Biome representational in silico karyotyping

• Published in: Genome research Vol. 21; no. 4; pp. 626 - 633
• Main Authors: Muthappan, Valliammai, Lee, Aaron Y., Lamprecht, Tamara L., Akileswaran, Lakshmi, Dintzis, Suzanne M., Lee, Choli, Magrini, Vincent, Mardis, Elaine R., Shendure, Jay, Van Gelder, Russell N.
• Format: Journal Article
• Language: English
• Published: United States Cold Spring Harbor Laboratory Press 01.04.2011
• Subjects: Carcinoma - diagnosis; Carcinoma - genetics; Computational Biology; Epstein-Barr virus; High-Throughput Nucleotide Sequencing - methods; Humans; Karyotyping; Metagenome - genetics; Metagenomics; Method; Molecular Sequence Data; Mouth Mucosa - metabolism; Mouth Mucosa - microbiology

Metagenomic characterization of complex biomes remains challenging. Here we describe a modification of digital karyotyping—biome representational in silico karyotyping (BRISK)—as a general technique for analyzing a defined representation of all DNA present in a sample. BRISK utilizes a Type IIB DNA...