ppt (700Kb)

powerfultennesseeΒιοτεχνολογία

2 Οκτ 2013 (πριν από 3 χρόνια και 10 μήνες)

79 εμφανίσεις




Bioinformatics Development
in the Philippines




Rey Vincent P. Babilonia

Advanced Science and Technology Institute

Department of Science and Technology

PHILIPPINES

rvincent@asti.dost.gov.ph


Philippine e
-
Science Grid

Philippine e
-
Science Grid Program


Aims to establish a
grid infrastructure

in the
Philippines that will:


Enable
collaborative research

activities among
local
and regional educational and research institutions
,
and


Provide
distributed services

to
general users

such
as national institutions that will use the grid to
deliver
advanced services

Philippine e
-
Science Grid

Philippine e
-
Science Grid Program


Project 1:

Boosting Grid Computing Using





Reconfigurable Hardware
Technology


Project 2:

Developing a Federated Geospatial





Information System for
Hazard






Mapping and
Assessment


Project 3:

Boosting Social and Technological





Capabilities for Bioinformatics






Research

Project
3
:

Boosting Social and Technological
Capabilities for Bioinformatics
Research

(PBS)


Philippine e
-
Science Grid

Objectives


To enhance
local availability of bioinformatics
services


To contribute in improving
research output

of
local bioinformatics experts

Philippine e
-
Science Grid

Strategies


Provide
rapid access

to
major biological
sequences and structure database


Provide
web hosting service

for
bioinformatics
programs

to local researchers


Enhance the
expertise

of local researchers in
bioinformatics through
trainings

Philippine e
-
Science Grid

Deployment Status and Plans


Year 1


Build new
HPC facility


Install
BioBoost addons and software


Connect

with UP Diliman CSRC, IRRI and UP Los
Ba
ñ
os BIOTECH


Install
grid
-
accessible bioinformatics solutions


Develop
Web
-
based search engine and interface


Create
course materials


Conduct
capability building

for local researchers in
bioinformatics

Philippine e
-
Science Grid

Deployment Status and Plans


Year
1
(cont.)



Publish
paper


Mirror

major biological sequence and structure
databases


Year
2


Conduct
capability building

for local researchers in
bioinformatics


Deploy
3
D visualization facility


Publish
paper

Philippine e
-
Science Grid

Infrastructure


Network


PREGINET

for the grid


Gigabit ethernet

for the cluster


FPGA


BLAST


HMMER


Smith
-
Waterman


ClustalW


Genome Assembler

Philippine e
-
Science Grid

Services


Bio
-
Mirror node


>1TB data


http://bio
-
mirror.asti.dost.gov.ph

Philippine e
-
Science Grid

Services


S
-
Star node


http://s
-
star.asti.dost.gov.ph

Philippine e
-
Science Grid

Services


Collaborative Development Environment


http://smithy.psigrid.gov.ph

Philippine e
-
Science Grid

Services


GenBank Entry Retrieval Sytem


under development

Philippine e
-
Science Grid

Services


P2P Distribution of Biological Databases and
Software

Philippine e
-
Science Grid

User Communities


Bioinformatics


International Rice Research Institute


UP Los Ba
ñ
os BIOTECH


UP Diliman CSRC


Biomedical Imaging


Ateneo de Manila University

Philippine e
-
Science Grid

Researches


Application of bioinformatics to
microbial
biotechnology


Organization of protein and DNA databases of
microorganisms relevant to
food safety and
functional foods


Establishing a molecular marker database for
Actinomycetes relevant to
antibiotic production


Molecular and protein characterization of
commercially important
locally
-
isolated microbial
strains

held at the Philippine National Collection of
Microorganisms

Philippine e
-
Science Grid

Researches


Strain improvement of Bacillus sp. for
Xylanase
production


Development of recombinant Zymomonas mobilis
for conversion of
xylose to ethanol


Bioinformatic Analysis of Mycorrhizal Fungi and
Associated Microbial Communities in Different
Marginal Areas for the
Enhancement of Agricultural
and Forestry Productivity


Molecular Characterization and Identification of
Effective Bacterial Endophytes as
Bio
-
inoculant for
Papaya

Philippine e
-
Science Grid

Researches


Fingerprinting of nitrogen
-
fixing endophytic bacteria,
an inoculant for Jatropha curcas L. as
biodiesel
source


Data warehousing

of microbial information
databases


Rice and Climate Change Consortium


High
-
resolution regional climate modeling under
different climate change scenarios of Central
Luzon, Philippines

Philippine e
-
Science Grid

Issues


Funding


Human Resources


Information Dissemination

Thank you!