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Protein Functional Annotation by Homology
2008Genome sequencing projects have resulted in a rapid accumulation of predicted protein sequences. With experimentally verified information on protein function lagging far behind, computational methods are used for functional annotation of proteins. Here we describe a number of protocols for protein sequence and structure analysis that can be used to ...
Raja, Mazumder +2 more
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Pseudouridine Identification and Functional Annotation with PIANO
2023Pseudouridine (Ψ) is the first-discovered RNA modification abundantly present in many classes of RNAs, which plays a pivotal role in a series of biological processes. Accurately identifying the location of Ψ sites is helpful for relevant downstream researches.
Jiahui, Yao +4 more
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Automatic annotation of protein function
Current Opinion in Structural Biology, 2005The annotation of protein function at genomic scale is essential for day-to-day work in biology and for any systematic approach to the modeling of biological systems. Currently, functional annotation is essentially based on the expansion of the relatively small number of experimentally determined functions to large collections of proteins.
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2019
The deluge of sequencing data needs curated association of structural and functional features to each sequence in the database. Inference of correct annotation is a major problem of sequence analysis. We highlight why it is difficult to solve the annotation task given the little amount of validated information in the database linking sequences ...
Pier Luigi Martelli +2 more
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The deluge of sequencing data needs curated association of structural and functional features to each sequence in the database. Inference of correct annotation is a major problem of sequence analysis. We highlight why it is difficult to solve the annotation task given the little amount of validated information in the database linking sequences ...
Pier Luigi Martelli +2 more
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Resources for functional annotation
2008The continued success of genome sequencing projects has led to an explosion in the availability of sequence data. The Genomes On Line Database (GOLD) currently lists more than 2000 ongoing and completed genome projects, and this number is continuously increasing (Liolios et al. 2008).
A. J. Bridge +2 more
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Manual Gene Curation and Functional Annotation
2018No genome sequencing project is complete without structural and functional annotation. Gene models and functional predictions for these models can be obtained relatively easily using computational methods, but they are prone to errors. We describe herein the steps we use to manually curate gene models and functionally annotate them.
Erin, McDonnell +2 more
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Microarray Annotation and Biological Information on Function
Methods of Information in Medicine, 2005Summary Objectives: Many methods for statistical analysis of gene expression studies by DNA microarrays produce lists of genes as output. To understand gene lists in terms of traditional biology, e.g. which pathways may be affected, it is necessary to get appropriate annotations for the probes on an array.
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Functional Annotation in Metagenomics
Functional annotation in metagenomics plays a critical role in understanding microbial communities' functional potential, especially in disease contexts like Parkinson’s Disease (PD). This process involves identifying genes and proteins through sequence alignment, domain-based methods, enzyme classification, and emerging machine-learning techniques ...openaire +1 more source
Variant Annotation and Functional Prediction: SnpEff
2012Variant annotations, in general, refer to the process of information enrichment of genomic variants from a sequencing experiment. Typically these annotations include functional predictions, such as predicting the amino acid sequence changes from the DNA variant, predicting whether the variant will induce a splice anomaly, or predicting nonsense ...
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