<p>I have to plot some MLPA data using circos and the idea is to focus on cytobands. Circos uses the cytobands as described by UCSC/Ensembl. Looking at some genes in GeneCards I found different cytoband locations for the same gene (e. g. SCN5A). Now, I want to compare Ensembl and Entrez Gene cytoband systems and see how the plots behave. I was unable to find a file/page/table similar to UCSC  goldenPath cytoBand at NCBI. Could someone point the direction, please? </p>

<p>Do these files from the NCBI MapView FTP site help?</p>

<pre><code>wget ftp://ftp.ncbi.nih.gov/genomes/MapView/Homo_sapiens/objects/BUILD.37.3/initial_release/ideogram_9606_GCF_000001305.13_400_V1
wget ftp://ftp.ncbi.nih.gov/genomes/MapView/Homo_sapiens/objects/BUILD.37.3/initial_release/ideogram_9606_GCF_000001305.13_550_V1
wget ftp://ftp.ncbi.nih.gov/genomes/MapView/Homo_sapiens/objects/BUILD.37.3/initial_release/ideogram_9606_GCF_000001305.13_850_V1

# examine contents
# head -5 ideogram_9606_GCF_000001305.13_400_V1

1    p    36.3    0    451    1    7200000    gneg    
1    p    36.2    451    682    7200000    16200000    gpos    100
1    p    36.1    682    1259    16200000    28000000    gneg    
1    p    35    1259    1583    28000000    34600000    gpos    100
1    p    34.3    1583    1779    34600000    40100000    gneg
</code></pre>
