Remove/Identify pseudogenes from a list of Entrez IDs programatically

Question

[salamandra]

If one has a list of Entrez IDs, how to identify programmatically those that are pseudogenes in order to remove them from the list and keep only those IDs corresponding to genes?

Answer 1

[Ashutosh Pandey]

You can download the Gene Info file for your organism of interest from here ftp://ftp.ncbi.nih.gov/gene/DATA/GENE_INFO/

ftp://ftp.ncbi.nih.gov/gene/README (column definitions, go to gene_info)

Second and tenth columns represent "gene id" and "type of gene". You will have to write a small script.

[salamandra]

Thank you!

Do you know if there's a similar way of identifying deprecated Entrez IDs and replace old IDs by the corresponding new ones?