A Semi-Automatic Method to Extract Canal Pathways in 3D Micro-CT Images of Octocorals
Publication Date
January 23, 2014
Journal
PLOS ONE
Authors
Alfredo Morales Pinzón, Maciej Orkisz, Catalina María Rodríguez Useche, Juan Sebastián Torres González, et al
Volume
9
Issue
1
Pages
e85557
DOI
https://dx.plos.org/10.1371/journal.pone.0085557
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0085557
PubMed
http://www.ncbi.nlm.nih.gov/pubmed/24465599
PubMed Central
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3900427
Europe PMC
http://europepmc.org/abstract/MED/24465599
Web of Science
000330288000017
Scopus
84899879822
Mendeley
http://www.mendeley.com/research/semiautomatic-method-extract-canal-pathways-3d-microct-images-octocorals
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Mendeley | Further Information

{"title"=>"A semi-automatic method to extract canal pathways in 3D micro-CT images of octocorals", "type"=>"journal", "authors"=>[{"first_name"=>"Alfredo", "last_name"=>"Morales Pinzón", "scopus_author_id"=>"56150090900"}, {"first_name"=>"Maciej", "last_name"=>"Orkisz", "scopus_author_id"=>"6603713173"}, {"first_name"=>"Catalina María", "last_name"=>"Rodríguez Useche", "scopus_author_id"=>"56149129400"}, {"first_name"=>"Juan Sebastián", "last_name"=>"Torres González", "scopus_author_id"=>"56151163000"}, {"first_name"=>"Stanislas", "last_name"=>"Teillaud", "scopus_author_id"=>"36495857100"}, {"first_name"=>"Juan", "last_name"=>"Armando Sánchez", "scopus_author_id"=>"56150432000"}, {"first_name"=>"Marcela", "last_name"=>"Hernández Hoyos", "scopus_author_id"=>"13104224200"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84899879822", "doi"=>"10.1371/journal.pone.0085557", "pui"=>"373023134", "pmid"=>"24465599", "scopus"=>"2-s2.0-84899879822", "issn"=>"19326203", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)"}, "id"=>"7a1d4a4c-1817-3aa7-94dd-1b7405b82334", "abstract"=>"The long-term goal of our study is to understand the internal organization of the octocoral stem canals, as well as their physiological and functional role in the growth of the colonies, and finally to assess the influence of climatic changes on this species. Here we focus on imaging tools, namely acquisition and processing of three-dimensional high-resolution images, with emphasis on automated extraction of canal pathways. Our aim was to evaluate the feasibility of the whole process, to point out and solve – if possible – technical problems related to the specimen conditioning, to determine the best acquisition parameters and to develop necessary image-processing algorithms. The pathways extracted are expected to facilitate the structural analysis of the colonies, namely to help observing the distribution, formation and number of canals along the colony. Five volumetric images of Muricea muricata specimens were successfully acquired by X-ray computed tomography with spatial resolution ranging from 4.5 to 25 micrometers. The success mainly depended on specimen immobilization. More than of the canals were successfully detected and tracked by the image-processing method developed. Thus obtained three-dimensional representation of the canal network was generated for the first time without the need of histological or other destructive methods. Several canal patterns were observed. Although most of them were simple, i.e. only followed the main branch or “turned” into a secondary branch, many others bifurcated or fused. A majority of bifurcations were observed at branching points. However, some canals appeared and/or ended anywhere along a branch. At the tip of a branch, all canals fused into a unique chamber. Three-dimensional high-resolution tomographic imaging gives a non-destructive insight to the coral ultrastructure and helps understanding the organization of the canal network. Advanced image-processing techniques greatly reduce human observer's effort and provide methods to both visualize and quantify the structures of interest.", "link"=>"http://www.mendeley.com/research/semiautomatic-method-extract-canal-pathways-3d-microct-images-octocorals", "reader_count"=>24, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Ph. D. Student"=>5, "Student > Postgraduate"=>2, "Student > Master"=>7, "Student > Bachelor"=>1, "Lecturer"=>1, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>1, "Researcher"=>5, "Student > Ph. D. Student"=>5, "Student > Postgraduate"=>2, "Student > Master"=>7, "Student > Bachelor"=>1, "Lecturer"=>1, "Professor"=>1}, "reader_count_by_subject_area"=>{"Engineering"=>1, "Unspecified"=>2, "Environmental Science"=>2, "Biochemistry, Genetics and Molecular Biology"=>1, "Agricultural and Biological Sciences"=>11, "Medicine and Dentistry"=>3, "Physics and Astronomy"=>1, "Computer Science"=>1, "Earth and Planetary Sciences"=>1, "Energy"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>3}, "Energy"=>{"Energy"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>11}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>1}, "Unspecified"=>{"Unspecified"=>2}, "Environmental Science"=>{"Environmental Science"=>2}}, "group_count"=>0}

Scopus | Further Information

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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/1357987"], "description"=>"<p>The yellow arrow indicates the previous orientation, while the green one represents the currently found optimal orientation.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "pathway", "extraction"], "article_id"=>910219, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g007", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_of_the_pathway_extraction_algorithm_/910219", "title"=>"Flowchart of the pathway extraction algorithm.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1357990"], "description"=>"<p>(A) , and their dimensions. (B) , aligned with a canal at the previous point , and the cone used to seek for the current orientation. Note the definition of the angle and the location of the current point at from . (C) Disks and rings corresponding to , of three neighboring canals in the initial cross-sectional plane.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography"], "article_id"=>910222, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g008", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Cylinders_used_to_estimate_the_local_orientation_/910222", "title"=>"Cylinders used to estimate the local orientation.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1357994"], "description"=>"<p>Flowchart of the automated seed-localization algorithm.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "automated", "seed-localization"], "article_id"=>910226, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g009", "stats"=>{"downloads"=>4, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_of_the_automated_seed_localization_algorithm_/910226", "title"=>"Flowchart of the automated seed-localization algorithm.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1357997"], "description"=>"<p>Flowchart of the post-processing.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography"], "article_id"=>910228, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g010", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_of_the_post_processing_/910228", "title"=>"Flowchart of the post-processing.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1357998"], "description"=>"<p>The extracted and reference pathways are respectively displayed in red and green, together with the initialization planes in the corresponding datasets: (A) EX, (B) M1, (C) M5, (D) S3.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography"], "article_id"=>910233, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g011", "stats"=>{"downloads"=>6, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Extracted_and_reference_pathways_/910233", "title"=>"Extracted and reference pathways.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1357999"], "description"=>"<p>Results of automatic seed-point initialization in M5 (A–C) and S3 (D–G) datasets. Yellow circles highlight the canals where two seeds instead of one were placed. The arrow indicates the missed canal.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "seed-point"], "article_id"=>910237, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g012", "stats"=>{"downloads"=>2, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Automatic_seed_point_initialization_/910237", "title"=>"Automatic seed-point initialization.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358000"], "description"=>"<p>Semi-automatic seed-point initialization in datasets EX (A) and M1 (B).</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "seed-point", "initialization", "datasets", "ex", "m1"], "article_id"=>910241, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g013", "stats"=>{"downloads"=>2, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Semi_automatic_seed_point_initialization_in_datasets_EX_A_and_M1_B_/910241", "title"=>"Semi-automatic seed-point initialization in datasets EX (A) and M1 (B).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358001"], "description"=>"<p>Only a small subset of pathways initialized beyond the canal lumen did not converge.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "pathways", "converging", "initialization"], "article_id"=>910244, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g014", "stats"=>{"downloads"=>2, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Example_of_pathways_converging_from_various_initialization_points_/910244", "title"=>"Example of pathways converging from various initialization points.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358004"], "description"=>"<p>(A) longitudinal slightly oblique slice from the original image, (B) attempt to 3D surface rendering of the canals present in this region. A canal bifurcates (yellow arrow) giving rise to a secondary pathway that successively joins two canals coming from a colony branch (green arrows) and finally joins the principal canal again (magenta arrow). The secondary pathway highlighted in blue on the 3D rendering cannot be extracted with the current version of our method, but was noticed when visually following the extracted pathways.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "canal", "configuration", "branching"], "article_id"=>910247, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.g015", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Example_of_a_complex_canal_configuration_in_a_branching_region_/910247", "title"=>"Example of a complex canal configuration in a branching region.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358005"], "description"=>"*<p>The location of the initialization planes corresponds to the superimposed lines in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0085557#pone-0085557-g002\" target=\"_blank\">Figures 2</a>–<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0085557#pone-0085557-g005\" target=\"_blank\">5</a>.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "seed-point"], "article_id"=>910248, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.t004", "stats"=>{"downloads"=>2, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Results_of_the_automatic_seed_point_detection_/910248", "title"=>"Results of the automatic seed-point detection.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358006"], "description"=>"<p>Number of seed-points and extracted pathways per dataset.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "seed-points", "extracted", "pathways"], "article_id"=>910249, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.t002", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Number_of_seed_points_and_extracted_pathways_per_dataset_/910249", "title"=>"Number of seed-points and extracted pathways per dataset.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358007"], "description"=>"<p>Results of the pathway extraction.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "pathway"], "article_id"=>910250, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.t003", "stats"=>{"downloads"=>4, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Results_of_the_pathway_extraction_/910250", "title"=>"Results of the pathway extraction.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358008"], "description"=>"<p>Parameters of the image acquisitions.</p>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography"], "article_id"=>910251, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0085557.t001", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Parameters_of_the_image_acquisitions_/910251", "title"=>"Parameters of the image acquisitions.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-01-23 03:30:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/1358012", "https://ndownloader.figshare.com/files/1358013", "https://ndownloader.figshare.com/files/1358014", "https://ndownloader.figshare.com/files/1358015", "https://ndownloader.figshare.com/files/1358016", "https://ndownloader.figshare.com/files/1358017"], "description"=>"<div><p>The long-term goal of our study is to understand the internal organization of the octocoral stem canals, as well as their physiological and functional role in the growth of the colonies, and finally to assess the influence of climatic changes on this species. Here we focus on imaging tools, namely acquisition and processing of three-dimensional high-resolution images, with emphasis on automated extraction of canal pathways. Our aim was to evaluate the feasibility of the whole process, to point out and solve – if possible – technical problems related to the specimen conditioning, to determine the best acquisition parameters and to develop necessary image-processing algorithms. The pathways extracted are expected to facilitate the structural analysis of the colonies, namely to help observing the distribution, formation and number of canals along the colony. Five volumetric images of <i>Muricea muricata</i> specimens were successfully acquired by X-ray computed tomography with spatial resolution ranging from 4.5 to 25 micrometers. The success mainly depended on specimen immobilization. More than of the canals were successfully detected and tracked by the image-processing method developed. Thus obtained three-dimensional representation of the canal network was generated for the first time without the need of histological or other destructive methods. Several canal patterns were observed. Although most of them were simple, <i>i.e.</i> only followed the main branch or “turned” into a secondary branch, many others bifurcated or fused. A majority of bifurcations were observed at branching points. However, some canals appeared and/or ended anywhere along a branch. At the tip of a branch, all canals fused into a unique chamber. Three-dimensional high-resolution tomographic imaging gives a non-destructive insight to the coral ultrastructure and helps understanding the organization of the canal network. Advanced image-processing techniques greatly reduce human observer's effort and provide methods to both visualize and quantify the structures of interest.</p></div>", "links"=>[], "tags"=>["Anatomy and physiology", "ecology", "Marine ecology", "Coral reefs", "Marine biology", "corals", "Zoology", "Animal physiology", "signal processing", "Image processing", "radiology", "Diagnostic radiology", "Computed tomography", "semi-automatic", "extract", "canal", "pathways", "3d", "micro-ct", "images"], "article_id"=>910255, "categories"=>["Biological Sciences", "Medicine", "Engineering"], "users"=>["Alfredo Morales Pinzón", "Maciej Orkisz", "Catalina María Rodríguez Useche", "Juan Sebastián Torres González", "Stanislas Teillaud", "Juan Armando Sánchez", "Marcela Hernández Hoyos"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0085557.s001", "https://dx.doi.org/10.1371/journal.pone.0085557.s002", "https://dx.doi.org/10.1371/journal.pone.0085557.s003", "https://dx.doi.org/10.1371/journal.pone.0085557.s004", "https://dx.doi.org/10.1371/journal.pone.0085557.s005", "https://dx.doi.org/10.1371/journal.pone.0085557.s006"], "stats"=>{"downloads"=>5, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_Semi_Automatic_Method_to_Extract_Canal_Pathways_in_3D_Micro_CT_Images_of_Octocorals_/910255", "title"=>"A Semi-Automatic Method to Extract Canal Pathways in 3D Micro-CT Images of Octocorals", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2014-01-23 03:30:00"}

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Relative Metric

{"start_date"=>"2014-01-01T00:00:00Z", "end_date"=>"2014-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences", "average_usage"=>[291]}, {"subject_area"=>"/Biology and life sciences/Marine biology", "average_usage"=>[407]}, {"subject_area"=>"/Biology and life sciences/Neuroscience", "average_usage"=>[289]}, {"subject_area"=>"/Medicine and health sciences", "average_usage"=>[285]}, {"subject_area"=>"/Medicine and health sciences/Diagnostic medicine", "average_usage"=>[257]}, {"subject_area"=>"/Medicine and health sciences/Physiology", "average_usage"=>[278]}, {"subject_area"=>"/Medicine and health sciences/Radiology and imaging", "average_usage"=>[246]}]}
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Net::HTTPTooManyRequests

Source
Scopus
Time
2019-08-27 20:07:33 UTC
Target URL
https://api.elsevier.com/content/search/index:SCOPUS?query=DOI(10.1371%2Fjournal.pone.0085557)
Trace

/app/models/concerns/networkable.rb:21:in `get_result'
/app/models/source.rb:165:in `get_data'
/app/models/retrieval_status.rb:47:in `perform_get_data'
/app/jobs/source_job.rb:52:in `block (2 levels) in perform'
/app/jobs/source_job.rb:51:in `block in perform'
/app/jobs/source_job.rb:35:in `each'
/app/jobs/source_job.rb:35:in `perform'