Repertoire-wide gene structure analyses: a case study comparing automatically predicted and manually annotated gene models [PDF]
BMC Genomics, 2019 Background The location and modular structure of eukaryotic protein-coding genes in genomic sequences can be automatically predicted by gene annotation algorithms.
Jeanne Wilbrandt +3 more
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Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data [PDF]
BMC Bioinformatics, 2007 Background The wide use of Affymetrix microarray in broadened fields of biological research has made the probeset annotation an important issue. Standard Affymetrix probeset annotation is at gene level, i.e.
Tu Kang +5 more
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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 +4 more
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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 +3 more
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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 +2 more
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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 +6 more
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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 +7 more
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Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-seq and ESTs [PDF]
, 2013 The reference annotations made for a genome sequence provide the framework for all subsequent analyses of the genome. Correct annotation is particularly important when interpreting the results of RNA-seq experiments where short sequence reads are mapped ...
A Derti +52 more
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In silico Gene Characterization and biological annotation of Aspergillus niger CBS 513.88 [PDF]
, 2011 Genome annotation is the process of estimation of biological features from genomic data. The target of a genome annotation is to identify the key features of the genome sequence particularly, the genes and gene products.
Anuraj Nayarisseri +5 more
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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 +7 more
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