GERMPLASM INFORMATION SYSTEMS AT CIAT

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• GERMPLASM INFORMATION SYSTEMS AT CIAT

Eng. Fernando Rojas
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AGENDA

• Germplasm Information Systems
• Another Data Repositories
• Unique Phenotypical Data Base
• BioInformatics

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GERMPLASM INFORMATION SYSTEM

• TECHNICAL ASPECTS
• OPERATING SYSTEM
• Unix (SOLARIS)
• - RDBMSs
• ORACLE 8i,9i SQLServer ACCESS MySQL
• PostGreSQL
• - Tools for Develop
• Developer/2000 Power Builder Visual
  Basic
• WEB (JAVA(jsp,servlets) ASP, PORTAL)

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GERMPLASM INFORMATION SYSTEM

• CROPS BEAN,CASSAVA,FORRAGES,RICE
• Environment
• - Oracle 9iDeveloper 6iSun/Solaris(UNIX)
• - Web Access
• Data
• - Crosses ,Advanced Lines, Core Collection
• - Evaluations Interaction Genotype-
  Environment
• - Many Trials diferent evaluation sites,
  Nurseries,
• - Shipments, Elite Clons, Selections

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ANOTHER DATA REPOSITORIES

• CROPS BEAN,CASSAVA,FORRAGES
• SINGER
• Environment
• - Oracle 9iSQLServerWindows 2000
• Data
• - Replication directly from ORACLE o.k
• - Passport Data Colectors and
  Colaborators
• - Taxonómic Information, Germplasm
  Interchange
• www.singer.cgiar.org

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ANOTHER DATA REPOSITORIES

• ICIS (International Crop Information Systems)
• IPHISIRIS IMSIS (?)
• Environment
• - Access/ORACLE Windows 2000,NT
• Data
• - Pedigree Data (GMS)
• - Genetic Resources Unit data
• - Characterization and Breeding Information
• WWW.ICIS.CGIAR.ORG

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ANOTHER DATA REPOSITORIES

• ACeDB BeanGenes, CassavaGenes
• Environment
• - Public SoftwareLinux,Aceweb,Xwindows
• Data
• - Maps, Locus, Sequences,Isozyme Sterase
  Bands.
• - Passport Data, Alelles, Sequences, Papers,
  Genetic Maps Images.
• - Microsatellites SSRY, Gys, rGys
• WWW.ACEDB.ORG

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ANOTHER REPOSITORY SOURCE
BEAN Environment - Oracle
9iDeveloper/2000 - Web Access Data -
Microsatellites, Scars, Rapds, - Gels, Images
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PHENOTYPICAL UNIQUE DATA BASE
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BIOINFORMATICS at CIAT

• Projects SB1SB2 (Agrobiodiversity and
  Biotechnology Project)
• Micro_Arrays Identificatión of functions of many
  Gens in one experiment in a big scale.
• Tissue Transformation Genetic Breeding
• Molecular Markers Genetic characterization, find
  wherer the genes and its functionality.
• Cryo Conservation Conservation of Materials to
  very low temperatures.

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BIOINFORMATICS at CIAT

• HARDWARE
• 2 servers GENE3 GENE4 with
• - Red Hat Linux 8.0
• - Pentium III Intel 1400 Mhz
• - RAM 2GB 1 GB
• - DISK65 GB 32 GB
• SOFTWARE
• - Public Domain
• - Open Source Software
• - Apache , MySql, PHP, PostgreSQL, Perl, Phyton

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SOFTWARE TOOLS FOR BIOINFORMATIC
Tools For Bioinformatic
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BIOINFORMATICS ISSUES

• Availability of the Data (Sharing, Security,
  Evolution)
• Results Reproducibility(Tbytes of Data,Storage)
• Speed processing big volumes of data(Response
  Time)
• Collaboration(Hw,Sw,Data,standards,Public Vs
  Private)
• Treatment of NEGATIVE information(Have some
  meaning? Tools of data Mining??)

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BIOINFORMATICS TRENDS

• GRID COMPUTING and GRID BIOLOGY ?
• Computation Resources geographically disperses
• - Processors - Memory
• - Disk - Software
• - Data
• CLUSTER OHIO http//www.osc.edu/hpc/cluster
• WEB SERVICES
• MOBY http//www.biomoby.org/