William A Baumgartner Jr
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Explore the profile of William A Baumgartner Jr including associated specialties, affiliations and a list of published articles.
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27
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819
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Recent Articles
1.
Callahan T, Tripodi I, Stefanski A, Cappelletti L, Taneja S, Wyrwa J, et al.
Sci Data
. 2024 Apr;
11(1):363.
PMID: 38605048
Translational research requires data at multiple scales of biological organization. Advancements in sequencing and multi-omics technologies have increased the availability of these data, but researchers face significant integration challenges. Knowledge...
2.
Callahan T, Stefanski A, Wyrwa J, Zeng C, Ostropolets A, Banda J, et al.
NPJ Digit Med
. 2023 May;
6(1):89.
PMID: 37208468
Common data models solve many challenges of standardizing electronic health record (EHR) data but are unable to semantically integrate all of the resources needed for deep phenotyping. Open Biological and...
3.
Boguslav M, Hailu N, Bada M, Baumgartner Jr W, Hunter L
BMC Bioinformatics
. 2021 Dec;
22(Suppl 1):598.
PMID: 34920707
Background: Automated assignment of specific ontology concepts to mentions in text is a critical task in biomedical natural language processing, and the subject of many open shared tasks. Although the...
4.
Cohen K, Baumgartner Jr W, Temnikova I
LREC Int Conf Lang Resour Eval
. 2018 Mar;
2016:2784-2788.
PMID: 29568820
This paper reports SuperCAT, a corpus analysis toolkit. It is a radical extension of SubCAT, the Sublanguage Corpus Analysis Toolkit, from sublanguage analysis to corpus analysis in general. The idea...
5.
Temnikova I, Baumgartner Jr W, Hailu N, Nikolova I, McEnery T, Kilgarriff A, et al.
LREC Int Conf Lang Resour Eval
. 2018 Mar;
2014:1714-1718.
PMID: 29568819
Sublanguages are varieties of language that form "subsets" of the general language, typically exhibiting particular types of lexical, semantic, and other restrictions and deviance. SubCAT, the Sublanguage Corpus Analysis Toolkit,...
6.
Cohen K, Lanfranchi A, Choi M, Bada M, Baumgartner Jr W, Panteleyeva N, et al.
BMC Bioinformatics
. 2017 Aug;
18(1):372.
PMID: 28818042
Background: Coreference resolution is the task of finding strings in text that have the same referent as other strings. Failures of coreference resolution are a common cause of false negatives...
7.
Cohen K, Verspoor K, Johnson H, Roeder C, Ogren P, Baumgartner Jr W, et al.
Comput Intell
. 2015 May;
27(4):681-701.
PMID: 25937701
We approached the problems of event detection, argument identification, and negation and speculation detection in the BioNLP'09 information extraction challenge through concept recognition and analysis. Our methodology involved using the...
8.
Livingston K, Bada M, Baumgartner Jr W, Hunter L
BMC Bioinformatics
. 2015 Apr;
16:126.
PMID: 25903923
Background: The ability to query many independent biological databases using a common ontology-based semantic model would facilitate deeper integration and more effective utilization of these diverse and rapidly growing resources....
9.
Verspoor K, Cohen K, Lanfranchi A, Warner C, Johnson H, Roeder C, et al.
BMC Bioinformatics
. 2012 Aug;
13:207.
PMID: 22901054
Background: We introduce the linguistic annotation of a corpus of 97 full-text biomedical publications, known as the Colorado Richly Annotated Full Text (CRAFT) corpus. We further assess the performance of...
10.
Bada M, Eckert M, Evans D, Garcia K, Shipley K, Sitnikov D, et al.
BMC Bioinformatics
. 2012 Jul;
13:161.
PMID: 22776079
Background: Manually annotated corpora are critical for the training and evaluation of automated methods to identify concepts in biomedical text. Results: This paper presents the concept annotations of the Colorado...