Dcode.org: Tools Developed by the Research Group of Ivan Ovcharenko at the National Library of Medicine

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3-ECRs synteny blocks defined based on ECR Browser whole-genome ECRs.


Base genomeSecondary genomeNumber of synteny blocksDateSizeFile


File format: <location1> <length1> <location2> <length2> <numberOfECRs> <strand>

Synteny block definition:
First, all triplets of ECRs consecutively present in both species (two neighboring ECRs
were selected as consecutively located only if they were separated by <100kb in both
genomes) were extracted. These ECR triplets defined anchors of genome similarity and
then were used to construct long syntenic blocks by clustering ECR triplets together
using the 100kb threshold again. (Method originally described in
Ovcharenko et. al, Genome Research, (2005).)



NCBI DCODE.org Comparative Genomics Developments (www.dcode.org)