DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis
Само за регистроване кориснике
2020
Чланак у часопису (Објављена верзија)
Метаподаци
Приказ свих података о документуАпстракт
Although various tools for Gene Ontology (GO) term enrichment analysis are available, there is still room for improvement. Hence, we present DiNGO, a standalone application based on an open source code from BiNGO, a widely-used application to assess the overrepresentation of GO categories. Besides facilitating GO term enrichment analyses, DiNGO has been developed to allow for convenient Human Phenotype Ontology (HPO) term overrepresentation investigation. This is an important contribution considering the increasing interest in HPO in scientific research and its potential in clinical settings. DiNGO supports gene/protein identifier conversion and an automatic updating of GO and HPO annotation resources. Finally, DiNGO can rapidly process a large amount of data due to its multithread design.DiNGO is implemented in the JAVA language, and its source code, example datasets and instructions are available on GitHub: https://github.com/radoslav180/DiNGO. A pre-compiled jar file is available at...: https://www.vin.bg.ac.rs/180/tools/DiNGO.php.Supplementary data are available at Bioinformatics online.
Кључне речи:
tools / cytoscape / functional-analysisИзвор:
Bioinformatics, 2020, 36, 6, 1981-1982Финансирање / пројекти:
- Примена EIIP/ISM биоинформатичке платформе у откривању нових терапеутских таргета и потенцијалних терапеутских молекула (RS-MESTD-Basic Research (BR or ON)-173001)
DOI: 10.1093/bioinformatics/btz836
ISSN: 1367-4803
PubMed: 31702762
WoS: 000538696800062
Scopus: 2-s2.0-85091793725
Колекције
Институција/група
VinčaTY - JOUR AU - Davidović, Radoslav S. AU - Perović, Vladimir R. AU - Gemović, Branislava S. AU - Veljković, Nevena V. PY - 2020 UR - https://vinar.vin.bg.ac.rs/handle/123456789/9666 AB - Although various tools for Gene Ontology (GO) term enrichment analysis are available, there is still room for improvement. Hence, we present DiNGO, a standalone application based on an open source code from BiNGO, a widely-used application to assess the overrepresentation of GO categories. Besides facilitating GO term enrichment analyses, DiNGO has been developed to allow for convenient Human Phenotype Ontology (HPO) term overrepresentation investigation. This is an important contribution considering the increasing interest in HPO in scientific research and its potential in clinical settings. DiNGO supports gene/protein identifier conversion and an automatic updating of GO and HPO annotation resources. Finally, DiNGO can rapidly process a large amount of data due to its multithread design.DiNGO is implemented in the JAVA language, and its source code, example datasets and instructions are available on GitHub: https://github.com/radoslav180/DiNGO. A pre-compiled jar file is available at: https://www.vin.bg.ac.rs/180/tools/DiNGO.php.Supplementary data are available at Bioinformatics online. T2 - Bioinformatics T1 - DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis VL - 36 IS - 6 SP - 1981 EP - 1982 DO - 10.1093/bioinformatics/btz836 ER -
@article{ author = "Davidović, Radoslav S. and Perović, Vladimir R. and Gemović, Branislava S. and Veljković, Nevena V.", year = "2020", abstract = "Although various tools for Gene Ontology (GO) term enrichment analysis are available, there is still room for improvement. Hence, we present DiNGO, a standalone application based on an open source code from BiNGO, a widely-used application to assess the overrepresentation of GO categories. Besides facilitating GO term enrichment analyses, DiNGO has been developed to allow for convenient Human Phenotype Ontology (HPO) term overrepresentation investigation. This is an important contribution considering the increasing interest in HPO in scientific research and its potential in clinical settings. DiNGO supports gene/protein identifier conversion and an automatic updating of GO and HPO annotation resources. Finally, DiNGO can rapidly process a large amount of data due to its multithread design.DiNGO is implemented in the JAVA language, and its source code, example datasets and instructions are available on GitHub: https://github.com/radoslav180/DiNGO. A pre-compiled jar file is available at: https://www.vin.bg.ac.rs/180/tools/DiNGO.php.Supplementary data are available at Bioinformatics online.", journal = "Bioinformatics", title = "DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis", volume = "36", number = "6", pages = "1981-1982", doi = "10.1093/bioinformatics/btz836" }
Davidović, R. S., Perović, V. R., Gemović, B. S.,& Veljković, N. V.. (2020). DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis. in Bioinformatics, 36(6), 1981-1982. https://doi.org/10.1093/bioinformatics/btz836
Davidović RS, Perović VR, Gemović BS, Veljković NV. DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis. in Bioinformatics. 2020;36(6):1981-1982. doi:10.1093/bioinformatics/btz836 .
Davidović, Radoslav S., Perović, Vladimir R., Gemović, Branislava S., Veljković, Nevena V., "DiNGO: standalone application for Gene Ontology and Human Phenotype Ontology term enrichment analysis" in Bioinformatics, 36, no. 6 (2020):1981-1982, https://doi.org/10.1093/bioinformatics/btz836 . .