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Course Schedule
3rd Training Course on Bioinformatics and
Functional Genomics Applied to Insect Vectors of Human Diseases
October 2-13, 2006
Week 1: Mon Tue Wed Thu Fri Sat Sun
Week 2: Mon Tue Wed Thu Fri Sat
Last Update :
October 12, 2006
First week
Day 1 : Monday October 2, 2006 |
Venue |
08.00-08.30 |
Registration (Participants and Observers) |
B301 |
08.30-09.00 |
Welcome remarks
Dean, Faculty of Science, Mahidol University |
09.00-10.00 |
Lecture: Bioinformatics and Functional Genomics and Beyond
Worachart Sirawaraporn |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: Genetic Modification of Insects of Medical Importance: Past, Present and Future
Marcelo Jacobs-Lorena |
B301 |
11.30-12.00 |
Faculty Tour (visiting Department of Biochemistry, Faculty Main Library, and Center for Bioinformatics and Applied Genomics (CBAG) |
|
12.00-13.00 |
Lunch |
CBAG |
13.00-13.30 |
Course Participant Introduction |
13.30-15.00 |
Lecture: NCBI Resources (I & II)
Chuong Huynh |
15.00-15.30 |
Coffee/Tea Break |
15.30-18.00 |
Workshop: NCBI Resources
Workshop: Cygwin and Software Installation
Chuong Huynh, Dinesh Gupta, Worachart Sirawaraporn |
18.00-21.00 |
Welcome Dinner
Sponsored by GE Healthcare Bio-Sciences (Thailand) Co.,Ltd. |
SamSen Villa Restuarant |
Top
Day 2 : Tuesday October 3, 2006 |
Venue |
09.00-10.00 |
Lecture: Insect Genomic I (Genome Mapping and Sequencing Projects)
Kitsos Louis |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: Insect Genomic II (Storing and Analyzing Data)
Kitsos Louis |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
CBAG |
13.00-15.00 |
Lecture/Workshop: Protein and Nucleic Acid Databases
Dinesh Gupta |
15.00-15.30 |
Coffee/Tea Break |
15.30-18.00 |
Workshop: Practical Session on Protein and Nucleic Acid Databases
Dinesh Gupta, Chuong Huynh, Jules Milgram, Worachart Sirawaraporn |
18.00-19.00 |
Q & A and Assign Readings |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 3 : Wednesday October 4, 2006 |
Venue |
09.00-10.00 |
Lecture: Molecular Approaches to the study of Plasmodium-Mosquito Interactions
Marcelo Jacobs-Lorena |
B301 |
10.00-10.30 |
Group Photo, Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: Transcriptome analysis of Anopheles and Plasmodium
George Dimopoulos |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
CBAG |
13.00-14.00 |
Lecture/Workshop: Mosquito Databases: From AnoBase to VectoBase
Kitsos Louis |
14.00-15.00 |
Lecture/Workshop: Microarrays Methodology and Analysis
George Dimopoulos |
15.00-15.30 |
Coffee/Tea Break |
15.30-16.30 |
Lecture/Workshop: Fundamental of Sequence Analysis
Chuong Huynh |
16.30-18.30 |
Lecture/Workshop: PlasmoDB, Anopheles Gene Plot and AnoBase
Jules Milgram, Dinesh Gupta |
18.30-19.00 |
Q & A and Self study |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 4 : Thursday October 5, 2006 |
Venue |
09.00-10.00 |
Lecture: Molecular Biology and Proteomics of the Mosquito Peritrophic Matrix
Marcelo Jacobs-Lorena |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: Applications of Microarrays in Vector Biology
George Dimopoulos |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
CBAG |
13.00-14.00 |
Lecture/Workshop: Local BLAST installation, BLAST & FASTA search
Chuong Huynh , Jules Milgram |
14.00-14.30 |
Coffee/Tea Break |
14.30-16.30 |
Lecture: Cygwiin Basics
Alan Durham |
16.30-17.30 |
Lecture/Workshop: PERL(I)
Alan Durham |
17.30-18.00 |
Q & A and Group Project Assignment and Reading Assignment |
| 18.00-19.00 |
Self-Study |
|
19.00-20.00 |
Dinner Time |
Hotel |
Top
Day 5 : Friday October 6, 2006 |
Venue |
09.00-10.00 |
Lecture: Insect Genomes and Possible Applications
Kitsos Louis |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: PERL Scripting (II)
Alan Durham |
B301 |
12.00-13.00 |
Lunch |
CBAG |
13.00-15.00 |
Lecture/Workshop: Primer Design and Applications
Worachart Sirawaraporn |
15.00-15.30 |
Coffee/Tea Break |
15.30-16.30 |
Recorded Lecture: Exploring 3D Molecular Structures Using NCBI Tools – A Field Guide
Erik Sayer |
16.30-18.00 |
Group Project (continue) |
18.00-18.30 |
Course Evaluation (First week) |
18.30-19.00 |
Q & A |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 6 : Saturday October 7, 2006
(Self Study and Reading Assignments) |
Top
Day 7: Sunday October 8, 2006
Free day |
Top
Second Week :
Day 8: Monday October 9, 2006 |
Venue |
09.00-10.00 |
Lecture: Introduction to Proteomics
Jianyong Li |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture/Workshop: PERL Scripting (III)
Alan Durham |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
Canteen |
13.00-15.00 |
Lecture/Workshop: Sequence Alignment and Algorithms
Jules Milgram |
CBAG |
15.00-15.30 |
Coffee/Tea Break |
15.30-18.30 |
Lecture/Workshop: Multiple Sequence Alignment
Jules Milgram |
18.30-19.00 |
Group Project and Self-study |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 9: Tuesday October10, 2006 |
Venue |
09.00-10.00 |
Lecture: Mass Spectrometry: applications in Proteomics
Jianyong Li |
B301 |
10.00-10.30 |
Group Photo, Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: PERL Scripting (IV)
Alan Durham |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
CBAG |
13.00-14.00 |
Lecture: Introduction to EMBOSS
Jules Milgram |
14.00-14.30 |
Coffee/Tea Break |
14.30-16.30 |
Lecture/Workshop: EMBOSS installation and sequence analysis using EMBOSS
Jules Milgram, Worachart Sirawaraporn |
16.30-19.00 |
Group Project and Self study |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 10: Wednesday October 11, 2006 |
Venue |
09.00-10.00 |
Lecture: Sample Preparation in Proteomic Studies
Jianyong Li |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-11.30 |
Lecture: PERL Scripting (V)
Alan Durham |
B301 |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
CBAG |
13.00-15.00 |
Lecture/Workshop: Construction of phylogenetic tree and analysis
Jules Milgram, Worachart Sirawaraporn |
15.00-15.30 |
Coffee/Tea Break |
15.30-16.30 |
Lecture/Workshop: Ensemble: Anopheles Genome Browser(I)
Jules Milgram |
16.30-18.00 |
Lecture/Workshop: Ensemble: Anopheles Genome Browser (II)
Jules Milgram |
18.00-19.00 |
Group Project, Q & A and Self Study |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 11: Thursday October 12, 2006 |
Venue |
09.00-10.00 |
Lecture: PERL Scripting (VI)
Alan Durham |
CBAG |
10.00-10.30 |
Coffee/Tea Break |
10.30-11.30 |
Lecture: PERL Scripting (VII)
Alan Durham |
11.30-12.00 |
Q & A |
12.00-13.00 |
Lunch |
13.00-15.00 |
Lecture: Molecular Phylogeny
Jules Milgram
Lecture/Workshop: Construction of phylogenetic tree and analysis
Jules Milgram |
15.00-15.30 |
Coffee/Tea Break |
15.30-18.30 |
Lecture/Workshop: Construction of phylogenetic tree and analysis (cont’n)
Jules Milgram, Chuong Huynh, Worachart Sirawaraporn |
18.30-19.00 |
Group Project & Self Study |
19.00-21.00 |
Dinner Time |
Hotel |
Top
Day 12: Friday October 13, 2006 |
Venue |
09.00-10.00 |
Writing a grant proposal
Worachart Sirawaraporn |
B301 |
10.00-10.30 |
Coffee/Tea Break |
Corridor B301 |
10.30-12.00 |
Group Project (continue) |
CBAG |
12.00-13.00 |
Lunch |
13.00-15.00 |
Group Project Presentation |
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 |
17.00-19.00 |
Farewell Party (sponsored by GE Healthcare, Amersham Biosciences (Thailand) Co.,Ltd.) |
Krua Krungthep |
Top
Day 13 : Saturday October 14, 2006
Hotel Check-Out (before noon) and Departure |
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