In a previous post, I started to discuss about Web Services in Life Science and what a maze it is to navigate between them.
Some Web Services provides Python code to access to their databases but not all of them. Besides the proposed code may be just a subset of what you need or simply not homogeneous.
I wrote a Python package called BioServices (with the help of other people; see link below) that allows an easy access to some major Web Services including uniprot, kegg, psicquic.
If you are interested, please visit the main page hosted on Pypi: https://pypi.python.org/pypi/bioservices/
As an example, here is an example on how to access to the uniprot web services to retrieve the unique identifier of a protein known by its gene name (MEK1) only:
>>> from bioservices import UniProt >>> u = UniProt() >>> d = u.quick_search("MEK1+and+taxonomy:human", limit=5) >>> for entry in d.keys(): ... print("Entry name: %s, d[entry][Entry name"]) MP2K2_HUMAN MP2K1_HUMAN WNK2_HUMAN BIRC6_HUMAN MK03_HUMAN |
