1 |
Haploviewwww.broad.mit.edu/mpg/haploview/ |
1) Provides computation of linkage disequilibrium statistics and population haplotype patterns from primary genotype data.
2) Uses genotypic file (.ped file & .info file) as input and performs LD plots for highly associated markers and other statistics for it; also provides haplotype blocks for highly associated markers and performs other complex statistics for it (association tests for the SNP markers).
3) Mainly a useful tool for visualizing Hapmap data. | Barrett JC, Fry B, Maller J, Daly MJ. Haploview: analysis and visualization of
LD and haplotype maps. Bioinformatics. 2005 Jan 15;21(2):263-5. Epub 2004 Aug 5.
PubMed PMID: 15297300.
| 2005 | 25 |
Freely downloadable |
2 |
dbSNPhttp://www.ncbi.nlm.nih.gov/projects/SNP/ |
A central repository for both single base nucleotide subsitutions and short deletion and insertion polymorphisms. | Sherry ST, Ward MH, Kholodov M, Baker J, Phan L, Smigielski EM, Sirotkin K.
dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001 Jan
1;29(1):308-11. PubMed PMID: 11125122.
| 2001 | 44 |
Online |
3 |
HapMaphttp://hapmap.ncbi.nlm.nih.gov/ |
Identifies and catalogs genetic similarities and differences in human beings and compares the genetic sequences of different individuals to find chromosomal regions where genetic variants are shared | International HapMap Consortium. The International HapMap Project. Nature.
2003 Dec 18;426(6968):789-96. PubMed PMID: 14685227.
| 2003 | 49 |
Online |
4 |
1000 Genomeshttp://www.1000genomes.org |
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