Course Schedule

2^nd Training Course on Bioinformatics and
Functional Genomics Applied to Insect Vectors of Human Diseases

Sponsored by UNICEF/UNDP/World Bank/ WHO Special Programme for Research and Training in Tropical Diseases (TDR)

September 19-30, 2005

Organized by
Center for Bioinformatics and Applied Genomics (CBAG) and
Center for Vectors and Vector-Borne Diseases (CVVD)
Faculty of Science, Mahidol University, Bangkok, Thailand

Week 1: Mon Tue Wed Thu Fri Sat Sun
Week 2: Mon Tue Wed Thu Fri Sat

Last Update : September 20, 2005

Day 1 : Monday 19 September 2005		Venue
08.30-09.00	Registration (Participants and Observers)	P114
09.00-09.15	Report from the Chair Worachart Sirawaraporn
09.15-09.30	Welcome remarks Deputy Dean, Faculty of Science, Mahidol University
09.30-10.00	Lecture: Bioinformatics and Functional Genomics and Beyond Worachart Sirawaraporn
10.00-10.30	Coffee/Tea Break	P115
10.30-11.30	Lecture: Genetic Modification of Insects of Medical Importance: Past, Present and Future Marcelo Jacobs-Lorena	P114
11.30-12.00	Faculty Tour
12.00-13.00	Lunch	Canteen
13.00-13.30	Course Participant Introduction	CBAG
13.30-14.30	Lecture/Workshop: NCBI Resources (I) Chuong Huynh, Hidayat Trimarsanto, Worachart Sirawaraporn, Worapol Ratanachuen
14.30-15.00	Coffee/Tea Break
15.00-17.00	Lecture/Workshop: NCBI Resources (II) Chuong Huynh, Hidayat Trimarsanto, Worachart Sirawaraporn, Worapol Ratanachuen
17.00-18.00	Lecture/Workshop: Networking Concepts and Software Installation Chuong Huynh, Hidayat Trimarsanto, Worachart Sirawaraporn, Worapol Ratanachuen
19.00-21.00	Welcome Dinner* Sponsored by GE Healthcare, Amersham Biosciences ( Thailand) Co.,Ltd .	Riverbar Cafe

* Bus leaves for Riverbar Cafe at 18.00 in front of CBAG.

Day 2 : Tuesday 20 September, 2005		Venue
09.00-10.00	Lecture: Molecular approaches to improve control of vector-borne diseases Kitsos Louis	P114
10.00-10.30	Coffee/Tea Break	P115
10.30-11.30	Lecture: Transcriptome analysis of Anopheles and Plasmodium George Dimopoulos	P114
11.30-12.00	Q & A	P114
12.00-13.00	Lunch	Canteen
13.00-15.00	Lecture/Workshop: Anobase: Overview and Hands-on Exercises Kitsos Louis	CBAG
15.00-15.30	Coffee/Tea Break
15.30-18.00	Lecture/Workshop: Insect Genomics I: Sequencing their genomes Kitsos Louis
18.00-19.00	Q & A and Assign Readings
19.00-21.00	Dinner Time	Hotel

Day 3 : Wednesday 21 September, 2005		Venue
09.00-10.00	Lecture: Molecular Approaches to the study of Plasmodium-Mosquito Interactions Marcelo Jacobs-Lorena	P114
10.00-10.30	Group Photo, Coffee/Tea Break	P115
10.30-11.30	Lecture: From Anobase to VectoBase: An Overview Kitsos Louis	P114
11.30-12.00	Q & A	P114
12.00-13.00	Lunch	Canteen
13.00-15.00	Lecture/Workshop: Insect Genomics II: Vector Databases and Beyond Kitsos Louis	CBAG
15.00-15.30	Coffee/Tea Break
15.30-17.00	Lecture/Workshop: ENSEMBL: a primer for its use Kitsos Louis
17.00-18.30	Lecture/Workshop: Microarrays Methodology and Analysis George Dimopoulos
18.30-19.00	Q & A and Self study
19.00-21.00	Dinner Time	Hotel

Day 4 : Thursday 22 September, 2005		Venue
09.00-10.00	Lecture: Molecular Biology and Proteomics of the Mosquito Peritrophic Matrix Marcelo Jacobs-Lorena	P114
10.00-10.30	Coffee/Tea Break	P115
10.30-11.30	Lecture/Workshop: Applications of Microarrays in Vector Biology George Dimopoulos	P114
11.30-12.00	Q & A	P114
12.00-13.00	Lunch	Canteen
13.00-14.00	Lecture: NCBI Genome Workbench Chuong Huynh	CBAG
15.00-15.30	Coffee/Tea Break
15.30-17.30	Lecture/Workshop: Protein and Nucleic Acid Databases Chuong Huynh , Hidayat Trimarsanto, Worachart Sirawaraporn
17.30-18.30	Workshop: Exploring Protein and Nucleic Acid Databases Chuong Huynh, Hidayat Trimarsanto, Worachart Sirawaraporn
18.30-19.00	Q & A and Self-study
19.00-20.00	Dinner Time	Hotel

Day 5 : Friday 23 September, 2005

Venue

09.00-10.00
Special Topic: Grant Proposal Writing
      Beth Fisher

P114

10.00-10.30

Coffee/Tea Break

P115

10.30-12.00

Special Topic: Grant Proposal Writing (cont’n)
      Beth Fisher

P114

12.00-13.00

Lunch

Canteen

13.00-15.00

Lecture/Workshop: Fundamental of Sequence Analysis
      Chuong Huynh

CBAG

15.00-15.30

Coffee/Tea Break

15.30-17.00

Lecture/Workshop: Sequence Formats and Sequence Search Tools       Hidayat Trimarsanto, Worachart Sirawaraporn

17.00-18.30
Lecture/Workshop: BLAST & FASTA search
      Hidayat Trimarsanto, Worachart Sirawaraporn

18.30-19.00
Course Evaluation (First week)

19.00-21.00

Dinner Time

Hotel

Day 6 : Saturday 24 September, 2005
(Self Study and Assigned Readings)

Day 7: Sunday 25 September, 2005
(Free Day)

Day 8: Monday 26 September, 2005

Venue

09.00-10.00
Lecture/Workshop: PERL for Bioinformatics (I)
      Lim Kuan Sione

CBAG

10.00-10.30

Coffee/Tea Break

10.30-11.30
Lecture/Workshop: Introduction to EMBOSS
      Hidayat Trimarsanto

11.30-12.00
Q & A

12.00-13.00

Lunch

Canteen

13.00-14.00

Lecture/Workshop: PERL for Bioinformatics (II)
       Lim Kuan Sione

CBAG

14.00-15.00

Lecture/Workshop: PERL for Bioinformatics (III)
       Lim Kuan Sione

15.00-15.30

Coffee/Tea Break

15.30-18.30
Lecture/Workshop: PERL for Bioinformatics (IV, V)
      Lim Kuan Sione

18.30-19.00
Q&A and Self-study

19.00-21.00

Dinner Time

Hotel

Day 9: Tuesday 27 September, 2005

Venue

09.00-10.00
Lecture: Introduction to Proteomics
       Jianyong Li

P114

10.00-10.30

Group Photo, Coffee/Tea Break

P115

10.30-11.30

Lecture: Mass Spectrometry: applications in Proteomics
      Jianyong Li

P114

11.30-12.00
Q & A

12.00-13.00

Lunch
Canteen

13.00-15.00
Lecture/Workshop: EMBOSS installation and sequence analysis
      Hidayat Trimarsanto, Lim Kuan Sione, Chuong Huynh
CBAG

15.00-15.30

Coffee/Tea Break

15.30-18.30

Lecture/Workshop: PERL for Bioinformatics (VI, VII, VIII)
       Lim Kuan Sione

18.30-19.00
Q & A and Self study

19.00-21.00

Dinner Time

Hotel

Day 10: Wednesday 28 September, 2005

Venue

09.00-10.00
Lecture/Workshop: PERL for Bioinformatics (IX)
      Lim Kuan Sione

CBAG

10.00-10.30

Coffee/Tea Break

P115

10.30-11.30

Lecture/Workshop: Sequence Alignment and Algorithms
      Hidayat Trimarsanto

CBAG

11.30-12.00
Q & A

12.00-13.00

Lunch

Canteen

13.00-15.00

Lecture/Workshop: Hands-on Sequence Alignment
      Hidayat Trimarsanto, Chuong Huynh, Worachart Sirawaraporn

CBAG

15.00-15.30

Coffee/Tea Break

15.30-17.30

Review and Discuss: Sequence Alignment and Interpretation       Hidayat Trimarsanto, Chuong Huynh, Worachart Sirawaraporn

17.30-19.00
Self Study

19.00-21.00

Dinner Time

Hotel

Day 11: Thursday 29 September, 2005

Venue

09.00-10.00
Lecture: Applications of LC/MS/MS in protein identification and characterization of protein post-translational modification
      Jiangyong Li

P114

10.00-10.30

Coffee/Tea Break

P115

10.30-11.30

Lecture: Molecular Phylogeny
       Hidayat Trimarsanto

P114

11.30-12.00
Q & A

12.00-13.00

Lunch

Canteen

13.00-15.00

Lecture/Workshop: Construction of phylogenetic tree and analysis
       Hidayat Trimarsanto, Chuong Huynh, Worachart Sirawaraporn

CBAG

15.00-15.30

Coffee/Tea Break

15.30-18.30

Lecture/Workshop: Construction of phylogenetic tree and analysis (cont’n)
       Hidayat Trimarsanto , Chuong Huynh, Worachart Sirawaraporn

18.30-19.00
Self Study

19.00-21.00

Dinner Time

Hotel

Day 12: Friday 30 September, 2005

Venue

09.00-10.00

Lecture: Oligonucleotide: Design and Applications
       Worachart Sirawaraporn

P114

10.00-10.30

Coffee/Tea Break

P115

10.30-12.00
Lecture: TDR South-South Network
       Worachart Sirawaraporn
P114

12.00-13.00

Lunch

Canteen

13.00-14.30

Workshop: Hands-on oligonucleotide design
       Worachart Sirawaraporn

CBAG

14.30-15.00

Coffee/Tea Break

15.00-15.30
Overview of course CD content

15.30-16.00
Course Evaluation (second week)

16.00-17.00

Certificate and Closing

18.00-20.00

Farewell Party (sponsored by GE Healthcare, Amersham Biosciences (Thailand) Co.,Ltd.)

Ros-Sa-Bieng Restaurant

Day 13: Saturday 1 October, 2005
Hotel Check-Out (before noon) and Departure