ALICE statistics

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Citations per year

Number of citations per year for the bioinformatics software tool ALICE

Tool usage distribution map

This map represents all the scientific publications referring to ALICE per scientific context
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ALICE specifications


Unique identifier OMICS_07935
Alternative name Abbreviation LIfter using Corpus-based Extraction
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained No


No version available


This tool is not maintained anymore.

Publication for Abbreviation LIfter using Corpus-based Extraction

ALICE citations


Privacy Aware Relevant Data Access with Semantically Enriched Search Queries for Untrusted Cloud Storage Services

PLoS One
PMCID: 5003394
PMID: 27571421
DOI: 10.1371/journal.pone.0161440

[…] Suppose the Daily News is a nationwide newspaper that provides coverage of national and international events. Alice is a subeditor working for the Daily News. She oversees the department that focuses on financial corruption. At any particular point in time, she is working on multiple cases. She has assigned e […]


Building Linked Open Data towards integration of biomedical scientific literature with DBpedia

J Biomed Semantics
PMCID: 3621846
PMID: 23497538
DOI: 10.1186/2041-1480-4-8

[…] often have difficulty in understanding papers that are outside their area of expertise partly because abbreviations are commonly used in those papers and polysemous ones appear frequently. We use the ALICE tool [] to extract pairs of abbreviations and their corresponding LFs from the entire MEDLINE database. Allie stores each pair with its associated PubMed IDs such that users can easily find its […]


Getting More Out of Biomedical Documents with GATE's Full Lifecycle Open Source Text Analytics

PLoS Comput Biol
PMCID: 3567135
PMID: 23408875
DOI: 10.1371/journal.pcbi.1002854

[…] breviation pairs using parameterisable regular expressions that generalise and extend the Schwartz-Hearst algorithm . In addition it uses a subset of the inner–outer selection rules described in the ALICE algorithm. Rather than simply extracting terms and their abbreviations, it annotates them in situ and adds the corresponding long-form and short-form text as features on each. In coreference mod […]


MBA: a literature mining system for extracting biomedical abbreviations

BMC Bioinformatics
PMCID: 2639376
PMID: 19134199
DOI: 10.1186/1471-2105-10-14

[…] d a regular expression algorithm based on hand-built regular expressions, and syntactic information was considered to identify boundaries of noun phrases. Ao and Takagi [] constructed a system called ALICE based on heuristic pattern-matching rules. Larkey et al. [], Yu et al. [], Park and Byrd [] all put forward their own pattern matching rules separately. The shortcoming for these rule based appr […]


A comparison study on algorithms of detecting long forms for short forms in biomedical text

BMC Bioinformatics
PMCID: 2217663
PMID: 18047706
DOI: 10.1186/1471-2105-8-S9-S5

[…] ms and resources used in the study. We used three systems in our comparison study in detecting LFs given novel text (indicated using "*"): i) a handcrafted pattern/rule based system by Ao and Takagi, ALICE, ii) a machine learning system by Chang et al., and iii) a simple alignment-based program by Schwartz and Hearst. Note that we did not include the collocation-based approach in the comparison st […]

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ALICE institution(s)
Department of Computational Biology, University of Tokyo, Kashiwanoha, Kashiwa-shi, Chiba, Japan

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