Results 11 to 20 of about 37,620 (216)

Hayai-Annotation: A functional gene prediction tool that integrates orthologs and gene ontology for network analysis in plant species

Computational and Structural Biotechnology Journal
Hayai-Annotation, an annotation tool powered by the R-shinydashboard browser interface, implements a workflow that integrates sequence alignment using DIAMOND against UniProtKB Plants and ortholog inference using OrthoLoger. We here propose a pipeline to
Andrea Ghelfi, Sachiko Isobe
doaj   +3 more sources

Student biocuration projects as a learning environment [version 2; peer review: 2 approved]

F1000Research, 2022
Background: Bioinformatics is becoming an essential tool for the majority of biological and biomedical researchers. Although bioinformatics data is exploited by academic and industrial researchers, limited focus is on teaching this area to undergraduates,
Ruth C. Lovering, Katherine E. Thurlow, Sandra De Miranda Pinheiro   +2 more
doaj   +1 more source

Capturing heart valve development with Gene Ontology

Frontiers in Genetics, 2023
Introduction: The normal development of all heart valves requires highly coordinated signaling pathways and downstream mediators. While genomic variants can be responsible for congenital valve disease, environmental factors can also play a role. Later in
Saadullah H. Ahmed, Alexander T. Deng, Rachael P. Huntley, Nancy H. Campbell, Ruth C. Lovering   +4 more
doaj   +1 more source

GOing Forward With the Cardiac Conduction System Using Gene Ontology

Frontiers in Genetics, 2022
The cardiac conduction system (CCS) comprises critical components responsible for the initiation, propagation, and coordination of the action potential. Aberrant CCS development can cause conduction abnormalities, including sick sinus syndrome, accessory
Kan Yan Chloe Li, Kan Yan Chloe Li, Andrew C Cook, Ruth C Lovering   +3 more
doaj   +1 more source

Insights into Online microRNA Bioinformatics Tools

Non-Coding RNA, 2023
MicroRNAs (miRNAs) are members of the small non-coding RNA family regulating gene expression at the post-transcriptional level. MiRNAs have been found to have critical roles in various biological and pathological processes.
Diana Luna Buitrago, Ruth C. Lovering, Andrea Caporali   +2 more
doaj   +1 more source

A gene wiki for community annotation of gene function. [PDF]

PLoS Biology, 2008
Jon W Huss, Camilo Orozco, James Goodale, Chunlei Wu, Serge Batalov, Tim J Vickers, Faramarz Valafar, Andrew I Su   +7 more
doaj   +3 more sources

Manual Annotation Studio (MAS): a collaborative platform for manual functional annotation of viral and microbial genomes

BMC Genomics, 2021
Background Functional genome annotation is the process of labelling functional genomic regions with descriptive information. Manual curation can produce higher quality genome annotations than fully automated methods.
Matthew R. Lueder, Regina Z. Cer, Miles Patrick, Logan J. Voegtly, Kyle A. Long, Gregory K. Rice, Kimberly A. Bishop-Lilly   +6 more
doaj   +1 more source

PINOT: an intuitive resource for integrating protein-protein interactions

Cell Communication and Signaling, 2020
Background The past decade has seen the rise of omics data for the understanding of biological systems in health and disease. This wealth of information includes protein-protein interaction (PPI) data derived from both low- and high-throughput assays ...
James E. Tomkins, Raffaele Ferrari, Nikoleta Vavouraki, John Hardy, Ruth C. Lovering, Patrick A. Lewis, Liam J. McGuffin, Claudia Manzoni   +7 more
doaj   +1 more source

Exploiting proteomic data for genome annotation and gene model validation in Aspergillus niger [PDF]

, 2009
Background Proteomic data is a potentially rich, but arguably unexploited, data source for genome annotation. Peptide identifications from tandem mass spectrometry provide prima facie evidence for gene predictions and can discriminate over a set of ...
Simon J Gaskell, Francis-McIntyre, Sue, Gaskell, Simon J., Sue Francis-McIntyre, Sugden Deana, Wright, JC, Robert J Beynon, James C Wright, Baker, Scott E., Beynon, RJ, Wright James C, Riba-Garcia Isabel, Gaskell, SJ, Igor V Grigoriev, Simon J Hubbard, Scott E Baker, Francis-McIntyre, S, Hubbard Simon J, Riba Garcia, Isabel, Wright, James C., Sugden, D, Riba-Garcia, I, Sugden, Deana, Hubbard, Simon J.; id_orcid, Hubbard, SJ, Grigoriev Igor V, Gaskell Simon J, Baker Scott E, Isabel Riba-Garcia, Grigoriev, IV, Beynon, Robert J., Deana Sugden, Baker, SE, Beynon Robert J, Grigoriev, Igor V., Francis-McIntyre Sue   +35 more
core   +1 more source

Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data. [PDF]

PLoS ONE, 2015
Gene model annotations are important community resources that ensure comparability and reproducibility of analyses and are typically the first step for functional annotation of genomic regions.
Vimal Rawat, Ahmed Abdelsamad, Björn Pietzenuk, Danelle K Seymour, Daniel Koenig, Detlef Weigel, Ales Pecinka, Korbinian Schneeberger   +7 more
doaj   +1 more source