Results 11 to 20 of about 2,932,261 (286)

ArrayXPath II: mapping and visualizing microarray gene-expression data with biomedical ontologies and integrated biological pathway resources using Scalable Vector Graphics [PDF]

Nucleic Acids Res., 2005
Summary: ArrayXPath () is a web-based service for mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics (SVG).
H.-J. Chung, C. H. Park, Man-Seok Han, Soo‐Youn Lee, Jungyoon Ohn, Jihoon Kim, Jihoon Kim, Junil Kim   +7 more
openalex   +2 more sources

OLS4: a new Ontology Lookup Service for a growing interdisciplinary knowledge ecosystem. [PDF]

Bioinformatics
The Ontology Lookup Service (OLS) is an open source search engine for ontologies which is used extensively in the bioinformatics and chemistry communities to annotate biological and biomedical data with ontology terms. Recently there has been a significant increase in the size and complexity of ontologies due to new scales of biological knowledge, such
McLaughlin J, Lagrimas J, Iqbal H, Parkinson H, Harmse H.   +4 more
europepmc   +2 more sources

Semantics in support of biodiversity knowledge discovery: an introduction to the biological collections ontology and related ontologies.

PLoS ONE, 2014
The study of biodiversity spans many disciplines and includes data pertaining to species distributions and abundances, genetic sequences, trait measurements, and ecological niches, complemented by information on collection and measurement protocols.
Ramona L Walls, John Deck, Robert Guralnick, Steve Baskauf, Reed Beaman, Stanley Blum, Shawn Bowers, Pier Luigi Buttigieg, Neil Davies, Dag Endresen, Maria Alejandra Gandolfo, Robert Hanner, Alyssa Janning, Leonard Krishtalka, Andréa Matsunaga, Peter Midford, Norman Morrison, Éamonn Ó Tuama, Mark Schildhauer, Barry Smith, Brian J Stucky, Andrea Thomer, John Wieczorek, Jamie Whitacre, John Wooley   +24 more
doaj   +2 more sources

simona: a comprehensive R package for semantic similarity analysis on bio-ontologies [PDF]

BMC Genomics
Background Bio-ontologies are keys in structuring complex biological information for effective data integration and knowledge representation. Semantic similarity analysis on bio-ontologies quantitatively assesses the degree of similarity between ...
Zuguang Gu
doaj   +2 more sources

MetNetGE: interactive views of biological networks and ontologies

BMC Bioinformatics, 2010
Background Linking high-throughput experimental data with biological networks is a key step for understanding complex biological systems. Currently, visualization tools for large metabolic networks often result in a dense web of connections that is ...
Jia Ming, Choi Suh-Yeon, Reiners Dirk, Wurtele Eve S, Dickerson Julie A   +4 more
doaj   +2 more sources

mulea: An R package for enrichment analysis using multiple ontologies and empirical false discovery rate [PDF]

BMC Bioinformatics
Traditional gene set enrichment analyses are typically limited to a few ontologies and do not account for the interdependence of gene sets or terms, resulting in overcorrected p-values.
Cezary Turek, Márton Ölbei, Tamás Stirling, Gergely Fekete, Ervin Tasnádi, Leila Gul, Balázs Bohár, Balázs Papp, Wiktor Jurkowski, Eszter Ari   +9 more
doaj   +2 more sources

Combining ontologies and workflows to design formal protocols for biological laboratories [PDF]

Automated Experimentation, 2010
BackgroundLaboratory protocols in life sciences tend to be written in natural language, with negative consequences on repeatability, distribution and automation of scientific experiments. Formalization of knowledge is becoming popular in science.
Alessandro Maccagnan, Mauro Riva, Erika Feltrin, Barbara Simionati, Tullio Vardanega, Giorgio Valle, Nicola Cannata   +6 more
openalex   +2 more sources

Physical properties of biological entities: an introduction to the ontology of physics for biology. [PDF]

PLoS ONE, 2011
As biomedical investigators strive to integrate data and analyses across spatiotemporal scales and biomedical domains, they have recognized the benefits of formalizing languages and terminologies via computational ontologies.
Daniel L Cook, Fred L Bookstein, John H Gennari   +2 more
doaj   +3 more sources

Hypothesis generation for rare and undiagnosed diseases through clustering and classifying time-versioned biological ontologies. [PDF]

PLoS One
Bradshaw MS, Gibbs C, Martin S, Firman T, Gaskell A, Fosdick B, Layer R.   +6 more
europepmc   +2 more sources

Correction: Mining Rare Associations between Biological Ontologies. [PDF]

PLoS ONE, 2014
doaj   +4 more sources