Track Descriptions & Citations

Tracks Built into this Server

Ideogram
Cytogenetic chromosome bands. Annotations from the UCSC Genome Browser Database (cytoBand.txt.gz).

NT contigs
NT contigs created during the construction of the genome assembly. Annotations from the UCSC Genome Browser Database (ctgPos.txt.gz).

Genes/500Kb
Number of LocusLink genes per 500Kb window across chromosome. See LocusLink track description below.

gt'd SNPs/500Kb
Number of HapMap-genotyped SNPs per 500Kb window across chromosome. See Genotyped SNPs track description below.

dbSNP SNPs/500Kb
Number of SNPs available in the dbSNP database per 500Kb window across chromosome. See dbSNP SNPs track description below.

SNP cov/500Kb
SNP Discovery Coverage is the number of bases considered for SNP discovery within a window divided by the window size 500kb (data from Jim Mullikin, personal communication).

Heteroz/500Kb
Heterozygosity is the amount of variation seen in the SNP discovery sequence normalized by the number of bases considered for SNP discovery within a window of 500kb (data from Jim Mullikin, personal communication).

gt'd SNPs/20Kb
No additional information available.

dbSNP SNPs/20Kb
No additional information available.

LocusLink genes
LocusLink gene structures

(Mex) Genotyped SNPs
SNPs in dbSNP genotyped by INMEGEN in Mexican Mestizo Populations

(Int) Genotyped SNPs
SNPs in dbSNP genotyped by the HapMap Project (CEU, YRI, CHB, JPT) plus Mexican genotypes by INMEGEN (MEX)

dbSNP SNPs
Reference SNP clusters (rs

Entrez genes
mRNA sequences from NCBI's RefSeq resource. Annotations from the UCSC Genome Browser Database (refGene.txt.gz, refLink.txt.gz, refSeqSummary.txt.gz). Both RefSeq short descriptions and longer summaries (for annotated genes) are searchable, but only short descriptions are displayed alongside features.

Sequence Tagged Sites
Sequence Tagged Sites from NCBI's UniSTS repository. Annotations from the UCSC Genome Browser Database (refGene.txt.gz).

Recombination rate (cM/Mb)
Fine-scale recombination rates (cM/Mb) as estimated from Phase I HapMap data (release 16a) using the methods described in McVean et al. (2004) and Winckler et al. (2005). See README in /downloads/recombination/latest/ for details.

Recombination hotspots
Location of recombination hotspots as estimated from Phase I HapMap data (release 16a) using the methods described in McVean et al. (2004) and Winckler et al. (2005). See README in /downloads/recombination/latest/

SNP coverage/5Kb
SNP Discovery Coverage is the number of bases considered for SNP discovery within a window divided by the window size 5kb (data from Jim Mullikin, personal communication).

Heterozygosity/5Kb
Heterozygosity is the amount of variation seen in the SNP discovery sequence normalized by the number of bases considered for SNP discovery within a window of 5kb (data from Jim Mullikin, personal communication).

Contigs
NT contigs created during the construction of the genome assembly. Annotations from the UCSC Genome Browser Database (ctgPos.txt.gz).

3-frame translation (forward)
This track shows the position of stop codons at low magnifications, and the 3-frame translation at high magnifications. Only the forward strand is shown.

DNA/GC Content
No additional information available.

3-frame translation (reverse)
This track shows the position of stop codons at low magnifications, and the 3-frame translation at high magnifications. Only the reverse strand is shown.


Please send questions and comments on website to bioinfo@inmegen.gob.mx

Note: This page uses cookies to save and restore preference information. No information is shared.
Generic genome browser version 1.66