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WWW & Internet Technologies for Biomedical Applications Aman Shakya, PhD Assistant Professor Dept. of Electronics and Computer Engineering IOE, Pulchowk Campus

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Outline Internet and the Web Bio-Medical Web Applications Bio-Medical Online Resources Bio-Medical Mobile Apps Social Web applications Information sharing with Open Data

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Internet and the Web What is the Net? Internet Web WWW Online Cyber Net Cloud Facebook ? Google ? Apps ?

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4 Whats the Internet: Whats the Internet: : nuts and bolts view Millions of connected computing devices: hosts, end- systems pcs workstations, servers PDAs phones, toasters running network apps communication links fiber, copper, radio, satellite routers: forward packets (chunks) of data thru network Internet: network of networks local ISP company network regional ISP router workstation server mobile

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5 A closer look at network structure: network edge: applications and hosts network core: routers network of networks access networks, physical media communication links

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6 The Network Core Mesh of interconnected routers How is data transferred through net? packet-switching: data sent thru net in discrete chunks

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7 The network edge: end systems (hosts): run application programs e.g., WWW, email at edge of network client/server model client host requests, receives service from server e.g., WWW client (browser)/ server; email client/server peer-peer model: host interaction symmetric e.g.: teleconferencing, torrent, napster

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8 Internet protocol stack application: supporting network applications FTP, SMTP, HTTP transport: host-host data transfer TCP, UDP network: routing of data packets from source to destination IP, routing protocols link: data transfer between neighboring network elements PPP, ethernet physical: bits on the wire application transport network link physical

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runs on the Internet An Internet application (an application layer software) The Web 9

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WWW (Web) is A large-scale, on-line repository of information that users can search using interactive application program called a browser Interactive program that permits a user to view multimedia information as a Web document, including hyperlinks to other Web documents 10

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World Wide Web (WWW) An Application that runs on the Internet A Global network of web documents Web Documents (HTML) Located by URLs Hyperlinks Inventor of the Web Sir Tim Berners-Lee (1990) (but Internet dates back to 1960s) 11

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12/24/2011IT Conf. 2011, SOCIT Innovations12 A Snapshot of the WWW (just 20 yrs old!)

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What happens when you click a Link ? You get a Web page simple That simple ?? Lets watch a Movie ! Warriors of the Net

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Bio-Medical Web Applications Web Technologies For Bio-Medical Applications Online Resources Online Software and Services

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Biomedical Search Engine

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Bio-Medical Web Technologies WIRM (Web Interfacing Repository Manager) Application server for developing web information systems Interfaces for visualizing, integrating and analyzing heterogeneous multimedia data WIRM in action MyPACS: A medical image management system for radiologists. MyPACS Brain Mapper: An experiment management system for neuroscience research laboratories. Brain Mapper Ontolog: A navigation interface for hierarchical structured vocabularies. Ontolog Digital Anatomist Repository: An image archiving system for medical schools. Digital Anatomist Repository Fathom: tools for facilitating natural language processing of clinical reports. Fathom

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Free CMMS (Computerized Maintenance Management System )

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Healthcare EAM (Enterprise Asset Management)

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Online Bio-Medical Resources Library collections Databases Catalogs Taxonomies Search engines Online services

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Mobiles and Tablet devices

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Nepali App

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What is Web 2.0? Web 2.0 involves User Participation A Social Web User-generated contents Harness Collective Intelligence Rich Internet applications (RIA) Rich user experience Web services, Mash-ups RSS, Google maps, multimedia embedding, etc

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Blogs

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Wiki Wikis

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Social Networking

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Social Media multimedia sharing

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Social Bookmarking

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Tagging - folksonomy Tag Cloud

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Information Sharing Information publishing Understandable meaning Information dissemination Shared information Better utilization Increased value Shared information put together Valuable knowledge 56

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Open Data on the Web 57 Open Data Anyone is free to use, reuse, and redistribute Linked Open Data (LOD) Publishing and interlinking structured data on the WWW http://linkeddata.org/

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Linked Open Data Rating - Available on the web (whatever format), but with an open licence - Available as machine-readable structured data (e.g. excel instead of image scan of a table) - Non-proprietary format (e.g. CSV instead of excel) - All the above plus, Use open standards from W3C (RDF) to identify things - All the above, plus: Link your data to other peoples data (Berners-Lee, 2010) 58

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http://www.data.gov 59

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60 APPS SHOWCASE

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63 2010 Linking Open Data cloud diagram, by Richard Cyganiak and Anja Jentzsch. http://lod-cloud.net/

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Thank You! Enjoy your work Enjoy the Web !