Course Information

  Summary
  Intended Audience
  Format
  Schedule
  Objectives
  Venue
  Application Form

Resources Used in the Course

  Entrez Gene
  Map Viewer
  BLAST
  COG
  OMIM
  RefSeq
  dbSNP
  LocusLink
  Spidey
  CDD
  GenScan
  ScanProsite
  MultAlin
  GeneMark
  PROSCAN
  Model Maker

Local Information

  NLM
  NIH
  Bethesda
  Montgomery County

About the instructor

Questions or Comments

 

   Course Summary

The National Center for Biotechnology Information (NCBI) presents NCBI 4-Pack: Practical Web-based Analysis, a 2-day course including both lectures/demonstrations and computer hands-on sessions on practical applications of bioinformatics resources.

Location: Lister Hill Center (Bldg 38A), NLM, NIH, Bethesda, MD

   Intended Audience

The course is intended for both researchers and educators. Researchers will learn how to apply NCBI resources to their research. The course will also provide four online bioinformatics modules for educational use.

   Course Format

The NCBI 4-Pack consists of four problem or resource based bioinformatics modules. The course will demonstrate the practical applications of NCBI resources such as BLAST and Map Viewer. In addition, it will demonstrate the integration of bioinformatics resources such as BLAST, Conserved Domain Database, dbSNP, and Online Mendelian Inheritance in Man to help solve a particular research problem. Each module consists of a live demonstration followed by a hands-on session to practice a similar problem. The course includes ample time for individual consultations on the third day and also includes a tour of NCBI computer facilities. NCBI will provide Windows 2000 laptops for the hands-on sessions.

   Course Objectives

During the course, participants will learn how to

  • Visualize and annotate 3D protein structures using NCBI's Cn3D.
  • Identify conserved domain(s) present in a protein.
  • Seach for other proteins containing similar domain(s).
  • Explore a 3D modeling template for the query protein.
  • Find distant sequence homologs that may not be identified by BLAST.
  • Use different BLAST programs such as blastn, blastp, tblastn effectively.
  • Limit your BLAST searches to make them more specific and understand the output.
  • Identify a disease gene using NCBI's human genome assembly.
  • Obtain information about a disease gene such as its sequence, exon-intron structure, and known single nucleotide polymorphisms.
  • Elucidate the biochemical and structural basis for the function of the mutant protein leading to a disease phenotype.

   Venue

 
The course will be held at the NCBI Training Center in the Lister Hill Center (Building 38A) of the National Library of Medicine on the main NIH campus in Bethesda, MD.
Directions to the National Library of Medicine
Participants will be responsible for their own transportation, lodging and meals, and there are numerous hotels in Bethesda, as well as in Rockville and surrounding areas of Montgomery County. Bethesda also contains a renowned variety of restaurants that are only a few minutes walk from campus.
Public transportation to the Medical Center Metro stop (Red Line) provides the most convenient access to NIH. See the Local Information links on the left bar of this page for more information.

   About the Instructor

Medha Bhagwat is a biologist on the User Services staff of the National Center for Biotechnology Information.

Revised March 12, 2008

Questions or Comments?
Write to Medha Bhagwat