MapAffil: A bibliographic tool for mapping author affiliation strings to cities and their geocodes worldwide

Torvik, Vetle I.

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https://hdl.handle.net/2142/88323 Copy

Description

Title

MapAffil: A bibliographic tool for mapping author affiliation strings to cities and their geocodes worldwide

Author(s)

Torvik, Vetle I.

Issue Date

2015

Keyword(s)

PubMed, MEDLINE, digital libraries, bibliographic databases, author affiliations, geographic indexing, place name ambiguity, geoparsing, geocoding, toponym extraction, toponym resolution

Abstract

Bibliographic records often contain author affiliations as free-form text strings. Ideally one would be able to automatically identify all affiliations referring to any particular country or city such as Saint Petersburg, Russia. That introduces several major linguistic challenges. For example, Saint Petersburg is ambiguous (it refers to multiple cities worldwide and can be part of a street address) and it has spelling variants (e.g., St. Petersburg, Sankt-Peterburg, and Leningrad, USSR). We have designed an algorithm that attempts to solve these types of problems. Key components of the algorithm include a set of 24k extracted city, state, and country names (and their variants plus geocodes) for candidate look-up, and a set of 1.1M extracted word n-grams, each pointing to a unique country (or a US state) for disambiguation. When applied to a collection of 12.7M affiliation strings listed in PubMed, ambiguity remained unresolved for only 0.1%. For the 4.2M mappings to the USA, 97.7% were complete (included a city), 1.8% included a state but not a city, and 0.4% did not include a state. A random sample of 300 manually inspected cases yielded six incompletes, none incorrect, and one unresolved ambiguity. The remaining 293 (97.7%) cases were unambiguously mapped to the correct cities, better than all of the existing tools tested: GoPubMed got 279 (93.0%) and GeoMaker got 274 (91.3%) while MediaMeter CLIFF and Google Maps did worse. In summary, we find that incorrect assignments and unresolved ambiguities are rare (< 1%). The incompleteness rate is about 2%, mostly due to a lack of information, e.g. the affiliation simply says “University of Illinois” which can refer to one of five different campuses. A search interface called MapAffil is available from http://abel.lis.illinois.edu/; the full PubMed affiliation dataset and batch processing is available upon request. The longitude and latitude of the geographical city-center is displayed when a city is identified. This not only helps improve geographic information retrieval but also enables global bibliometric studies of proximity, mobility, and other geo-linked data.

Type of Resource

text

Permalink

http://hdl.handle.net/2142/88323

Sponsor(s)/Grant Number(s)

NIH P01AG039347; NSF 1348742

Copyright and License Information

This is a preprint of an article to appear in D-Lib Magazine.

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