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SNP Information on the Web

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SNP Information on the Web

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    1. SNP Information on the Web A Short Introduction to HapMap, dbSNP, and Perlegen

    2. SNPs on the Internet Easy to look up SNPs in genes SNP distribution varies Viewers allow zooming in and out on regions with SNPs Data broken up by population Raw genotype data available Calculated haplotype frequencies and other data also available

    3. HapMap menu

    4. HapMap Options Annotate LD Plot: look at position of SNPs in and around genes on a particular chromosome Annotate Phased Haplotype Display: visual representation of phased haplotypes Download SNP Genotype Data: raw genotype data Other options as well

    5. HapMap LD Plot SCN5A, scale is 200kbp, Annotate LD Plot optionSCN5A, scale is 200kbp, Annotate LD Plot option

    6. Another example 65kbp65kbp

    7. Yet Another Example 7kbp, KCNE27kbp, KCNE2

    8. Phased Haplotype Option

    9. SNP Genotype Data rs1805121 A/G chr7 150086437 - ncbi_B35 broad urn:LSID:illumina.hapmap.org:Protocol:Golden_Gate_1.0.0:1 urn:LSID:wicgr.hapmap.org:Assay:377179:1 urn:lsid:dcc.hapmap.org:Panel:CEPH-30-trios:1 QC+ AG GG AG AG AA GG AG AA AA AA AA AG AG GG GG AG AG GG AG AG AA AA AG AG AA AG AA AA AA AA AG AA AG AA AA GG AG AA AA AG AA AG AA NN AA AG AA AA AA AG AG AA AG AA AA AG AG AG AG AG GG AG AG AG AA AG AG GG AA AG AG AA GG AG AG AA GG AA AG GG GG GG AA AG GG AG AA AG AA GG rs10236214 C/T chr7 150105718 + ncbi_B35 broad urn:LSID:illumina.hapmap.org:Protocol:Golden_Gate_1.0.0:1 urn:LSID:wicgr.hapmap.org:Assay:512679:1 urn:lsid:dcc.hapmap.org:Panel:CEPH-30-trios:1 QC+ CT TT TT CT TT TT TT CT CT CT CT CT TT TT CT CT CT TT CT CT CT CC CT CT CT TT CT TT CC CC TT CT CT TT CC TT CT CT TT CT CC CT CT TT CC CT CC TT CC CT CT CC TT CC CC CT CT CT CT CT TT CT CT TT CT CT TT TT TT CT CT CC TT CT CT CT TT CT TT TT TT TT CC TT TT CT CC TT CT TT

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