We demonstrate the ability of a semiautomated
3D in vivo imaging and digital phenotyping pipeline to interrogate the quantitative
genetic basis of root system growth in a rice biparental mapping population, Bala
x Azucena. We phenotyped >1,400 3D root models and >57,000 2D images for
a suite of 25 traits that quantified the distribution, shape, extent of exploration,
and the intrinsic size of root networks at days 12, 14, and 16 of growth in a
gellan gum medium. From these data we identified 89 quantitative trait loci, some
of which correspond to those found previously in soil-grown plants, and provide
evidence for genetic tradeoffs in root growth allocations, such as between the
extent and thoroughness of exploration. We also developed a multivariate method
for generating and mapping central root architecture phenotypes and used it to
identify five major quantitative trait loci (r2 = 24-37%), two of which were not
identified by our univariate analysis. Our imaging and analytical platform provides
a means to identify genes with high potential for improving root traits and agronomic
qualities of crops.
author:
- first_name: Christopher
full_name: Topp, Christopher
last_name: Topp
- first_name: Anjali
full_name: Iyer Pascuzzi, Anjali
last_name: Iyer Pascuzzi
- first_name: Jill
full_name: Anderson, Jill
last_name: Anderson
- first_name: Cheng
full_name: Lee, Cheng
last_name: Lee
- first_name: Paul
full_name: Zurek, Paul
last_name: Zurek
- first_name: Olga
full_name: Symonova, Olga
id: 3C0C7BC6-F248-11E8-B48F-1D18A9856A87
last_name: Symonova
- first_name: Ying
full_name: Zheng, Ying
last_name: Zheng
- first_name: Alexander
full_name: Bucksch, Alexander
last_name: Bucksch
- first_name: Yuriy
full_name: Mileyko, Yuriy
last_name: Mileyko
- first_name: Taras
full_name: Galkovskyi, Taras
last_name: Galkovskyi
- first_name: Brad
full_name: Moore, Brad
last_name: Moore
- first_name: John
full_name: Harer, John
last_name: Harer
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Thomas
full_name: Mitchell Olds, Thomas
last_name: Mitchell Olds
- first_name: Joshua
full_name: Weitz, Joshua
last_name: Weitz
- first_name: Philip
full_name: Benfey, Philip
last_name: Benfey
citation:
ama: Topp C, Iyer Pascuzzi A, Anderson J, et al. 3D phenotyping and quantitative
trait locus mapping identify core regions of the rice genome controlling root
architecture. PNAS. 2013;110(18):E1695-E1704. doi:10.1073/pnas.1304354110
apa: Topp, C., Iyer Pascuzzi, A., Anderson, J., Lee, C., Zurek, P., Symonova, O.,
… Benfey, P. (2013). 3D phenotyping and quantitative trait locus mapping identify
core regions of the rice genome controlling root architecture. PNAS. National
Academy of Sciences. https://doi.org/10.1073/pnas.1304354110
chicago: Topp, Christopher, Anjali Iyer Pascuzzi, Jill Anderson, Cheng Lee, Paul
Zurek, Olga Symonova, Ying Zheng, et al. “3D Phenotyping and Quantitative Trait
Locus Mapping Identify Core Regions of the Rice Genome Controlling Root Architecture.”
PNAS. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1304354110.
ieee: C. Topp et al., “3D phenotyping and quantitative trait locus mapping
identify core regions of the rice genome controlling root architecture,” PNAS,
vol. 110, no. 18. National Academy of Sciences, pp. E1695–E1704, 2013.
ista: Topp C, Iyer Pascuzzi A, Anderson J, Lee C, Zurek P, Symonova O, Zheng Y,
Bucksch A, Mileyko Y, Galkovskyi T, Moore B, Harer J, Edelsbrunner H, Mitchell
Olds T, Weitz J, Benfey P. 2013. 3D phenotyping and quantitative trait locus mapping
identify core regions of the rice genome controlling root architecture. PNAS.
110(18), E1695–E1704.
mla: Topp, Christopher, et al. “3D Phenotyping and Quantitative Trait Locus Mapping
Identify Core Regions of the Rice Genome Controlling Root Architecture.” PNAS,
vol. 110, no. 18, National Academy of Sciences, 2013, pp. E1695–704, doi:10.1073/pnas.1304354110.
short: C. Topp, A. Iyer Pascuzzi, J. Anderson, C. Lee, P. Zurek, O. Symonova, Y.
Zheng, A. Bucksch, Y. Mileyko, T. Galkovskyi, B. Moore, J. Harer, H. Edelsbrunner,
T. Mitchell Olds, J. Weitz, P. Benfey, PNAS 110 (2013) E1695–E1704.
date_created: 2018-12-11T11:59:47Z
date_published: 2013-04-30T00:00:00Z
date_updated: 2021-01-12T06:59:58Z
day: '30'
department:
- _id: MaJö
- _id: HeEd
doi: 10.1073/pnas.1304354110
external_id:
pmid:
- '25673779'
intvolume: ' 110'
issue: '18'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4378147/
month: '04'
oa: 1
oa_version: Submitted Version
page: E1695 - E1704
pmid: 1
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '3979'
quality_controlled: '1'
scopus_import: 1
status: public
title: 3D phenotyping and quantitative trait locus mapping identify core regions of
the rice genome controlling root architecture
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 110
year: '2013'
...
---
_id: '2843'
abstract:
- lang: eng
text: 'Mathematical objects can be measured unambiguously, but not so objects from
our physical world. Even the total length of tubelike shapes has its difficulties.
We introduce a combination of geometric, probabilistic, and topological methods
to design a stable length estimate for tube-like shapes; that is: one that is
insensitive to small shape changes.'
alternative_title:
- LNCS
author:
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Florian
full_name: Pausinger, Florian
id: 2A77D7A2-F248-11E8-B48F-1D18A9856A87
last_name: Pausinger
orcid: 0000-0002-8379-3768
citation:
ama: 'Edelsbrunner H, Pausinger F. Stable length estimates of tube-like shapes.
In: 17th IAPR International Conference on Discrete Geometry for Computer Imagery.
Vol 7749. Springer; 2013:XV-XIX. doi:10.1007/978-3-642-37067-0'
apa: 'Edelsbrunner, H., & Pausinger, F. (2013). Stable length estimates of tube-like
shapes. In 17th IAPR International Conference on Discrete Geometry for Computer
Imagery (Vol. 7749, pp. XV–XIX). Seville, Spain: Springer. https://doi.org/10.1007/978-3-642-37067-0'
chicago: Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates
of Tube-like Shapes.” In 17th IAPR International Conference on Discrete Geometry
for Computer Imagery, 7749:XV–XIX. Springer, 2013. https://doi.org/10.1007/978-3-642-37067-0.
ieee: H. Edelsbrunner and F. Pausinger, “Stable length estimates of tube-like shapes,”
in 17th IAPR International Conference on Discrete Geometry for Computer Imagery,
Seville, Spain, 2013, vol. 7749, pp. XV–XIX.
ista: 'Edelsbrunner H, Pausinger F. 2013. Stable length estimates of tube-like shapes.
17th IAPR International Conference on Discrete Geometry for Computer Imagery.
DGCI: Discrete Geometry for Computer Imagery, LNCS, vol. 7749, XV–XIX.'
mla: Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like
Shapes.” 17th IAPR International Conference on Discrete Geometry for Computer
Imagery, vol. 7749, Springer, 2013, pp. XV–XIX, doi:10.1007/978-3-642-37067-0.
short: H. Edelsbrunner, F. Pausinger, in:, 17th IAPR International Conference on
Discrete Geometry for Computer Imagery, Springer, 2013, pp. XV–XIX.
conference:
end_date: 2013-03-22
location: Seville, Spain
name: 'DGCI: Discrete Geometry for Computer Imagery'
start_date: 2013-03-20
date_created: 2018-12-11T11:59:53Z
date_published: 2013-02-21T00:00:00Z
date_updated: 2023-02-23T10:35:00Z
day: '21'
department:
- _id: HeEd
doi: 10.1007/978-3-642-37067-0
intvolume: ' 7749'
language:
- iso: eng
month: '02'
oa_version: None
page: XV - XIX
publication: 17th IAPR International Conference on Discrete Geometry for Computer
Imagery
publication_status: published
publisher: Springer
publist_id: '3952'
quality_controlled: '1'
related_material:
record:
- id: '2255'
relation: later_version
status: public
scopus_import: 1
status: public
title: Stable length estimates of tube-like shapes
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 7749
year: '2013'
...
---
_id: '2859'
abstract:
- lang: eng
text: Given a continuous function f:X-R on a topological space, we consider the
preimages of intervals and their homology groups and show how to read the ranks
of these groups from the extended persistence diagram of f. In addition, we quantify
the robustness of the homology classes under perturbations of f using well groups,
and we show how to read the ranks of these groups from the same extended persistence
diagram. The special case X=R3 has ramifications in the fields of medical imaging
and scientific visualization.
arxiv: 1
author:
- first_name: Paul
full_name: Bendich, Paul
id: 43F6EC54-F248-11E8-B48F-1D18A9856A87
last_name: Bendich
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Dmitriy
full_name: Morozov, Dmitriy
last_name: Morozov
- first_name: Amit
full_name: Patel, Amit
id: 34A254A0-F248-11E8-B48F-1D18A9856A87
last_name: Patel
citation:
ama: Bendich P, Edelsbrunner H, Morozov D, Patel A. Homology and robustness of level
and interlevel sets. Homology, Homotopy and Applications. 2013;15(1):51-72.
doi:10.4310/HHA.2013.v15.n1.a3
apa: Bendich, P., Edelsbrunner, H., Morozov, D., & Patel, A. (2013). Homology
and robustness of level and interlevel sets. Homology, Homotopy and Applications.
International Press. https://doi.org/10.4310/HHA.2013.v15.n1.a3
chicago: Bendich, Paul, Herbert Edelsbrunner, Dmitriy Morozov, and Amit Patel. “Homology
and Robustness of Level and Interlevel Sets.” Homology, Homotopy and Applications.
International Press, 2013. https://doi.org/10.4310/HHA.2013.v15.n1.a3.
ieee: P. Bendich, H. Edelsbrunner, D. Morozov, and A. Patel, “Homology and robustness
of level and interlevel sets,” Homology, Homotopy and Applications, vol.
15, no. 1. International Press, pp. 51–72, 2013.
ista: Bendich P, Edelsbrunner H, Morozov D, Patel A. 2013. Homology and robustness
of level and interlevel sets. Homology, Homotopy and Applications. 15(1), 51–72.
mla: Bendich, Paul, et al. “Homology and Robustness of Level and Interlevel Sets.”
Homology, Homotopy and Applications, vol. 15, no. 1, International Press,
2013, pp. 51–72, doi:10.4310/HHA.2013.v15.n1.a3.
short: P. Bendich, H. Edelsbrunner, D. Morozov, A. Patel, Homology, Homotopy and
Applications 15 (2013) 51–72.
date_created: 2018-12-11T11:59:58Z
date_published: 2013-05-01T00:00:00Z
date_updated: 2021-01-12T07:00:18Z
day: '01'
department:
- _id: HeEd
doi: 10.4310/HHA.2013.v15.n1.a3
external_id:
arxiv:
- '1102.3389'
intvolume: ' 15'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1102.3389v1
month: '05'
oa: 1
oa_version: Preprint
page: 51 - 72
publication: Homology, Homotopy and Applications
publication_status: published
publisher: International Press
publist_id: '3930'
quality_controlled: '1'
scopus_import: 1
status: public
title: Homology and robustness of level and interlevel sets
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 15
year: '2013'
...
---
_id: '2887'
abstract:
- lang: eng
text: 'Root system growth and development is highly plastic and is influenced by
the surrounding environment. Roots frequently grow in heterogeneous environments
that include interactions from neighboring plants and physical impediments in
the rhizosphere. To investigate how planting density and physical objects affect
root system growth, we grew rice in a transparent gel system in close proximity
with another plant or a physical object. Root systems were imaged and reconstructed
in three dimensions. Root-root interaction strength was calculated using quantitative
metrics that characterize the extent towhich the reconstructed root systems overlap
each other. Surprisingly, we found the overlap of root systems of the same genotype
was significantly higher than that of root systems of different genotypes. Root
systems of the same genotype tended to grow toward each other but those of different
genotypes appeared to avoid each other. Shoot separation experiments excluded
the possibility of aerial interactions, suggesting root communication. Staggered
plantings indicated that interactions likely occur at root tips in close proximity.
Recognition of obstacles also occurred through root tips, but through physical
contact in a size-dependent manner. These results indicate that root systems use
two different forms of communication to recognize objects and alter root architecture:
root-root recognition, possibly mediated through root exudates, and root-object
recognition mediated by physical contact at the root tips. This finding suggests
that root tips act as local sensors that integrate rhizosphere information into
global root architectural changes.'
article_processing_charge: No
article_type: original
author:
- first_name: Suqin
full_name: Fang, Suqin
last_name: Fang
- first_name: Randy
full_name: Clark, Randy
last_name: Clark
- first_name: Ying
full_name: Zheng, Ying
last_name: Zheng
- first_name: Anjali
full_name: Iyer Pascuzzi, Anjali
last_name: Iyer Pascuzzi
- first_name: Joshua
full_name: Weitz, Joshua
last_name: Weitz
- first_name: Leon
full_name: Kochian, Leon
last_name: Kochian
- first_name: Herbert
full_name: Edelsbrunner, Herbert
id: 3FB178DA-F248-11E8-B48F-1D18A9856A87
last_name: Edelsbrunner
orcid: 0000-0002-9823-6833
- first_name: Hong
full_name: Liao, Hong
last_name: Liao
- first_name: Philip
full_name: Benfey, Philip
last_name: Benfey
citation:
ama: Fang S, Clark R, Zheng Y, et al. Genotypic recognition and spatial responses
by rice roots. PNAS. 2013;110(7):2670-2675. doi:10.1073/pnas.1222821110
apa: Fang, S., Clark, R., Zheng, Y., Iyer Pascuzzi, A., Weitz, J., Kochian, L.,
… Benfey, P. (2013). Genotypic recognition and spatial responses by rice roots.
PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1222821110
chicago: Fang, Suqin, Randy Clark, Ying Zheng, Anjali Iyer Pascuzzi, Joshua Weitz,
Leon Kochian, Herbert Edelsbrunner, Hong Liao, and Philip Benfey. “Genotypic Recognition
and Spatial Responses by Rice Roots.” PNAS. National Academy of Sciences,
2013. https://doi.org/10.1073/pnas.1222821110.
ieee: S. Fang et al., “Genotypic recognition and spatial responses by rice
roots,” PNAS, vol. 110, no. 7. National Academy of Sciences, pp. 2670–2675,
2013.
ista: Fang S, Clark R, Zheng Y, Iyer Pascuzzi A, Weitz J, Kochian L, Edelsbrunner
H, Liao H, Benfey P. 2013. Genotypic recognition and spatial responses by rice
roots. PNAS. 110(7), 2670–2675.
mla: Fang, Suqin, et al. “Genotypic Recognition and Spatial Responses by Rice Roots.”
PNAS, vol. 110, no. 7, National Academy of Sciences, 2013, pp. 2670–75,
doi:10.1073/pnas.1222821110.
short: S. Fang, R. Clark, Y. Zheng, A. Iyer Pascuzzi, J. Weitz, L. Kochian, H. Edelsbrunner,
H. Liao, P. Benfey, PNAS 110 (2013) 2670–2675.
date_created: 2018-12-11T12:00:09Z
date_published: 2013-02-12T00:00:00Z
date_updated: 2021-01-12T07:00:29Z
day: '12'
department:
- _id: HeEd
doi: 10.1073/pnas.1222821110
external_id:
pmid:
- '23362379'
intvolume: ' 110'
issue: '7'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3574932/
month: '02'
oa: 1
oa_version: Published Version
page: 2670 - 2675
pmid: 1
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '3872'
quality_controlled: '1'
scopus_import: 1
status: public
title: Genotypic recognition and spatial responses by rice roots
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 110
year: '2013'
...
---
_id: '2901'
abstract:
- lang: eng
text: ' We introduce the M-modes problem for graphical models: predicting the M
label configurations of highest probability that are at the same time local maxima
of the probability landscape. M-modes have multiple possible applications: because
they are intrinsically diverse, they provide a principled alternative to non-maximum
suppression techniques for structured prediction, they can act as codebook vectors
for quantizing the configuration space, or they can form component centers for
mixture model approximation. We present two algorithms for solving the M-modes
problem. The first algorithm solves the problem in polynomial time when the underlying
graphical model is a simple chain. The second algorithm solves the problem for
junction chains. In synthetic and real dataset, we demonstrate how M-modes can
improve the performance of prediction. We also use the generated modes as a tool
to understand the topography of the probability distribution of configurations,
for example with relation to the training set size and amount of noise in the
data. '
alternative_title:
- ' JMLR: W&CP'
author:
- first_name: Chao
full_name: Chen, Chao
id: 3E92416E-F248-11E8-B48F-1D18A9856A87
last_name: Chen
- first_name: Vladimir
full_name: Kolmogorov, Vladimir
id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87
last_name: Kolmogorov
- first_name: Zhu
full_name: Yan, Zhu
last_name: Yan
- first_name: Dimitris
full_name: Metaxas, Dimitris
last_name: Metaxas
- first_name: Christoph
full_name: Lampert, Christoph
id: 40C20FD2-F248-11E8-B48F-1D18A9856A87
last_name: Lampert
orcid: 0000-0001-8622-7887
citation:
ama: 'Chen C, Kolmogorov V, Yan Z, Metaxas D, Lampert C. Computing the M most probable
modes of a graphical model. In: Vol 31. JMLR; 2013:161-169.'
apa: 'Chen, C., Kolmogorov, V., Yan, Z., Metaxas, D., & Lampert, C. (2013).
Computing the M most probable modes of a graphical model (Vol. 31, pp. 161–169).
Presented at the AISTATS: Conference on Uncertainty in Artificial Intelligence,
Scottsdale, AZ, United States: JMLR.'
chicago: Chen, Chao, Vladimir Kolmogorov, Zhu Yan, Dimitris Metaxas, and Christoph
Lampert. “Computing the M Most Probable Modes of a Graphical Model,” 31:161–69.
JMLR, 2013.
ieee: 'C. Chen, V. Kolmogorov, Z. Yan, D. Metaxas, and C. Lampert, “Computing the
M most probable modes of a graphical model,” presented at the AISTATS: Conference
on Uncertainty in Artificial Intelligence, Scottsdale, AZ, United States, 2013,
vol. 31, pp. 161–169.'
ista: 'Chen C, Kolmogorov V, Yan Z, Metaxas D, Lampert C. 2013. Computing the M
most probable modes of a graphical model. AISTATS: Conference on Uncertainty
in Artificial Intelligence, JMLR: W&CP, vol. 31, 161–169.'
mla: Chen, Chao, et al. Computing the M Most Probable Modes of a Graphical Model.
Vol. 31, JMLR, 2013, pp. 161–69.
short: C. Chen, V. Kolmogorov, Z. Yan, D. Metaxas, C. Lampert, in:, JMLR, 2013,
pp. 161–169.
conference:
end_date: 2013-05-01
location: Scottsdale, AZ, United States
name: ' AISTATS: Conference on Uncertainty in Artificial Intelligence'
start_date: 2013-04-29
date_created: 2018-12-11T12:00:14Z
date_published: 2013-01-01T00:00:00Z
date_updated: 2021-01-12T07:00:35Z
day: '01'
department:
- _id: HeEd
- _id: VlKo
- _id: ChLa
intvolume: ' 31'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://jmlr.org/proceedings/papers/v31/chen13a.html
month: '01'
oa: 1
oa_version: None
page: 161 - 169
publication_status: published
publisher: JMLR
publist_id: '3846'
quality_controlled: '1'
scopus_import: 1
status: public
title: Computing the M most probable modes of a graphical model
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 31
year: '2013'
...