Discovery and Characterization of a Baeyer‐Villiger Monooxygenase Using Sequence Similarity Network Analysis
Sign Up to like & getrecommendations! Published in 2023 at "ChemBioChem"
DOI: 10.1002/cbic.202200746
Abstract: Baeyer‐Villiger monooxygenases (BVMOs) are important flavin‐dependent enzymes which perform oxygen insertion reactions leading to valuable products. As reported in many studies, BVMOs are usually unstable during application, preventing a wider usage in biocatalysis. Here, we… read more here.
Keywords: sequence similarity; using sequence; baeyer villiger;
Discovery of novel glycoside hydrolases from C-glycoside-degrading bacteria using sequence similarity network analysis.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of microbiology"
DOI: 10.1007/s12275-021-1292-4
Abstract: C-Glycosides are an important type of natural product with significant bioactivities, and the C-glycosidic bonds of C-glycosides can be cleaved by several intestinal bacteria, as exemplified by the human faeces-derived puerarin-degrading bacterium Dorea strain PUE.… read more here.
Keywords: discovery novel; similarity network; glycoside hydrolases; sequence similarity ... See more keywords
PEPPI: Whole-proteome Protein-protein Interaction Prediction through Structure and Sequence Similarity, Functional Association, and Machine Learning
Sign Up to like & getrecommendations! Published in 2022 at "Journal of Molecular Biology"
DOI: 10.1016/j.jmb.2022.167530
Abstract: Proteome-wide identification of protein-protein interactions is a formidable task which has yet to be sufficiently addressed by experimental methodologies. Many computational methods have been developed to predict proteome-wide interaction networks, but few leverage both the… read more here.
Keywords: protein; sequence similarity; protein protein; similarity functional ... See more keywords
A novel model for protein sequence similarity analysis based on spectral radius
Sign Up to like & getrecommendations! Published in 2018 at "Journal of Theoretical Biology"
DOI: 10.1016/j.jtbi.2018.03.001
Abstract: Abstract Advances in sequencing technologies led to rapid increase in the number and diversity of biological sequences, which facilitated development in the sequence research. In this paper, we present a new method for analyzing protein… read more here.
Keywords: similarity; analysis; protein sequence; sequence similarity ... See more keywords
Careful use of 16S rRNA gene sequence similarity values for the identification of Mycobacterium species
Sign Up to like & getrecommendations! Published in 2018 at "New Microbes and New Infections"
DOI: 10.1016/j.nmni.2017.12.009
Abstract: In order to evaluate the suitability of 16S rRNA nucleotide sequence similarity for the classification of new Mycobacterium isolates at the species level, we systematically studied the pairwise identity values of this gene for 131… read more here.
Keywords: 16s rrna; mycobacterium species; mycobacterium; sequence similarity ... See more keywords
Revealing Unexplored Sequence-Function Space Using Sequence Similarity Networks.
Sign Up to like & getrecommendations! Published in 2018 at "Biochemistry"
DOI: 10.1021/acs.biochem.8b00473
Abstract: The rapidly expanding number of protein sequences found in public databases can improve our understanding of how protein functions evolve. However, our current knowledge of protein function likely represents a small fraction of the diverse… read more here.
Keywords: protein; similarity networks; sequence similarity; unexplored sequence ... See more keywords
In silico analysis of the association between long non‐coding RNA family with sequence similarity 99 member A (FAM99A) and hepatic cancer
Sign Up to like & getrecommendations! Published in 2023 at "IET Systems Biology"
DOI: 10.1049/syb2.12062
Abstract: Abstract The link between family with sequence similarity 99 member A (FAM99A), a type of long non‐coding RNA, and tumourigenesis remains ambiguous. Therefore, in this study, the authors conducted an expression profile analysis of FAM99A… read more here.
Keywords: family sequence; hepatic cancer; expression; analysis ... See more keywords
Systematic analysis of the oncogenic role of FAM83D across cancers based on data mining
Sign Up to like & getrecommendations! Published in 2023 at "Cell Cycle"
DOI: 10.1080/15384101.2023.2171224
Abstract: ABSTRACT Family with sequence similarity of 83D (FAM83D) is overexpressed in various cancers. However, no pan-cancer analysis is presently available. In the present study, we used a bioinformatics analysis to explore the diagnostic and prognostic… read more here.
Keywords: family sequence; expression; analysis; sequence similarity ... See more keywords
Heterogeneous molecular processes among the causes of how sequence similarity scores can fail to recapitulate phylogeny
Sign Up to like & getrecommendations! Published in 2017 at "Briefings in Bioinformatics"
DOI: 10.1093/bib/bbw034
Abstract: Abstract Sequence similarity tools like Basic Local Alignment Search Tool (BLAST) are essential components of many functional genetic, genomic, phylogenetic and bioinformatic studies. Many modern analysis pipelines use significant sequence similarity scores (p- or E-values)… read more here.
Keywords: heterogeneous molecular; similarity; processes among; similarity scores ... See more keywords
Massilia agri sp. nov., isolated from reclaimed grassland soil.
Sign Up to like & getrecommendations! Published in 2017 at "International journal of systematic and evolutionary microbiology"
DOI: 10.1099/ijsem.0.002002
Abstract: A light yellow-coloured, Gram-stain-negative, motile and rod-shaped bacterium, designated strain K-3-1T, was isolated from reclaimed grassland soils of Belbari, Morang, Nepal. It was able to grow at 4-45 °C, at pH 5.0-10.0, and at 0-2 % (w/v)… read more here.
Keywords: isolated reclaimed; similarity massilia; sequence similarity; strain ... See more keywords
Non-linear sequence similarity between the Xist and Rsx long noncoding RNAs suggests shared functions of tandem repeat domains.
Sign Up to like & getrecommendations! Published in 2019 at "RNA"
DOI: 10.1261/rna.069815.118
Abstract: The marsupial inactive X chromosome expresses a long noncoding RNA (lncRNA) called Rsx that has been proposed to be the functional analogue of eutherian Xist. Despite the possibility that Xist and Rsx encode related functions,… read more here.
Keywords: repeat domains; sequence similarity; linear sequence; rsx ... See more keywords