ipb biodiversity informatics (ipbiotics) -...

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Bogor Agricultural University

IPB BIODIVERSITY INFORMATICS (IPBIOTICS) Yeni Herdiyeni Computer Vision Research Group (CVRG) Dept. of Computer Science Bogor Agricultural University, Indonesia [email protected]

Southeast Asia International Joint Research and Training Program 2014


Outline •  IPB (Bogor Agricultural University) •  Indonesia Biodiversity

•  IPB Conservation and Germplasm Bank •  IPB Biodiversity Informatics (IPBiotics)

•  IPBiotics Research Projects

• A challenge biodiversity research


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Bogor Agricultural University www.ipb.ac.id

Bogor Agricultural University Southeast Asia International Joint Research and Training Program 2014

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Bogor Agricultural University Bogor Agricultural University (IPB), Indonesia www.ipb.ac.id

ENCHANCING UTILIZATION OF HERBAL MEDICINES

STRENGTHENING FOOD AND ENERGY SECURITY

•  Local resource-based food diversification

•  Bio-energy; •  Seed Technologies •  Gene/Germplasm Bank

•  Conservation and Domestication

•  Raw Material Improvement •  Product Development •  Community Empowerment

BIODIVERSITY RESOURCES

SCOPE & BASIC STRATEGY


Conservation International (CI) considers Indonesia to be one of 17 “mega-diversity” countries -- with two of the world’s 25 “hotspots. Although Indonesia covers only 1.3

percent of the earth’s land surface, it includes:

10 % of world’s flowering plant species

12 % of world’s mammals species

16 % of world’s reptile and amphibian species

17 % of world’s bird species

25 % of world’s fish species

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Biodiversity Informatics

Application of information technologies to manage biodiversity information, including data capture, storage, search, retrieval,

visualization, mapping, modeling, analysis and publication




• Species 2000 Catalogue of Life (CoL) • Biodiversity Information Standards (TDWG) • Global Biodiversity Information Facilities (GBIF)

• Encyclopedia of Life (EOL) • Consortium for the Barcode of Life (CBOL) • Biodiversity Heritage Library (BHL)

• Group on Earth Observation Biodiversity Observation Network (GEO BON)

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!


IPBIOTICS IPB Biodiversity Informatics This research project was funded by Directorate of General Higher Education, Ministry of Education, Republic of Indonesia (2013-2016)


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IPBiotics Research Project • Establishing IPB Biodiversity Informatics Infrastructure • MedLeaf: Medicinal Leaf Identification

•  IPBiotics for Integrated Pest Management System • Rice Crop Field Monitoring System

• Chemical Compound Estimation of Medicinal Leaf



Our Collaborators

Prof. Dr. Ir. Aunu Rauf, M.Sc Dept. of Plant Protection, IPB

Dr. Ir. Kikin H. Mutaqin Dept. of Plant Protection, IPB

Prof. Ervizal A.M Zuhud Dept. of Forest Conservation and Ecotourism

Prof. Hiroshi Okumura Saga University

Prof. Kohei Arai Saga University

Prof. Stephane Douady University of Paris Diderot Prof. Lilik B Prasetyo

Dept. of Forest Conservation and Ecotourism

Prof. Cam Webb Arboretum of Harvard University


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IPBiotics Infrastructure


Presentation Layer

Business/ Apllication Layer

Data Source

Biodiversity Data Access

IPBiotics

XML/RDF Data Access HTML Data Access

Services

……..

TDWG ITIS DiGIR ABCD

TDWG (Taxonomic Database

Working Group)

ITIS (Integrated Taxonomic

Information System)

DiGIR (Distributed Generic Information

Retrieval)

ABCD (Access to Biological

Collection Data)

Others… Biodiversity

data resources


Computer Vision Technology

Database

Expert System

Decision Support System

Remote Sensing Technology/GIS

Client On-site Person Server Client

Expert

IPBiotics: Interoperate IPBiotics Data

High Performance Computing


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Bogor Agricultural University Southeast Asia International Joint Research and Training Program 2014 http://apps.cs.ipb.ac.id/ipbioticsnew/


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Mobile application to acquire data


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Mobile application to acquire data



MEDLEAF Medicinal Leaf Identification: Mobile Application for Medicinal Leaf Identification based on image processing This research project was funded by Directorate of General Higher Education, Ministry of Education, Republic of Indonesia (2014-2017) International Research Collaboration between Dept. of Computer Science,IPB and Dept. UFR de Physique, University of Paris Diderot


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IPBiotics Project: Medleaf



Mission: Medicinal Plant Scouting

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MedLeaf : Medicinal Plant Identification Database



Medicinal Leaf Identification

Mobile Android Application

MedLeaf

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MedLeaf: Medicinal

Leaf Identification

Computer Vision Technology

MedLeaf


Medicinal Plants Documents Search Engine

MedLeaf

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Data Partision

Communication

Aglomeration

Computation

Communication

Parallel Computation for Medicinal Leaf Identification (2012-2013)


IPBIOTICS FOR INTEGRATED PEST MANAGEMENT SYSTEM

IPBiotics Projects This research project was funded by Directorate of General Higher Education, Ministry of Education, Republic of Indonesia


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IPBiotics Project: Plant Pest and Diseases Identification



Whitefly (Bemisia tabaci)


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IPBiotics Project: Plant Pest and Diseases Identification


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Citizen Scientist



Mobile Application

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Pest and Diseases Mapping

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A challenge to Biodiversity research Collaboration

• Establishing Biodiversity Informatics Infrastructure • Parallel Computation for Biodiversity Data Processing

• Semantic Analysis for biodiversity • Big data analytics

• Crowdsourcing data analysis

• ….. • Still many challenges ahead!



Thank You

Terima Kasih

Email : [email protected] Website: http://cs.ipb.ac.id/~cv