[Biopython] author affiliations in Entrez / Medline

[Iddo Friedberg]

Hi,

Does anyone know how to map author institutional affiliations in the Entrez
module? Since one author can have several affiliations in a paper, the
affiliations list can be longer than the author list, but there is no
one-to-many mappings of the authors to the affiliations that I could see
using Biopython?

See snippet below. Outputs are in boldface.

from Bio import Entrez, Medline
Entrez.email="my_email at myplace.com"
handle = Entrez.efetch(db="pubmed", id="37739408", rettype="medline",
retmode="text")
paper_list = list(Medline.parse(handle))
len(paper_list[0]['AD']) # of affiliations
*13*
len(paper_list[0]['FAU']) # of authors
*8*

paper_list[0]['FAU']
[*'Mahlich, Yannick', 'Zhu, Chengsheng', 'Chung, Henri', 'Velaga, Pavan K',
'De Paolis Kaluza, M Clara', 'Radivojac, Predrag', 'Friedberg, Iddo',
'Bromberg, Yana']*
paper_list[0]['AD']
[*'Department of Biochemistry and Microbiology, Rutgers University, 76
Lipman Dr, New Brunswick, NJ 08873, USA.', 'Department of Biochemistry and
Microbiology, Rutgers University, 76 Lipman Dr, New Brunswick, NJ 08873,
USA.', 'Xbiome Inc., 1 Broadway, 14th fl, Cambridge, MA 02142, USA.',
'Department of Veterinary Microbiology and Preventive Medicine, Iowa State
University, Ames, IA 50011, USA.', 'Interdepartmental program in
Bioinformatics and Computational Biology, Iowa State University, Ames, IA
50011, USA.', 'Department of Biochemistry and Microbiology, Rutgers
University, 76 Lipman Dr, New Brunswick, NJ 08873, USA.', 'Khoury College
of Computer Sciences, Northeastern University, 177 Huntington Avenue,
Boston, MA 02115, USA.', 'Khoury College of Computer Sciences, Northeastern
University, 177 Huntington Avenue, Boston, MA 02115, USA.', 'Department of
Veterinary Microbiology and Preventive Medicine, Iowa State University,
Ames, IA 50011, USA.', 'Interdepartmental program in Bioinformatics and
Computational Biology, Iowa State University, Ames, IA 50011, USA.',
'Department of Biochemistry and Microbiology, Rutgers University, 76 Lipman
Dr, New Brunswick, NJ 08873, USA.', 'Department of Biology, Emory
University, 1510 Clifton Road NE, Atlanta, GA 30322, USA.', 'Department of
Computer Science, Emory University, 400 Dowman Drive, Atlanta, GA 30322,
USA.']*


Thanks,

Iddo
-- 
Iddo Friedberg

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