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ALFRED: A Resource for Research and Teaching. http://alfred.med.yale.edu/. K. K. Kidd, H. Rajeevan, K.-H. Cheung 1 , S. Stein, U. Soundararajan, J. R. Kidd, A. J. Pakstis, and P. L. Miller 1

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alfred a resource for research and teaching

ALFRED: A Resource for Research and Teaching

http://alfred.med.yale.edu/

K. K. Kidd, H. Rajeevan, K.-H. Cheung1, S. Stein,

U. Soundararajan, J. R. Kidd, A. J. Pakstis, and P. L. Miller1

Dept. of Genetics and 1Center for Medical Informatics, Yale University School of Medicine, New Haven, CT, 06520-8005, USA.

Through 5/31/07 ALFRED is supported by the U.S. National Science Foundation

overview

Overview

ALFRED, the ALlele FREquency Database,

is a free, web-accessible, curated compilation of allele frequency data on DNA sequence polymorphisms in anthropologically defined human populations. ALFRED is an international resource for research and teaching in physical anthropology, human population genetics, and any other field that can benefit from easy access to data that are otherwise widely dispersed in the scientific literature.

alfred provides
ALFRED provides:
  • Over 89,000 frequency tables, and growing
    • Over 500 populations with descriptions and links
    • Over 3,700 sites typed for at least one population
  • A GIS-based map interface to view populations and frequency data geographically
  • Easy to use search options including keyword search, publication author search and ALFRED UID search.
  • Data that can be easily downloaded for analysis
  • Free ALFRED Newsletter on a regular basis when you register
face lift for description pages
Face Lift for Description Pages

Synonym(s) used in the keyword search

Display Options

*NEW* Data download options

polymorphism linked to recent and previous locus gene association
Polymorphism linked to recent and previous locus/gene association

Users can now locate polymorphisms that have “moved” in recent genome builds.

Polymorphism linked to its recent and previous locus association.

population information
Population Information

Synonym(s) used in the keyword search

View population on a geographic map

Links to additional population information

finding a locus gene
Finding a Locus/Gene
  • Search for a locus alphabetically when you don’t know on which chromosome it is located

Select the 1st letter of the desired Locus on the left

Then select your Locus from the alphabetical list displayed on the right

slide9
Search for a locus alphabetically when you do know on which chromosome it is located

Then select the desired locus from the alphabetical list

Select the chromosome on which your locus is located and click “A”

slide10
Search for a locus by chromosomal position

Then select the desired locus by its chromosomal position

Select the chromosome on which your locus is located and click “P”

educational material
Educational Material

A few starting points to help with classroom projects

Clickable snapshots of ALFRED

Continued on next slide

allele frequency data download in pml polymorphism markup language format
Allele frequency data download in PML (Polymorphism Markup Language) format

Polymorphism Information

Population Information

Sample Information

Allele frequency data

links available from pharmgkb to alfred
Links available from PharmGKB to ALFRED

This link takes you to the Locus information page in ALFRED

links available from dbsnp to alfred
Links available from dbSNP to ALFRED

Scroll down

Links take you to the Polymorphism information page in ALFRED

Scroll down

slide15
The ALFRED Team

Senior Faculty

Kenneth K. Kidd, Ph.D., Professor of Genetics and Psychiatry (ALFRED P.I.)

Perry Miller, M.D., Ph.D., Director of Center for Medical Informatics

Curators

Shannon Stein, B.S., Research Associate

Usha Soundararajan, M.S., Research Assistant

Programmer

Haseena Rajeevan, Ph.D., Systems Programmer

Consultants

Andrew J. Pakstis, Ph. D., Research Scientist

Judith R. Kidd, Ph. D., Research Scientist

Kei-Hoi Cheung, Ph. D., Assistant Professor

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