ArticleBioinformatics (Oxford, England)2020
AnnoGen: annotating genome-wide pragmatic features.
Article in Bioinformatics (Oxford, England), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Mutation density analyses on long noncoding RNA reveal comparable patterns to protein-coding RNA and prognostic value.Computational and structural biotechnology journal · 2023Article
- Review on the Computational Genome Annotation of Sequences Obtained by Next-Generation Sequencing.Biology · 2020Review
- Non-canonical RNA-DNA differences and other human genomic features are enriched within very short tandem repeats.PLoS computational biology · 2020Article
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Authors and funding
8 authors.
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Abstract
motivationGenome annotation is an important step for all in-depth bioinformatics analysis. It is imperative to augment quantity and diversity of genome-wide annotation data for the latest reference genome to promote its adoption by ongoing and future impactful studies.
resultsWe developed a python toolkit AnnoGen, which at the first time, allows the annotation of three pragmatic genomic features for the GRCh38 genome in enormous base-wise quantities. The three features are chemical binding Energy, sequence information Entropy and Homology Score. The Homology Score is an exceptional feature that captures the genome-wide homology through single-base-offset tiling windows of 100 continual nucleotide bases. AnnoGen is capable of annotating the proprietary pragmatic features for variable user-interested genomic regions and optionally comparing two parallel sets of genomic regions. AnnoGen is characterized with simple utility modes and succinct HTML report of informative statistical tables and plots. AVAILABILITY AND IMPLEMENTATION: https://github.com/shengqh/annogen.
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