Is there any way to get all the human genes with their ENSG ID, ENSP ID, HGNC ID, and Entrez ID. Because while doing ID conversion I always fail to convert some of the IDs, either one or the other counterpart is missing, for which I have to manually search the database. Is there a way to make a comprehensive list of these genes with all these IDs in humans??????
Have a look at the international protein index (IPI) from EBI. They have prepared plain text files with gene cross references to many resources. For some reason the link to the ftp site seems to be broken but as soon as you find the right one you may find the file you are looking for