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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
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],Advantages of Wiki
Wiki: Knowledge Management platform ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
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
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],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
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],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?) ,[object Object],[object Object],[object Object],[object Object],[object Object],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 ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
THANK YOU SGMP Wiki: Inside Out Prasad, B.V.L.S. , Ph.D. Bioinformatics & Systems biology, Dept. of Bioengineering,  UCSD 4 th  May 2009

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Sgmp Wiki - GenNxt Wiki Concepts

  • 1. WIKI ADVANTAGES, IMPACT & DISADVANTAGES WIKI TECHNOLOGIES, WIKI ENGINES WIKI IN BIOLOGY WHY A NEW WIKI ? SGMP WIKI – ARCHITECTURE & DESIGN DEMONSTRATION SGMP Wiki: Inside Out
  • 2. “ 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
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  • 5. 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
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  • 7. 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
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  • 12. Wiki in Biology Mitch Waldrop, ‘Big Data: Wikiomics’,Nature,455,22-25
  • 13. 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
  • 14. SGMP Wiki – a New Wiki (Why?)
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  • 17. SGMP Wiki - Architecture & Design
  • 18. 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
  • 19. 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
  • 20. 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
  • 21. SGMP Wiki - Architecture & Design Database Schema Sgmpv14_3May09.sql
  • 22. 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
  • 23. WIKI ADVANTAGES, IMPACT & DISADVANTAGES WIKI TECHNOLOGIES, WIKI ENGINES WIKI IN BIOLOGY WHY A NEW WIKI ? SGMP WIKI – ARCHITECTURE & DESIGN DEMONSTRATION SGMP Wiki
  • 24. 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
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  • 26. THANK YOU SGMP Wiki: Inside Out Prasad, B.V.L.S. , Ph.D. Bioinformatics & Systems biology, Dept. of Bioengineering, UCSD 4 th May 2009