Encyclopedia of Metagenomics

2015 Edition
| Editors: Sarah K. Highlander, Francisco Rodriguez-Valera, Bryan A. White

Clustering-Based HMP Sequence Comparison

Reference work entry
DOI: https://doi.org/10.1007/978-1-4899-7475-4_90

Synonyms

Comparison of sequences from human microbiome projects using sequence clustering methods

Definition

Sequence clustering is a computational method that groups similar sequences into families. Clustering sequences from multiple samples from human microbiome projects or other metagenomic projects can effectively compare these samples.

Introduction

Numerous human microbiome projects and other metagenomic projects have sequenced many microbiome samples using high-throughput sequencing platforms. One of the key goals of these projects is to compare samples or groups of samples according to their composition and abundance profiles by taxon, gene, function, and pathway. These profiles are often calculated by comparing the sequences against various reference databases. However, reference-based methods cannot analyze the large number of novel sequences that are frequently found in metagenomics samples.

Clustering analysis is a data mining and classification method that assigns similar...

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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  1. 1.Center for Research in Biological Systems (CRBS)University of CaliforniaLa JollaUSA