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A data driven binning method to recover more nucleotide sequences of species in a metagenome

Show simple item record Vimukthi, K Wimalasiri, G Bandara, P Herath, D
dc.contributor.editor Weeraddana, C
dc.contributor.editor Edussooriya, CUS
dc.contributor.editor Abeysooriya, RP 2022-08-09T06:27:21Z 2022-08-09T06:27:21Z 2020-07
dc.identifier.citation K. Vimukthi, G. Wimalasiri, P. Bandara and D. Herath, "A Data Driven Binning Method to Recover More Nucleotide Sequences of Species in a Metagenome," 2020 Moratuwa Engineering Research Conference (MERCon), 2020, pp. 307-312, doi: 10.1109/MERCon50084.2020.9185388. en_US
dc.description.abstract Metagenomics accelerated the process of studying different species and their dynamics in multiple environments. A key step in a metagenomic study is to group nucleotide sequences belonging to an individual or closely related species which is often termed binning. Multiple machine learning techniques have been adopted in binning metagenomic sequences. Specifically, unsupervised learning is being used in most of the recent binning methods. This work considers data-driven methods for binning metagenomic sequences and discusses such approaches in detail. Furthermore, it explores on increasing the amount of metagenomic sequences binned while maintaining a reasonable binning accuracy. Consequently, a dissimilarity-based approach is proposed to improve the number of contigs binned by an existing binning method. It is shown to result in a 10% increase in the number of contigs binned compared to the original approach. Accordingly, this work suggests that the effective use of observed data which may be discarded as outliers otherwise, may result in improved performance in binning. en_US
dc.language.iso en en_US
dc.publisher IEEE en_US
dc.relation.uri en_US
dc.subject Metagenomics en_US
dc.subject binning en_US
dc.subject data driven en_US
dc.subject mahalanobis distance measure en_US
dc.title A data driven binning method to recover more nucleotide sequences of species in a metagenome en_US
dc.type Conference-Full-text en_US
dc.identifier.faculty Engineering en_US
dc.identifier.department Engineering Research Unit, University of Moratuwa en_US
dc.identifier.year 2020 en_US
dc.identifier.conference Moratuwa Engineering Research Conference 2020 en_US Moratuwa, Sri Lanka en_US
dc.identifier.pgnos pp. 307-312 en_US
dc.identifier.proceeding Proceedings of Moratuwa Engineering Research Conference 2020 en_US en_US en_US en_US en_US
dc.identifier.doi 10.1109/MERCon50084.2020.9185388 en_US

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