Journal of applied and computational topology最新文献

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Constructible sheaves and functions up to infinity 可构造的轴和函数,直到无穷大
Journal of applied and computational topology Pub Date : 2020-12-17 DOI: 10.1007/s41468-023-00121-0
P. Schapira
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引用次数: 8
On the persistent homology of almost surely C0documentclass[12pt]{minimal} usepackage{amsmath} usepackage{wasysym} usepackage{amsfonts} usepackage{amssymb} usepackage{amsbsy} usepackage{mathrsfs} usepackage{upgreek} setlength{oddsidemargin}{-69pt} begin{document}$$C^0$$end{document} stoc On the persistent homology of almost surely C0documentclass[12pt]{minimal} usepackage{amsmath} usepackage{wasysym} usepackage{amsfonts} usepackage{amssymb} usepackage{amsbsy} usepackage{mathrsfs} usepackage{upgreek} setlength{oddsidemargin}{-69pt} begin{document}$$C^0$$end{document} stoc
Journal of applied and computational topology Pub Date : 2020-12-17 DOI: 10.1007/s41468-023-00132-x
Daniel Pérez
{"title":"On the persistent homology of almost surely C0documentclass[12pt]{minimal} usepackage{amsmath} usepackage{wasysym} usepackage{amsfonts} usepackage{amssymb} usepackage{amsbsy} usepackage{mathrsfs} usepackage{upgreek} setlength{oddsidemargin}{-69pt} begin{document}$$C^0$$end{document} stoc","authors":"Daniel Pérez","doi":"10.1007/s41468-023-00132-x","DOIUrl":"https://doi.org/10.1007/s41468-023-00132-x","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"131 1","pages":"879 - 906"},"PeriodicalIF":0.0,"publicationDate":"2020-12-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89325346","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Evolutionary homology on coupled dynamical systems with applications to protein flexibility analysis. 耦合动力系统的进化同源性及其在蛋白质柔韧性分析中的应用。
Journal of applied and computational topology Pub Date : 2020-12-01 Epub Date: 2020-07-29 DOI: 10.1007/s41468-020-00057-9
Zixuan Cang, Elizabeth Munch, Guo-Wei Wei
{"title":"Evolutionary homology on coupled dynamical systems with applications to protein flexibility analysis.","authors":"Zixuan Cang,&nbsp;Elizabeth Munch,&nbsp;Guo-Wei Wei","doi":"10.1007/s41468-020-00057-9","DOIUrl":"https://doi.org/10.1007/s41468-020-00057-9","url":null,"abstract":"<p><p>While the spatial topological persistence is naturally constructed from a radius-based filtration, it has hardly been derived from a temporal filtration. Most topological models are designed for the global topology of a given object as a whole. There is no method reported in the literature for the topology of an individual component in an object to the best of our knowledge. For many problems in science and engineering, the topology of an individual component is important for describing its properties. We propose evolutionary homology (EH) constructed via a time evolution-based filtration and topological persistence. Our approach couples a set of dynamical systems or chaotic oscillators by the interactions of a physical system, such as a macromolecule. The interactions are approximated by weighted graph Laplacians. Simplices, simplicial complexes, algebraic groups and topological persistence are defined on the coupled trajectories of the chaotic oscillators. The resulting EH gives rise to time-dependent topological invariants or evolutionary barcodes for an individual component of the physical system, revealing its topology-function relationship. In conjunction with Wasserstein metrics, the proposed EH is applied to protein flexibility analysis, an important problem in computational biophysics. Numerical results for the B-factor prediction of a benchmark set of 364 proteins indicate that the proposed EH outperforms all the other state-of-the-art methods in the field.</p>","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"4 4","pages":"481-507"},"PeriodicalIF":0.0,"publicationDate":"2020-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s41468-020-00057-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39033436","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 11
Steady and ranging sets in graph persistence 图持久性中的稳定集和测距集
Journal of applied and computational topology Pub Date : 2020-09-15 DOI: 10.1007/s41468-022-00099-1
Mattia G. Bergomi, M. Ferri, Antonella Tavaglione
{"title":"Steady and ranging sets in graph persistence","authors":"Mattia G. Bergomi, M. Ferri, Antonella Tavaglione","doi":"10.1007/s41468-022-00099-1","DOIUrl":"https://doi.org/10.1007/s41468-022-00099-1","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"7 1","pages":"33 - 56"},"PeriodicalIF":0.0,"publicationDate":"2020-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"53194263","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Dominance complexes and vertex cover numbers of graphs 图的优势复合体与顶点覆盖数
Journal of applied and computational topology Pub Date : 2020-09-09 DOI: 10.1007/s41468-022-00109-2
Takahiro Matsushita
{"title":"Dominance complexes and vertex cover numbers of graphs","authors":"Takahiro Matsushita","doi":"10.1007/s41468-022-00109-2","DOIUrl":"https://doi.org/10.1007/s41468-022-00109-2","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"7 1","pages":"363 - 368"},"PeriodicalIF":0.0,"publicationDate":"2020-09-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"48710837","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 1
A directed persistent homology theory for dissimilarity functions 非相似函数的有向持久同调理论
Journal of applied and computational topology Pub Date : 2020-08-03 DOI: 10.1007/s41468-023-00124-x
D. M'endez, Rub'en J. S'anchez-Garc'ia
{"title":"A directed persistent homology theory for dissimilarity functions","authors":"D. M'endez, Rub'en J. S'anchez-Garc'ia","doi":"10.1007/s41468-023-00124-x","DOIUrl":"https://doi.org/10.1007/s41468-023-00124-x","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"7 1","pages":"771 - 813"},"PeriodicalIF":0.0,"publicationDate":"2020-08-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42739062","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Stratifications of real vector spaces from constructible sheaves with conical microsupport 具有锥形微支撑的可构造轴的实向量空间分层
Journal of applied and computational topology Pub Date : 2020-07-31 DOI: 10.1007/s41468-023-00112-1
Ezra Miller
{"title":"Stratifications of real vector spaces from constructible sheaves with conical microsupport","authors":"Ezra Miller","doi":"10.1007/s41468-023-00112-1","DOIUrl":"https://doi.org/10.1007/s41468-023-00112-1","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"7 1","pages":"473 - 489"},"PeriodicalIF":0.0,"publicationDate":"2020-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47073296","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Moduli spaces of morse functions for persistence morse函数持久性的模空间
Journal of applied and computational topology Pub Date : 2020-06-27 DOI: 10.1007/s41468-020-00055-x
Michael J. Catanzaro, J. Curry, Brittany Terese Fasy, J. Lazovskis, Greg Malen, Hans Riess, Bei Wang, Matthew John Zabka
{"title":"Moduli spaces of morse functions for persistence","authors":"Michael J. Catanzaro, J. Curry, Brittany Terese Fasy, J. Lazovskis, Greg Malen, Hans Riess, Bei Wang, Matthew John Zabka","doi":"10.1007/s41468-020-00055-x","DOIUrl":"https://doi.org/10.1007/s41468-020-00055-x","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"4 1","pages":"353 - 385"},"PeriodicalIF":0.0,"publicationDate":"2020-06-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s41468-020-00055-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49531871","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 21
Dimensionality reduction for k-distance applied to persistent homology k-距离降维在持久同调中的应用
Journal of applied and computational topology Pub Date : 2020-06-23 DOI: 10.1007/s41468-021-00079-x
Shreya Arya, J. Boissonnat, Kunal Dutta, Martin Lotz
{"title":"Dimensionality reduction for k-distance applied to persistent homology","authors":"Shreya Arya, J. Boissonnat, Kunal Dutta, Martin Lotz","doi":"10.1007/s41468-021-00079-x","DOIUrl":"https://doi.org/10.1007/s41468-021-00079-x","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"5 1","pages":"671 - 691"},"PeriodicalIF":0.0,"publicationDate":"2020-06-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44675318","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Computing persistent Stiefel–Whitney classes of line bundles 计算线束的持久Stiefel-Whitney类
Journal of applied and computational topology Pub Date : 2020-05-26 DOI: 10.1007/s41468-021-00080-4
Raphaël Tinarrage
{"title":"Computing persistent Stiefel–Whitney classes of line bundles","authors":"Raphaël Tinarrage","doi":"10.1007/s41468-021-00080-4","DOIUrl":"https://doi.org/10.1007/s41468-021-00080-4","url":null,"abstract":"","PeriodicalId":73600,"journal":{"name":"Journal of applied and computational topology","volume":"6 1","pages":"65 - 125"},"PeriodicalIF":0.0,"publicationDate":"2020-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42162639","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
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