Biodiversity Information Service in China: The Architecture and Techniques

Transcription

1 Biodiversity Information Service in China: The Architecture and Techniques Experiences from the Construction of NSII Zheping Keping Ma,Haining Qin,Jinzhong Cui Institute of Botany, Chinese Academy of Sciences TDWG 2012 Conference, Oct. 25, 2012 NSII(National Specimen Information Infrastructure)

2 Outline Data Architecture Service

3 What is a Specimen (Occurrence) Data Time Scale: Fossil ---= Current Living life Geospatial Scale: Local => Regional =>Global=>Outside the planet (meteorite)

4 New Concept: EventGIS = Who + When + Where + What.

5 Primary Biodiversity Data (The GBIF Network) Biodiversity & Geo-diversity Class: Insecta Order: Lepidoptera Family: Pyralidae Taxonomy Synonym: Pyralis nubilalis Hübner, 1796 DNA Sequence Locus: AAL35331 Definition: acyl-coa Z/E11 desaturase Genus: Ostrinia Hübner, 1825 Vernacular (EN): European Corn-borer Vernacular (DE): Maiszünsler Vernacular (ES): Piral del maíz Vernacular (FR): Pyrale du maïs Family: Gramineae Foodplant: Zea mais L Species: Ostrinia nubilalis (Hübner, 1796) Image 1 mvpyattadg hpekdecfed... Description ( Cultural, Usage.) Diagnosis: Wingspan 26-30mm; sexually dimorphic;male: forewings ochreous to dark brown; female: forewings pale yellow; Literature Pheromones of Ostrinia /pheronet/phlist/ostrinia.html Distribution (Event, History) Collection: DGH Lepidoptera Record id: DGHEUR_ Country: France Coordinates: E N Date: 28 June 2003 Collector: Donald Hobern Climate Average Rainfall Location: N 2.29 E Jan Feb Mar Apr

6 Names Specimen Literature Images Observatory Community Trend: High quality Integration

7 Data Status (NSII) Sub-platform Data Types Main Records Plant platform Educational platform Plant specimens, names, books, distributions, authors, Plant specimen, animal specimen, some color photos 3.31 million specimen, 256 volume books, 2.52 million specimen, Animal platform animal specimen, 2.13 million specimen Protected Area platform Mineral & Rock platform Polar Sample platform Other cooperative websites Plant specimen, animal specimen, rocks, fossils, ores, minerals polar biology specimen, ice sample BHL China, Species 2000 China Node, several photo sites, DNA barcode 0.55 million 0.12 million 6,000 > 5 million self building records, 15,000 registered users

8 Plant Platform

9 Animal Platform

10 Educational Platform: Universities

11 Protected Area

12 Mineral & Rock

13 Polar Sample

14 Name Literature Photos Photos

15 Evolution of Data Small -- Big -- Simple & Visualization Scattered - Central - Thematic Static and single - Online and Linkage Managed by small team - By virtual professional team - High-Quality,Feedback, Crowdsourcing Metadata: none - Single Standard - Mashup Storage: ACCESS/EXCEL- MYSQL, SQL SERVER- SOLR - NoSQL

16 Architecture Cache LSID Evaluation High-Quality and the Control

17 All-in-one Design: NSII(National Specimen Information Infrastructure) Biodiversity AND Geodiversity >9 million specimens, 100+ institutes & universities NSII Global Regional National Thematic Local Plant Rock Supporting Database Education Animal Protected Area Polar DNA Barcode Literature Distribution Ecology (Habit) User & Communities

18 Service DAAS: Data-As-A-Service SAAS: Software-As-A-Service KAAS: Knowledge-As-A-Service

19 DAAS: Data-As-A-Service Query and download online Submit an application One Type - Multiple Types Data clean by the request Different ways to display data

20 DAAS: Data-As-A-Service Description Name Status Distribution Geological Taxon DNA Barcode References Habit (Ecology) Cultural & Usage

21 DAAS: Data-As-A-Service Achievement

22 SAAS: Software-As-A-Service

23 Use Tools and Functions

24 Integrated Species Page

25 Multimedia Analysis (When, Where, What) CBIR: Query and Identification (photos) Video Filter, analysis and Notification (Video Frames)

26 Literature data process Internet Archive ABBYY SDK Annotation & Term & Dictionary Hard Copy PDF (b/w) OCRed Text Structured Text User upload Citation Literature Name Status Description Distribution Habit Geological

27 Collection History of Dendrobium (Genus) from

28 Group Query Results on Map

29 Who + When + Where + What visual System

30 Modules of Drupal 7 Boost: cache most of static pages Entity: Flag: add to your favorite Og: groups and interested in some fields Pathauto: friendly to Spider and human Subscriptions: subscribe to even anything Token: User Points: ranks and permissions

31 Group & Permission

32 Subscription

33 Querying from Database VS SOLR Geological Time

34 KAAS: Knowledge-As-A-Service Identification Pilot Project in biodiversity research and informatics

35

36 Image Annotation and Identification Knowledge Base And need more Expert Experience

37 Biodiversity Information Service in China: The Architecture and Techniques Experiences from the Construction of NSII Zheping Keping Ma,Haining Qin,Jinzhong Cui Institute of Botany, Chinese Academy of Sciences TDWG 2012 Conference, Oct. 25, (under developing) NSII(National Specimen Information Infrastructure)