TogoDoc Server/Client System: Smart Recommendation and Efficient Management of Life Science Literature
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{"title"=>"TogoDoc server/client system: smart recommendation and efficient management of life science literature", "type"=>"journal", "authors"=>[{"first_name"=>"Wataru", "last_name"=>"Iwasaki", "scopus_author_id"=>"24511885000"}, {"first_name"=>"Yasunori", "last_name"=>"Yamamoto", "scopus_author_id"=>"55476303500"}, {"first_name"=>"Toshihisa", "last_name"=>"Takagi", "scopus_author_id"=>"7403554330"}], "year"=>2010, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-78650779693", "pui"=>"361026072", "sgr"=>"78650779693", "pmid"=>"21179453", "issn"=>"19326203", "doi"=>"10.1371/journal.pone.0015305", "isbn"=>"1932-6203 (Linking)"}, "id"=>"abe6db2d-671d-3adf-b864-3ccb80d224ae", "abstract"=>"In this paper, we describe a server/client literature management system specialized for the life science domain, the TogoDoc system (Togo, pronounced Toe-Go, is a romanization of a Japanese word for integration). The server and the client program cooperate closely over the Internet to provide life scientists with an effective literature recommendation service and efficient literature management. The content-based and personalized literature recommendation helps researchers to isolate interesting papers from the \"tsunami\" of literature, in which, on average, more than one biomedical paper is added to MEDLINE every minute. Because researchers these days need to cover updates of much wider topics to generate hypotheses using massive datasets obtained from public databases or omics experiments, the importance of having an effective literature recommendation service is rising. The automatic recommendation is based on the content of personal literature libraries of electronic PDF papers. The client program automatically analyzes these files, which are sometimes deeply buried in storage disks of researchers' personal computers. Just saving PDF papers to the designated folders makes the client program automatically analyze and retrieve metadata, rename file names, synchronize the data to the server, and receive the recommendation lists of newly published papers, thus accomplishing effortless literature management. In addition, the tag suggestion and associative search functions are provided for easy classification of and access to past papers (researchers who read many papers sometimes only vaguely remember or completely forget what they read in the past). The TogoDoc system is available for both Windows and Mac OS X and is free. The TogoDoc Client software is available at http://tdc.cb.k.u-tokyo.ac.jp/, and the TogoDoc server is available at https://docman.dbcls.jp/pubmed_recom.", "link"=>"http://www.mendeley.com/research/togodoc-serverclient-system-smart-recommendation-efficient-management-life-science-literature", "reader_count"=>38, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Professor > Associate Professor"=>3, "Librarian"=>3, "Researcher"=>16, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>2, "Student > Master"=>3, "Other"=>5, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Professor > Associate Professor"=>3, "Librarian"=>3, "Researcher"=>16, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>2, "Student > Master"=>3, "Other"=>5, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Engineering"=>2, "Biochemistry, Genetics and Molecular Biology"=>2, "Mathematics"=>1, "Agricultural and Biological Sciences"=>18, "Medicine and Dentistry"=>2, "Neuroscience"=>1, "Pharmacology, Toxicology and Pharmaceutical Science"=>1, "Social Sciences"=>1, "Computer Science"=>9}, "reader_count_by_subdiscipline"=>{"Engineering"=>{"Engineering"=>2}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Neuroscience"=>{"Neuroscience"=>1}, "Social Sciences"=>{"Social Sciences"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>18}, "Computer Science"=>{"Computer Science"=>9}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Mathematics"=>{"Mathematics"=>1}, "Unspecified"=>{"Unspecified"=>1}, "Pharmacology, Toxicology and Pharmaceutical Science"=>{"Pharmacology, Toxicology and Pharmaceutical Science"=>1}}, "reader_count_by_country"=>{"Canada"=>1, "Austria"=>1, "Belgium"=>1, "United States"=>4, "Japan"=>3, "United Kingdom"=>5, "Germany"=>1, "Spain"=>2}, "group_count"=>5}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/812930"], "description"=>"<p>(A) The main page of the TogoDoc server website. A hierarchical tab-based layout is adopted where each tab corresponds to a specific function. (B) Personal library on the server website. The literature data, including the PDF files, can be registered via the website or uploaded by the Client. Users can download PDF papers by clicking the “OPEN” buttons on the rightmost column. Bibliographic information in various formats can be downloaded via the \"Get. Biblio. Info.\" combo box just below the tabs.</p>", "links"=>[], "tags"=>["togodoc", "server"], "article_id"=>483305, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305.g003", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Screenshots_of_the_TogoDoc_Server_Website_/483305", "title"=>"Screenshots of the TogoDoc Server Website.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-12-13 00:55:05"}
  • {"files"=>["https://ndownloader.figshare.com/files/813078"], "description"=>"<p>(A) Tunable recommendation function on the server. Users can set some terms as stop-words and must-words that are ignored or required in recommendation, respectively. (B) A recommendation result on the server. Users can see key terms emphasized in each recommended entry (gray and brown words). A permalink for getting recommendation lists on the same condition without signing in is provided at the top of this page. (C) The tag suggestion function on the server. Suggested tag names are presented with MeSH terms on which they are based. Just a few mouse clicks are required to put these tags on papers.</p>", "links"=>[], "tags"=>["functions", "server"], "article_id"=>483450, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305.g004", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Tunable_Recommendation_and_Tag_Suggestion_Functions_at_Server_Website_/483450", "title"=>"Tunable Recommendation and Tag Suggestion Functions at Server Website.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-12-13 00:57:30"}
  • {"files"=>["https://ndownloader.figshare.com/files/812782"], "description"=>"<p>Functions available to users with or without signing in are enumerated. There are two users, A and B, that each represents a typical use of the TogoDoc system. User A uses a TogoDoc Client or a TogoDoc server web page where the provided functions can be fully utilized after signing in using an OpenID. User B uses a general web browser or an RSS reader where literature recommendations can be obtained without signing in. The ways of accessing data with their formats and resources used in the TogoDoc server are also illustrated.</p>", "links"=>[], "tags"=>["togodoc", "server"], "article_id"=>483157, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305.g002", "stats"=>{"downloads"=>1, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Overview_of_TogoDoc_Server_Functions_/483157", "title"=>"Overview of TogoDoc Server Functions.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-12-13 00:52:37"}
  • {"files"=>["https://ndownloader.figshare.com/files/405432"], "description"=>"<div><p>In this paper, we describe a server/client literature management system specialized for the life science domain, the TogoDoc system (Togo, pronounced Toe-Go, is a romanization of a Japanese word for integration). The server and the client program cooperate closely over the Internet to provide life scientists with an effective literature recommendation service and efficient literature management. The content-based and personalized literature recommendation helps researchers to isolate interesting papers from the “tsunami” of literature, in which, on average, more than one biomedical paper is added to MEDLINE every minute. Because researchers these days need to cover updates of much wider topics to generate hypotheses using massive datasets obtained from public databases or omics experiments, the importance of having an effective literature recommendation service is rising. The automatic recommendation is based on the content of personal literature libraries of electronic PDF papers. The client program automatically analyzes these files, which are sometimes deeply buried in storage disks of researchers' personal computers. Just saving PDF papers to the designated folders makes the client program automatically analyze and retrieve metadata, rename file names, synchronize the data to the server, and receive the recommendation lists of newly published papers, thus accomplishing effortless literature management. In addition, the tag suggestion and associative search functions are provided for easy classification of and access to past papers (researchers who read many papers sometimes only vaguely remember or completely forget what they read in the past). The TogoDoc system is available for both Windows and Mac OS X and is free. The TogoDoc Client software is available at <a href=\"http://tdc.cb.k.u-tokyo.ac.jp/\">http://tdc.cb.k.u-tokyo.ac.jp/</a>, and the TogoDoc server is available at <a href=\"https://docman.dbcls.jp/pubmed_recom\">https://docman.dbcls.jp/pubmed_recom</a>.</p> </div>", "links"=>[], "tags"=>["togodoc"], "article_id"=>140124, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305", "stats"=>{"downloads"=>5, "page_views"=>12, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/TogoDoc_Server_Client_System_Smart_Recommendation_and_Efficient_Management_of_Life_Science_Literature/140124", "title"=>"TogoDoc Server/Client System: Smart Recommendation and Efficient Management of Life Science Literature", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2010-12-13 00:02:04"}
  • {"files"=>["https://ndownloader.figshare.com/files/813186"], "description"=>"<p>The Client can rename PDF papers that were originally saved in diverse naming styles in a batch. Uses can specify any naming pattern by using the wild cards starting with “$”. In the preview window, users can guess how the filenames of the PDF papers in their libraries will change according to the designated pattern. Clicking the <i>Configure Automatic Renaming Function</i> button at the bottom makes the Client automatically apply this filename style to newly added PDF papers to the folders managed by the Client.</p>", "links"=>[], "tags"=>["renaming", "pdf", "papers"], "article_id"=>483553, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305.g005", "stats"=>{"downloads"=>3, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Automatic_Renaming_of_PDF_Papers_by_the_Client_/483553", "title"=>"Automatic Renaming of PDF Papers by the Client.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-12-13 00:59:13"}
  • {"files"=>["https://ndownloader.figshare.com/files/812652"], "description"=>"<p>The four panes are, clockwise from the upper left pane, Article Explorer, Literature Tabs, Search Pane, and Tag Explorer. Article Explorer is a file manager for all PDF-storing folders specified by users, which are <i>Folder 1</i> and <i>Folder 2</i> in this example. The filenames of PDF papers are listed, and many functions are available via right-click context menus. The icon to the left of <i>ReagentsCatalog.pdf</i> indicates that this file could not be analyzed by the Client, and the asterisks before the filenames indicate that these files have not yet been checked by the user; they are preferentially displayed at the top of the file lists. Literature Tab presents detailed information about papers selected in Article Explorer or Search Pane, and it also lets users edit their bibliographic information and invoke search functions. Users can open multiple tabs to check several papers simultaneously if necessary. Search Pane displays the results of the various search functions and literature recommendations. In this view, the Client is downloading a recommended paper list from the server. Tag Explorer manages tags created by users. All papers having tags are displayed in this pane as leaves of tag hierarchies. Users can create new tags in this pane in addition to Literature Tabs and can tag papers by dragging and dropping them from the Article Explorer described above. In addition, the various buttons on the top of the window and the menu bar are provided for the important and full functions of the Client, respectively. This screenshot was taken using MacOS X, and the interface is almost identical in Windows, except that the menu bar is included in the window. See main text for details of each pane.</p>", "links"=>[], "tags"=>["togodoc"], "article_id"=>483026, "categories"=>["Biotechnology", "Biological Sciences", "Information And Computing Sciences"], "users"=>["Wataru Iwasaki", "Yasunori Yamamoto", "Toshihisa Takagi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0015305.g001", "stats"=>{"downloads"=>1, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Screenshot_of_TogoDoc_Client_/483026", "title"=>"Screenshot of TogoDoc Client.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-12-13 00:50:26"}

PMC Usage Stats | Further Information

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Relative Metric

{"start_date"=>"2010-01-01T00:00:00Z", "end_date"=>"2010-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Engineering and technology", "average_usage"=>[318, 573, 707, 808, 912, 1021, 1093, 1150, 1214, 1302, 1370, 1431, 1494, 1568, 1629, 1698, 1775, 1829, 1889, 1954, 2007, 2060, 2128, 2170, 2208, 2247, 2311, 2357, 2410, 2453, 2525, 2602, 2660, 2715, 2764, 2818, 2863, 2905, 2970, 3018, 3072, 3127, 3179, 3241, 3298, 3341, 3384, 3433, 3474]}]}
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