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Sgmp Wiki - GenNxt Wiki Concepts

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I am trying to develop next generation Wiki for Nature - UCSD Signaling Group

I am trying to develop next generation Wiki for Nature - UCSD Signaling Group

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    Sgmp Wiki - GenNxt Wiki Concepts Sgmp Wiki - GenNxt Wiki Concepts Presentation Transcript

    • WIKI ADVANTAGES, IMPACT & DISADVANTAGES WIKI TECHNOLOGIES, WIKI ENGINES WIKI IN BIOLOGY WHY A NEW WIKI ? SGMP WIKI – ARCHITECTURE & DESIGN DEMONSTRATION SGMP Wiki: Inside Out
    • “ A WIKI IS A FREELY-EXPANDABLE COLLECTION OF INTERLINKED WEB ‘PAGES’, A HYPERTEXT SYSTEM FOR STORING AND MODIFYING INFORMATION - A DATABASE, WHERE EACH PAGE IS EASILY EDITABLE BY ANY USER … .” ( LEUF AND CUNNINGHAM 2001, 14 ) "WIKI" IS ORIGINALLY A HAWAIIAN WORD FOR "FAST". WARD CUNNINGHAM , DEVELOPER OF THE FIRST WIKI SOFTWARE, WIKIWIKIWEB Wiki
      • Collaborative Authoring
      • Easy Editing - Articles Can be Edited : Anytime , Anyone, Anywhere
      • Easy Monitoring - Most Recent Editions Visible instantly
      • Easy Citing And Sourcing
      • Various levels of access – Open, Lockable, Gated, members, anonymous, personal
      • Automatic Versioning And Difference Engines For Documents
      • Search Facilities
      • Wikiwords - Automatic Links To Discussion Pages
      • Secured Storage - Server Storage Of Documents
      • Groups And Categories
      • Easy Links To Multi-language Documentation
      Advantages of Wiki
    • Wiki: Knowledge Management platform
      • Assistance of experts, peers and other professionals
      • Excellent means to annotate evolving issues
      • Facilitates exchange of ideas
      • Provides for creative environment and expanding knowledgebase
      • Increased communication efficiency and productivity
      • Gets everyone on the same page
      • Harnesses the power of diverse individuals
      • Forum for advancing thought processes
      • Provides innovative reference repositories for all aspects
    • Wiki – A disruptive innovation Corporate Agenda Documentation Minutes Project management Reports Education Courses Information services Programs Research projects University portals Library management Collection development Conference and event organization Project management Reference services Scientific publishing Manuscript preparation, editing, reviewing, revising, assessing, publishing, Collaborative efforts and Knowledge resources
      • Content accuracy, balance, comprehensiveness, consistency and reliability
      • Lack of accountability – ownership issues
      • legal liability , privacy, reputation and security
      • mixed degree of quality and finality
      • cumulative rather than serial
      • Vandalism – if truly open
      Disadvantages of Wiki
    • SERVER SIDE TECHNOLOGIES: PHP, ASP, JAVA/JSP, C++, C# CLIENT SIDE TECHNOLOGIES: JAVASCRIPT, JAVA AND [D|X]HTML DATABASE SUPPORT: Mysql, Oracle, Postgresql, IBM DB2 And SQL Server, Flat File Support Wiki technologies
      • MEDIAWIKI
        • http://en.wikipedia.org/wiki/MediaWiki
          • PHP, MySQL
          • Used in Wikipedia [http://en.wikipedia.org/]
      • MOINMOIN
        • http://moinmoin.wikiwikiweb.de/
          • Python, Flat file
      • PMWIKI
        • http://www.pmichaud.com/wiki/PmWiki/
          • Developed by Patrick Michaud
          • PHP, Flat file
      • TIKIWIKI
        • http://tikiwiki.org/tiki-index.php
          • PHP, MySQL
      • USEMODWIKI
        • http://www.usemod.com/cgi-bin/wiki.pl
          • Written by Clifford Adams
          • PERL, Flat file
      Wiki Engines: Wiki software is a type of collaborative software that runs a Wiki system
    •  
    •  
    •  
    • Wiki in Biology Mitch Waldrop, ‘Big Data: Wikiomics’,Nature,455,22-25
    • Wiki in Biology S.No. Biological Wiki Parent Wiki 1 EcoliWiki MediaWiki 2 Gene Wiki MediaWiki 3 OpenWetWare MediaWiki 4 PDBWiki MediaWiki 5 Proteopedia MediaWiki 6 Topsan DekiWiki 7 Wikigenes [No Info] 8 Wikipathways MediaWiki 9 Wiki Professional Life Sciences MediaWiki
    • SGMP Wiki – a New Wiki (Why?)
    •  
    • SGMP Wiki – a New Wiki (Why?)
      • WYSIWYG/Rich Text Editors
      • Biology specific features in the RTEs
      • Multiple Embedded RTEs
      • A Template based page layout
      • Lockable sections and custom editable sections
      NEED FOR BETTER / LACK OF THE FOLLOWING FEATURES:
    • SGMP Wiki - Architecture & Design
    • SGMP Wiki - Architecture & Design Client Side Programming: Javascript, [X|D]HTML,CSS Front End HTML lib Mootools, mooipe, sciedit Reusable libraries/modules performing custom needs Middle Layer CSS lib JS lib PHP lib SQL lib Images Database (MySQL) File System WEB server resource AJAX Driven client-server communication Client Side Server Side
    • SGMP Wiki - Architecture & Design Front End Index.php Sgbrowser.php Sgmember.php Sgregister.php Sgalert.php sgmpUpper.php sgmpLower.php Template.html Sgtemp.html CommonLayout.css Molpage.css Moo12.js Moo12more.js Mooipe12.js Sciedit.js Urlencode.js myValidation.js Anon.js LoggedIn.js
    • SGMP Wiki - Architecture & Design Middle Layer getCitation.php getContent.php getReferences.php getSGMPage.php getAlphaList.php getMemberName.php getMPNames.php getSearchResults.php getSessionId.php getSgmpData.php getTemplate.php getVersionInfo.php setContent.php setReferences.php setSgmpName.php setSgmpSymbol.php setSgmpSynonyms.php setSgmpAccession.php Login.php Logout.php Registration.php UserNameCheck.php toPdf.php WadaMysql.php
    • SGMP Wiki - Architecture & Design Database Schema Sgmpv14_3May09.sql
    • SGMP Wiki - Architecture & Design Typical Flowchart: (PHP) getCitation, getContent, setContent, setReference PHP MySQL NCBI Editing References view canc Content Ref Share Content Content & References Acce Rejec
    • WIKI ADVANTAGES, IMPACT & DISADVANTAGES WIKI TECHNOLOGIES, WIKI ENGINES WIKI IN BIOLOGY WHY A NEW WIKI ? SGMP WIKI – ARCHITECTURE & DESIGN DEMONSTRATION SGMP Wiki
    • RICH TEXT EDITOR – ~25 VERSIONS (INTERNAL) SGMP WIKI - ~27 VERSIONS (INTERNAL) DATABASE SCHEMA - ~15 VERSIONS (INTERNAL) SGMP Wiki: Effort: 9 th Jun 08 – 3 rd May 09
    • Accomplished till date
      • Collaborative Authoring
      • Easy Editing - Articles Can be Edited : Anytime , Anyone, Anywhere
      • Easy Monitoring - Most Recent Editions Visible instantly
      • Easy Citing And Sourcing
      • Various levels of access – Open, Lockable, Gated, members, anonymous, personal
      • Automatic Versioning And Difference Engines For Documents
      • Search Facilities
      • Wikiwords - Automatic Links To Discussion Pages
      • Secured Storage - Server Storage Of Documents
      • Groups And Categories
      • Easy Links To Multi-language Documentation
    • THANK YOU SGMP Wiki: Inside Out Prasad, B.V.L.S. , Ph.D. Bioinformatics & Systems biology, Dept. of Bioengineering, UCSD 4 th May 2009