LifeMap Discovery™: The Embryonic Development, Stem Cells, and Regenerative Medicine Research Portal
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{"title"=>"LifeMap Discovery???: The Embryonic Development, Stem Cells, and Regenerative Medicine Research Portal", "type"=>"journal", "authors"=>[{"first_name"=>"Ron", "last_name"=>"Edgar", "scopus_author_id"=>"7005093488"}, {"first_name"=>"Yaron", "last_name"=>"Mazor", "scopus_author_id"=>"55652218200"}, {"first_name"=>"Ariel", "last_name"=>"Rinon", "scopus_author_id"=>"6505724434"}, {"first_name"=>"Jacob", "last_name"=>"Blumenthal", "scopus_author_id"=>"56819272200"}, {"first_name"=>"Yaron", "last_name"=>"Golan", "scopus_author_id"=>"36995951600"}, {"first_name"=>"Ella", "last_name"=>"Buzhor", "scopus_author_id"=>"33767541300"}, {"first_name"=>"Idit", "last_name"=>"Livnat", "scopus_author_id"=>"6504377084"}, {"first_name"=>"Shani", "last_name"=>"Ben-Ari", "scopus_author_id"=>"56616000100"}, {"first_name"=>"Iris", "last_name"=>"Lieder", "scopus_author_id"=>"57193882834"}, {"first_name"=>"Alina", "last_name"=>"Shitrit", "scopus_author_id"=>"25633131200"}, {"first_name"=>"Yaron", "last_name"=>"Gilboa", "scopus_author_id"=>"55798794400"}, {"first_name"=>"Ahmi", "last_name"=>"Ben-Yehudah", "scopus_author_id"=>"6506603640"}, {"first_name"=>"Osnat", "last_name"=>"Edri", "scopus_author_id"=>"55799149600"}, {"first_name"=>"Netta", "last_name"=>"Shraga", "scopus_author_id"=>"55798695800"}, {"first_name"=>"Yoel", "last_name"=>"Bogoch", "scopus_author_id"=>"16070334900"}, {"first_name"=>"Lucy", "last_name"=>"Leshansky", "scopus_author_id"=>"36542603800"}, {"first_name"=>"Shlomi", "last_name"=>"Aharoni", "scopus_author_id"=>"55798999500"}, {"first_name"=>"Michael D.", "last_name"=>"West", "scopus_author_id"=>"7402068627"}, {"first_name"=>"David", "last_name"=>"Warshawsky", "scopus_author_id"=>"7004908944"}, {"first_name"=>"Ronit", "last_name"=>"Shtrichman", "scopus_author_id"=>"6507887484"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84880443207", "pui"=>"369378606", "sgr"=>"84880443207", "pmid"=>"23874394", "issn"=>"19326203", "doi"=>"10.1371/journal.pone.0066629", "isbn"=>"1932-6203 (Electronic) 1932-6203 (Linking)"}, "id"=>"7d9374cb-9bb9-382e-91cb-d5738351deb4", "abstract"=>"LifeMap Discovery provides investigators with an integrated database of embryonic development, stem cell biology and regenerative medicine. The hand-curated reconstruction of cell ontology with stem cell biology; including molecular, cellular, anatomical and disease-related information, provides efficient and easy-to-use, searchable research tools. The database collates in vivo and in vitro gene expression and guides translation from in vitro data to the clinical utility, and thus can be utilized as a powerful tool for research and discovery in stem cell biology, developmental biology, disease mechanisms and therapeutic discovery. LifeMap Discovery is freely available to academic nonprofit institutions at http://discovery.lifemapsc.com.", "link"=>"http://www.mendeley.com/research/lifemap-discovery-embryonic-development-stem-cells-regenerative-medicine-research-portal-1", "reader_count"=>42, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>2, "Researcher"=>10, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>1, "Student > Master"=>10, "Other"=>2, "Student > Bachelor"=>4}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>2, "Researcher"=>10, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>10, "Student > Postgraduate"=>1, "Student > Master"=>10, "Other"=>2, "Student > Bachelor"=>4}, "reader_count_by_subject_area"=>{"Engineering"=>1, "Biochemistry, Genetics and Molecular Biology"=>4, "Materials Science"=>1, "Mathematics"=>1, "Agricultural and Biological Sciences"=>24, "Medicine and Dentistry"=>6, "Neuroscience"=>2, "Psychology"=>1, "Computer Science"=>1, "Chemistry"=>1}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>1}, "Materials Science"=>{"Materials Science"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>6}, "Neuroscience"=>{"Neuroscience"=>2}, "Chemistry"=>{"Chemistry"=>1}, "Psychology"=>{"Psychology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>24}, "Computer Science"=>{"Computer Science"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>4}, "Mathematics"=>{"Mathematics"=>1}}, "reader_count_by_country"=>{"United States"=>2, "Japan"=>1, "Italy"=>1, "United Kingdom"=>1, "Germany"=>2, "Spain"=>1}, "group_count"=>3}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1120805"], "description"=>"<p>An interactive viewer available at the organ/tissue level. The ontology tree presents a low-resolution overview of organ/tissue development, and facilitates navigation by clickable entities that open the related card. The lower image shows the full ontology tree starting from the zygote, through the three germ layers; ectoderm, mesoderm and endoderm and to their derived organs and tissues. The upper image is an enlargement showing the contribution of the neural crest to the development of multiple tissues such as bone, cartilage and skeletal muscle as it is displayed in the database.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation", "ontology"], "article_id"=>746996, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g002", "stats"=>{"downloads"=>0, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_The_Developmental_Ontology_Tree_/746996", "title"=>"The Developmental Ontology Tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120808"], "description"=>"<p>Entities in each embryonic level are assigned a local index, e.g. the Head Mesenchyme local index is HdM, and one of its anatomical compartments, Branchial Arch 1 local index is BA1. The full Embryonic index for Branchial Arch 1 is hence HdM.BA1. Similarly, Paraxial Mesoderm Cells contained in the Branchial Arch 1 are given a local index PMCs and a fully qualified EIndex of HdM.BA1.PMCs.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation", "embryonic"], "article_id"=>746999, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g003", "stats"=>{"downloads"=>1, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Assignment_of_Embryonic_Index_EIndex_/746999", "title"=>"Assignment of Embryonic Index (EIndex).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120809"], "description"=>"<p><b>A.</b> Anatomical compartment viewer demonstrating the contribution of ‘Head Mesoderm’ and ‘Cranial Neural Crest’ to the developing ‘Head Mesenchyme’, which give rise to Branchial Arch 1 and its functional derivatives (i.e., cartilage, bone and skeletal muscles), is depicted in this viewer (highlighted, orange colored boxes). <b>B.</b> Illustration showing the embryonic ontology and development of the two main cellular components (i.e., paraxial mesoderm and neural crest cells) which give rise to skeletal elements of the head (lateral view). Such anatomical illustrations are available in the database at the organ/tissue and anatomical compartment cards <b>C.</b> Examples of the display of selective gene markers of cells populating the anatomical compartment. Here the selective genes of CNC cells and Paraxial Mesoderm cells are shown in the BA1 anatomical compartment card. <b>Abbreviations</b>: mb, midbrain; fb, forebrain;r1–7, rhombomeres 1–7; HdM.BA1–4, branchial arch 1–4; OV, optic vesicle.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation", "arch", "anatomical", "compartment"], "article_id"=>747000, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g004", "stats"=>{"downloads"=>1, "page_views"=>15, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Branchial_Arch_1_HdM_BA1_anatomical_compartment_development_card_/747000", "title"=>"Branchial Arch 1 (HdM.BA1) anatomical compartment development card.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120811"], "description"=>"<p>This figure demonstrates some of the comprehensive data provided for a single cell in the database. <b>A.</b> The cellular filter list, available at LifeMap Discovery, showing all available cellular developmental paths currently available in the database. This example demonstrates results from search of skeletal muscle-related cells; two selected cells with their developmental path annotation (e.g., Skeletal Muscle) are shown for simplification. <b>B.</b> ‘Cranial Neural Crest Cell’ (CNCCs) card shows the available information (e.g., gene expression) for these cells, accompanied by the interactive clickable graphical development viewer on the right. <b>C.</b> An example for a specific signal display- with a description (SHH), signal source, associated gene cascade and biological cellular outcome.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation"], "article_id"=>747002, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g005", "stats"=>{"downloads"=>1, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Cellular_Development_level_and_Cell_Card_Representation_/747002", "title"=>"Cellular Development level and Cell Card Representation.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120812"], "description"=>"<p><b>A</b>. Cell description and available data summary. <b>B.</b> Gene expression list including expression pattern, assay type and links to external resources. <b>C.</b> Links to cell-related high-throughput experiments, available in the database. <b>D.</b> List of <i>in vivo</i> cells or anatomical compartments that were matched to the PureStem progenitor and the related genes for each match<b>. E.</b> List of culturing conditions and protocols related to the PureStem progenitor cell.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation", "purestem", "progenitor"], "article_id"=>747003, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g006", "stats"=>{"downloads"=>0, "page_views"=>28, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_7PEND24_PureStem_Progenitor_Cell_Card_/747003", "title"=>"7PEND24 PureStem Progenitor Cell Card.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120813"], "description"=>"<p>Synopsis of the protocol, including duration, a summary of available data (not shown in figure), and an interactive viewer (right hand side) showing the protocol flow and its differentiation steps. Information about the <i>in vitro</i> cells that are used as source cells for the protocol is presented below the protocol title. The list of the protocol derived cells (PDCs) are shown on the left, ordered by the protocol steps. For a selected PDC (highlighted in the diagram), a description for the cell and step details are available, including list of growth factors used, step procedure, duration and functional assay, if available.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation"], "article_id"=>747004, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g007", "stats"=>{"downloads"=>4, "page_views"=>14, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Differentiation_Protocol_Card_/747004", "title"=>"Differentiation Protocol Card.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}
  • {"files"=>["https://ndownloader.figshare.com/files/1120814"], "description"=>"<p>Demonstration of a gene search in LifeMap Discovery. Genes of interest are selected and the search can be limited and filtered by several criteria, e.g. the card type and the gene expression pattern. Following query submission, a results summary table is shown, indicating the number of results for each card type (cells, compartments and organ/tissue cards). The results list presents the name and number of genes found in each card, as well as the link to card itself.</p>", "links"=>[], "tags"=>["Computational biology", "bio-ontologies", "developmental biology", "Organism development", "regeneration", "stem cells", "Embryonic stem cells", "mesenchymal stem cells", "Stem cell lines", "embryology", "Molecular cell biology", "Cellular types", "Information technology", "databases", "hematology", "Bone marrow and stem cell transplantation"], "article_id"=>747005, "categories"=>["Information And Computing Sciences", "Medicine", "Biological Sciences"], "users"=>["Ron Edgar", "Yaron Mazor", "Ariel Rinon", "Jacob Blumenthal", "Yaron Golan", "Ella Buzhor", "Idit Livnat", "Shani Ben-Ari", "Iris Lieder", "Alina Shitrit", "Yaron Gilboa", "Ahmi Ben-Yehudah", "Osnat Edri", "Netta Shraga", "Yoel Bogoch", "Lucy Leshansky", "Shlomi Aharoni", "Michael D. West", "David Warshawsky", "Ronit Shtrichman"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0066629.g008", "stats"=>{"downloads"=>2, "page_views"=>77, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Gene_search_display_/747005", "title"=>"Gene search display.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-07-17 01:30:09"}

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Relative Metric

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