Uncertainty Footprint: Visualization of Nonuniform Behavior of Iterative Algorithms Applied to 4D Cell Tracking
Research on microscopy data from developing biological samples usually requires tracking individual cells over time. When cells are three‐dimensionally and densely packed in a time‐dependent scan of volumes, tracking results can become unreliable and uncertain. Not only are cell segmentation results...
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| Vydáno v: | Computer graphics forum Ročník 36; číslo 3; s. 479 - 489 |
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| Hlavní autoři: | , |
| Médium: | Journal Article |
| Jazyk: | angličtina |
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England
Blackwell Publishing Ltd
01.06.2017
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| ISSN: | 0167-7055, 1467-8659 |
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| Abstract | Research on microscopy data from developing biological samples usually requires tracking individual cells over time. When cells are three‐dimensionally and densely packed in a time‐dependent scan of volumes, tracking results can become unreliable and uncertain. Not only are cell segmentation results often inaccurate to start with, but it also lacks a simple method to evaluate the tracking outcome. Previous cell tracking methods have been validated against benchmark data from real scans or artificial data, whose ground truth results are established by manual work or simulation. However, the wide variety of real‐world data makes an exhaustive validation impossible. Established cell tracking tools often fail on new data, whose issues are also difficult to diagnose with only manual examinations. Therefore, data‐independent tracking evaluation methods are desired for an explosion of microscopy data with increasing scale and resolution. In this paper, we propose the uncertainty footprint, an uncertainty quantification and visualization technique that examines nonuniformity at local convergence for an iterative evaluation process on a spatial domain supported by partially overlapping bases. We demonstrate that the patterns revealed by the uncertainty footprint indicate data processing quality in two algorithms from a typical cell tracking workflow – cell identification and association. A detailed analysis of the patterns further allows us to diagnose issues and design methods for improvements. A 4D cell tracking workflow equipped with the uncertainty footprint is capable of self diagnosis and correction for a higher accuracy than previous methods whose evaluation is limited by manual examinations. |
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| AbstractList | Research on microscopy data from developing biological samples usually requires tracking individual cells over time. When cells are three‐dimensionally and densely packed in a time‐dependent scan of volumes, tracking results can become unreliable and uncertain. Not only are cell segmentation results often inaccurate to start with, but it also lacks a simple method to evaluate the tracking outcome. Previous cell tracking methods have been validated against benchmark data from real scans or artificial data, whose ground truth results are established by manual work or simulation. However, the wide variety of real‐world data makes an exhaustive validation impossible. Established cell tracking tools often fail on new data, whose issues are also difficult to diagnose with only manual examinations. Therefore, data‐independent tracking evaluation methods are desired for an explosion of microscopy data with increasing scale and resolution. In this paper, we propose the uncertainty footprint, an uncertainty quantification and visualization technique that examines nonuniformity at local convergence for an iterative evaluation process on a spatial domain supported by partially overlapping bases. We demonstrate that the patterns revealed by the uncertainty footprint indicate data processing quality in two algorithms from a typical cell tracking workflow – cell identification and association. A detailed analysis of the patterns further allows us to diagnose issues and design methods for improvements. A 4D cell tracking workflow equipped with the uncertainty footprint is capable of self diagnosis and correction for a higher accuracy than previous methods whose evaluation is limited by manual examinations. Research on microscopy data from developing biological samples usually requires tracking individual cells over time. When cells are three-dimensionally and densely packed in a time-dependent scan of volumes, tracking results can become unreliable and uncertain. Not only are cell segmentation results often inaccurate to start with, but it also lacks a simple method to evaluate the tracking outcome. Previous cell tracking methods have been validated against benchmark data from real scans or artificial data, whose ground truth results are established by manual work or simulation. However, the wide variety of real-world data makes an exhaustive validation impossible. Established cell tracking tools often fail on new data, whose issues are also difficult to diagnose with only manual examinations. Therefore, data-independent tracking evaluation methods are desired for an explosion of microscopy data with increasing scale and resolution. In this paper, we propose the uncertainty footprint, an uncertainty quantification and visualization technique that examines nonuniformity at local convergence for an iterative evaluation process on a spatial domain supported by partially overlapping bases. We demonstrate that the patterns revealed by the uncertainty footprint indicate data processing quality in two algorithms from a typical cell tracking workflow - cell identification and association. A detailed analysis of the patterns further allows us to diagnose issues and design methods for improvements. A 4D cell tracking workflow equipped with the uncertainty footprint is capable of self diagnosis and correction for a higher accuracy than previous methods whose evaluation is limited by manual examinations.Research on microscopy data from developing biological samples usually requires tracking individual cells over time. When cells are three-dimensionally and densely packed in a time-dependent scan of volumes, tracking results can become unreliable and uncertain. Not only are cell segmentation results often inaccurate to start with, but it also lacks a simple method to evaluate the tracking outcome. Previous cell tracking methods have been validated against benchmark data from real scans or artificial data, whose ground truth results are established by manual work or simulation. However, the wide variety of real-world data makes an exhaustive validation impossible. Established cell tracking tools often fail on new data, whose issues are also difficult to diagnose with only manual examinations. Therefore, data-independent tracking evaluation methods are desired for an explosion of microscopy data with increasing scale and resolution. In this paper, we propose the uncertainty footprint, an uncertainty quantification and visualization technique that examines nonuniformity at local convergence for an iterative evaluation process on a spatial domain supported by partially overlapping bases. We demonstrate that the patterns revealed by the uncertainty footprint indicate data processing quality in two algorithms from a typical cell tracking workflow - cell identification and association. A detailed analysis of the patterns further allows us to diagnose issues and design methods for improvements. A 4D cell tracking workflow equipped with the uncertainty footprint is capable of self diagnosis and correction for a higher accuracy than previous methods whose evaluation is limited by manual examinations. |
| Author | Hansen, C. Wan, Y. |
| AuthorAffiliation | 1 Scientific Computing and Imaging Institute, University of Utah, USA |
| AuthorAffiliation_xml | – name: 1 Scientific Computing and Imaging Institute, University of Utah, USA |
| Author_xml | – sequence: 1 givenname: Y. surname: Wan fullname: Wan, Y. organization: University of Utah – sequence: 2 givenname: C. surname: Hansen fullname: Hansen, C. organization: University of Utah |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/29456279$$D View this record in MEDLINE/PubMed |
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| Cites_doi | 10.1007/978-3-662-44354-5 10.1093/bioinformatics/btu080 10.1038/nmeth0808-671 10.1109/MSP.2006.1628877 10.4153/CJM-1965-045-4 10.1109/TMI.2014.2370951 10.1109/SciVis.2015.7429489 10.1111/j.2517-6161.1977.tb01600.x 10.1109/ICPR.2004.1333863 10.1038/nmeth.2808 10.1109/PacificVis.2012.6183592 10.1242/dev.071407 10.1111/cgf.12134 10.1109/TSMC.1979.4310076 10.1145/361237.361242 10.1201/9781482277234-12 10.1214/aos/1176346060 10.1101/pdb.top65 10.1038/nmeth.3036 10.1016/j.hm.2004.11.010 10.1109/TVCG.2015.2467958 10.1109/ISBI.2011.5872786 10.1016/j.semcdb.2009.07.004 10.1038/nmeth.1237 10.1109/TVCG.2009.118 10.1109/TVCG.2002.1021579 10.1016/B978-0-12-391857-4.00009-4 10.1109/TVCG.2010.153 10.1109/TIP.2005.852794 10.1007/BF01386390 10.1016/j.patcog.2013.04.007 10.1007/s101070100259 10.1109/TVCG.2011.215 10.1016/j.cmpb.2013.08.001 10.1016/j.jsb.2005.06.002 |
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| Copyright | 2017 The Author(s) Computer Graphics Forum © 2017 The Eurographics Association and John Wiley & Sons Ltd. Published by John Wiley & Sons Ltd. 2017 The Eurographics Association and John Wiley & Sons Ltd. |
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| References | 2010; 11 2015; 34 2010; 16 2005; 151 2009; 20 2012 2011 2013; 46 2002; 8 2009 1976 2007 2006 2008; 5 1993 2004 2011; 17 1965; 17 1959; 1 2012; 504 1983; 11 2006; 23 2013; 32 1977; 39 2013; 12 1985 2005; 32 2015 2009; 4 2002; 91 2014; 30 2012; 139 2014; 11 1979; 9 2009; 15 2016; 22 2005; 14 1972; 15 e_1_2_8_28_2 e_1_2_8_29_2 e_1_2_8_23_2 e_1_2_8_24_2 e_1_2_8_25_2 Gonzalez R.C. (e_1_2_8_16_2) 2007 e_1_2_8_26_2 e_1_2_8_9_2 Huth J. (e_1_2_8_17_2) 2010; 11 Rudin W. (e_1_2_8_31_2) 1976 e_1_2_8_2_2 e_1_2_8_4_2 e_1_2_8_3_2 e_1_2_8_6_2 Mosig A. (e_1_2_8_27_2) 2009; 4 e_1_2_8_5_2 e_1_2_8_8_2 Gibbons A. (e_1_2_8_13_2) 1985 e_1_2_8_7_2 e_1_2_8_42_2 e_1_2_8_20_2 e_1_2_8_41_2 e_1_2_8_21_2 Dempster A.P. (e_1_2_8_11_2) 1977; 39 e_1_2_8_22_2 e_1_2_8_40_2 e_1_2_8_39_2 e_1_2_8_38_2 e_1_2_8_18_2 e_1_2_8_19_2 e_1_2_8_12_2 e_1_2_8_35_2 e_1_2_8_34_2 e_1_2_8_14_2 e_1_2_8_37_2 e_1_2_8_15_2 e_1_2_8_30_2 e_1_2_8_10_2 e_1_2_8_33_2 e_1_2_8_32_2 Tardos E. (e_1_2_8_36_2) 2006 20150102 - Cold Spring Harb Protoc. 2009 Dec;2009(12 ):pdb.top65 24016861 - Comput Methods Programs Biomed. 2013 Dec;112(3):422-31 20975174 - IEEE Trans Vis Comput Graph. 2010 Nov-Dec;16(6):1339-47 18641657 - Nat Methods. 2008 Aug;5(8):695-702 22186726 - Development. 2012 Jan;139(2):359-72 25018576 - Comput Graph Forum. 2013 Jun 1;32(3prt4):471-480 16190473 - IEEE Trans Image Process. 2005 Sep;14(9):1384-95 19607690 - Algorithms Mol Biol. 2009 Jul 16;4:10 26529727 - IEEE Trans Vis Comput Graph. 2016 Jan;22(1):777-86 24441936 - Nat Methods. 2014 Mar;11(3):281-9 24526711 - Bioinformatics. 2014 Jun 1;30(11):1609-17 23584131 - IEEE Pac Vis Symp. 2012;:201-208 20377897 - BMC Cell Biol. 2010 Apr 08;11:24 25042785 - Nat Methods. 2014 Sep;11(9):951-8 22264535 - Methods Enzymol. 2012;504:183-200 25415983 - IEEE Trans Med Imaging. 2015 Apr;34(4):911-29 18668034 - Nat Methods. 2008 Aug;5(8):671-2 16043363 - J Struct Biol. 2005 Aug;151(2):182-95 19660567 - Semin Cell Dev Biol. 2009 Oct;20(8):894-902 19834225 - IEEE Trans Vis Comput Graph. 2009 Nov-Dec;15(6):1489-96 22034334 - IEEE Trans Vis Comput Graph. 2011 Dec;17(12):2153-62 |
| References_xml | – year: 1985 – volume: 15 start-page: 1489 issue: 6 year: 2009 end-page: 1496 article-title: An interactive visualization tool for multi‐channel confocal microscopy data in neurobiology research publication-title: IEEE Trans. Vis. Comput. Graphics – volume: 17 start-page: 449 year: 1965 end-page: 467 article-title: Paths, trees, and flowers publication-title: Canad. J. Math – year: 2009 – volume: 9 start-page: 62 issue: 1 year: 1979 end-page: 66 article-title: A threshold selection method from gray‐level histograms publication-title: IEEE Trans. Syst., Man, Cybern., Syst – volume: 20 start-page: 894 year: 2009 end-page: 902 article-title: Tracking in cell and developmental biology publication-title: Semin. Cell Dev. Biol – volume: 12 start-page: 422 issue: 3 year: 2013 end-page: 431 article-title: Cell tracking in microscopic video using matching and linking of bipartite graphs publication-title: Comput. Meth. Prog. Bio – volume: 1 start-page: 269 year: 1959 end-page: 271 article-title: A note on two problems in connexion with graphs publication-title: Numerische Mathematik – volume: 4 issue: 10 year: 2009 article-title: Tracking cells in life cell imaging videos using topological alignments publication-title: Algorithm Mol. Biol – volume: 23 start-page: 46 issue: 3 year: 2006 end-page: 53 article-title: Tracking in molecular bioimaging publication-title: IEEE Signal Process. Mag – year: 2007 – volume: 11 start-page: 951 issue: 9 year: 2014 end-page: 958 article-title: Fast, accurate reconstruction of cell lineages from large‐scale fluorescence microscopy data publication-title: Nat. Methods – start-page: 1925 year: 2011 end-page: 1928 – volume: 39 start-page: 1 issue: 1 year: 1977 end-page: 38 article-title: Maximum likelihood from incomplete data via the em algorithm publication-title: J. R. Stat. Soc – volume: 11 start-page: 281 issue: 3 year: 2014 end-page: 289 article-title: Objective comparison of particle tracking methods publication-title: Nat. Methods – volume: 11 start-page: 95 issue: 1 year: 1983 end-page: 103 article-title: On the convergence properties of the em algorithm publication-title: Ann. Stat – start-page: 33 year: 2015 end-page: 40 – start-page: 677 year: 2004 end-page: 680 – volume: 5 start-page: 671 year: 2008 end-page: 672 article-title: Single‐particle tracking: connecting the dots publication-title: Nat. Methods – volume: 16 start-page: 1339 issue: 6 year: 2010 end-page: 1347 article-title: Exploration of 4d mri blood flow using stylistic visualization publication-title: IEEE Trans. Vis. Comput. Graphics – volume: 32 start-page: 453 issue: 4 year: 2005 end-page: 480 article-title: Exceptions and counterexamples: understanding abel's comment on cauchy's theorem publication-title: Historia Mathematica – volume: 17 start-page: 2153 issue: 12 year: 2011 end-page: 2162 article-title: Interactive virtual probing of 4d mri blood‐flow publication-title: IEEE Trans. Vis. Comput. Graphics – volume: 504 start-page: 183 year: 2012 end-page: 200 article-title: Methods for cell and particle tracking publication-title: Methods Enzymol – volume: 22 start-page: 777 issue: 1 year: 2016 end-page: 786 article-title: Isosurface visualization of data with nonparametric models for uncertainty publication-title: IEEE Trans. Vis. Comput. Graphics – year: 2006 – start-page: 201 year: 2012 end-page: 208 – volume: 30 start-page: 1609 issue: 11 year: 2014 end-page: 1617 article-title: A benchmark for comparison of cell tracking algorithms publication-title: Bioinformatics – volume: 5 start-page: 695 year: 2008 end-page: 702 article-title: Robust single‐particle tracking in live‐cell time‐lapse sequences publication-title: Nat. Methods – volume: 46 start-page: 2849 issue: 11 year: 2013 end-page: 2859 article-title: Measures for ranking cell trackers without manual validation publication-title: Pattern Recognition – volume: 151 start-page: 182 year: 2005 end-page: 195 article-title: Feature point tracking and trajectory analysis for video imaging in cell biology publication-title: J. Struct. Biol – volume: 14 start-page: 1384 issue: 9 year: 2005 end-page: 1395 article-title: Single quantum dot tracking based on perceptual grouping using minimal paths in a spatiotemporal volume publication-title: IEEE Trans. Image Process – volume: 34 start-page: 911 issue: 4 year: 2015 end-page: 929 article-title: Global linking of cell tracks using the viterbi algorithm publication-title: IEEE Trans. Med. Imag – volume: 91 start-page: 437 issue: 3 year: 2002 end-page: 445 article-title: On the history of the transportation and maximum flow problems publication-title: Mathematical Programming – volume: 32 start-page: 471 issue: 3 year: 2013 end-page: 480 article-title: Synthetic brainbows publication-title: Comput. Graph. Forum – volume: 15 start-page: 11 year: 1972 end-page: 15 article-title: Use of the hough transform to detect lines and curves in pictures publication-title: Comm. ACM – volume: 139 start-page: 359 issue: 2 year: 2012 end-page: 372 article-title: A complex choreography of cell movements shapes the vertebrate eye publication-title: Development – year: 1976 – start-page: 433 year: 1993 end-page: 481 – year: 2015 – volume: 11 issue: 24 year: 2010 article-title: Significantly improved precision of cell migration analysis in time‐lapse video microscopy through use of a fully automated tracking system publication-title: BMC Cell Biol – volume: 8 start-page: 207 issue: 3 year: 2002 end-page: 285 article-title: Multidimensional transfer functions for interactive volume rendering publication-title: IEEE Trans. Vis. Comput. Graphics – ident: e_1_2_8_23_2 doi: 10.1007/978-3-662-44354-5 – ident: e_1_2_8_29_2 doi: 10.1093/bioinformatics/btu080 – ident: e_1_2_8_32_2 doi: 10.1038/nmeth0808-671 – ident: e_1_2_8_28_2 doi: 10.1109/MSP.2006.1628877 – volume-title: Principles of mathematical Analysis year: 1976 ident: e_1_2_8_31_2 – ident: e_1_2_8_12_2 doi: 10.4153/CJM-1965-045-4 – ident: e_1_2_8_26_2 doi: 10.1109/TMI.2014.2370951 – ident: e_1_2_8_5_2 doi: 10.1109/SciVis.2015.7429489 – volume: 39 start-page: 1 issue: 1 year: 1977 ident: e_1_2_8_11_2 article-title: Maximum likelihood from incomplete data via the em algorithm publication-title: J. R. Stat. Soc doi: 10.1111/j.2517-6161.1977.tb01600.x – ident: e_1_2_8_15_2 doi: 10.1109/ICPR.2004.1333863 – ident: e_1_2_8_8_2 doi: 10.1038/nmeth.2808 – ident: e_1_2_8_40_2 doi: 10.1109/PacificVis.2012.6183592 – ident: e_1_2_8_22_2 doi: 10.1242/dev.071407 – ident: e_1_2_8_41_2 doi: 10.1111/cgf.12134 – ident: e_1_2_8_30_2 doi: 10.1109/TSMC.1979.4310076 – ident: e_1_2_8_9_2 doi: 10.1145/361237.361242 – ident: e_1_2_8_6_2 doi: 10.1201/9781482277234-12 – ident: e_1_2_8_42_2 doi: 10.1214/aos/1176346060 – ident: e_1_2_8_18_2 doi: 10.1101/pdb.top65 – ident: e_1_2_8_2_2 doi: 10.1038/nmeth.3036 – ident: e_1_2_8_35_2 doi: 10.1016/j.hm.2004.11.010 – ident: e_1_2_8_3_2 doi: 10.1109/TVCG.2015.2467958 – ident: e_1_2_8_14_2 doi: 10.1109/ISBI.2011.5872786 – ident: e_1_2_8_25_2 doi: 10.1016/j.semcdb.2009.07.004 – ident: e_1_2_8_19_2 doi: 10.1038/nmeth.1237 – ident: e_1_2_8_39_2 doi: 10.1109/TVCG.2009.118 – ident: e_1_2_8_20_2 doi: 10.1109/TVCG.2002.1021579 – ident: e_1_2_8_24_2 doi: 10.1016/B978-0-12-391857-4.00009-4 – ident: e_1_2_8_37_2 doi: 10.1109/TVCG.2010.153 – ident: e_1_2_8_4_2 doi: 10.1109/TIP.2005.852794 – ident: e_1_2_8_10_2 doi: 10.1007/BF01386390 – volume-title: Digital Image Processing year: 2007 ident: e_1_2_8_16_2 – volume: 11 issue: 24 year: 2010 ident: e_1_2_8_17_2 article-title: Significantly improved precision of cell migration analysis in time‐lapse video microscopy through use of a fully automated tracking system publication-title: BMC Cell Biol – ident: e_1_2_8_21_2 doi: 10.1016/j.patcog.2013.04.007 – ident: e_1_2_8_33_2 doi: 10.1007/s101070100259 – ident: e_1_2_8_38_2 doi: 10.1109/TVCG.2011.215 – ident: e_1_2_8_7_2 doi: 10.1016/j.cmpb.2013.08.001 – ident: e_1_2_8_34_2 doi: 10.1016/j.jsb.2005.06.002 – volume-title: Algorithm Design year: 2006 ident: e_1_2_8_36_2 – volume-title: Algorithmic Graph Theory year: 1985 ident: e_1_2_8_13_2 – volume: 4 issue: 10 year: 2009 ident: e_1_2_8_27_2 article-title: Tracking cells in life cell imaging videos using topological alignments publication-title: Algorithm Mol. Biol – reference: 19607690 - Algorithms Mol Biol. 2009 Jul 16;4:10 – reference: 18668034 - Nat Methods. 2008 Aug;5(8):671-2 – reference: 19834225 - IEEE Trans Vis Comput Graph. 2009 Nov-Dec;15(6):1489-96 – reference: 20975174 - IEEE Trans Vis Comput Graph. 2010 Nov-Dec;16(6):1339-47 – reference: 23584131 - IEEE Pac Vis Symp. 2012;:201-208 – reference: 24016861 - Comput Methods Programs Biomed. 2013 Dec;112(3):422-31 – reference: 24526711 - Bioinformatics. 2014 Jun 1;30(11):1609-17 – reference: 16190473 - IEEE Trans Image Process. 2005 Sep;14(9):1384-95 – reference: 20150102 - Cold Spring Harb Protoc. 2009 Dec;2009(12 ):pdb.top65 – reference: 16043363 - J Struct Biol. 2005 Aug;151(2):182-95 – reference: 25042785 - Nat Methods. 2014 Sep;11(9):951-8 – reference: 20377897 - BMC Cell Biol. 2010 Apr 08;11:24 – reference: 18641657 - Nat Methods. 2008 Aug;5(8):695-702 – reference: 24441936 - Nat Methods. 2014 Mar;11(3):281-9 – reference: 22264535 - Methods Enzymol. 2012;504:183-200 – reference: 22186726 - Development. 2012 Jan;139(2):359-72 – reference: 19660567 - Semin Cell Dev Biol. 2009 Oct;20(8):894-902 – reference: 22034334 - IEEE Trans Vis Comput Graph. 2011 Dec;17(12):2153-62 – reference: 26529727 - IEEE Trans Vis Comput Graph. 2016 Jan;22(1):777-86 – reference: 25018576 - Comput Graph Forum. 2013 Jun 1;32(3prt4):471-480 – reference: 25415983 - IEEE Trans Med Imaging. 2015 Apr;34(4):911-29 |
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| SubjectTerms | Algorithms Biological properties Categories and Subject Descriptors (according to ACM CCS) Computer simulation Data processing Design improvements Diagnosis Footprints Ground truth I.4.6 [Segmentation]: Pixel classification I.4.8 [Scene Analysis]: Tracking Iterative algorithms J.3 [Life and Medical Sciences]: Biology and Genetics Methods Microscopy Nonuniformity Segmentation Time dependence Tracking Uncertainty Visualization Workflow |
| Title | Uncertainty Footprint: Visualization of Nonuniform Behavior of Iterative Algorithms Applied to 4D Cell Tracking |
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