Paper Info
Title
Clinical detection of human probiotics and human pathogenic bacteria by using a novel high-throughput platform based on next generation sequencing.
Abstract
The human body plays host to a vast array of bacteria, found in oral cavities, skin, gastrointestinal tract and the vagina. Some bacteria are harmful while others are beneficial to the host. Despite the availability of many methods to identify bacteria, most of them are only applicable to specific and cultivable bacteria and are also tedious. Based on high throughput sequencing technology, this work derives 16S rRNA sequences of bacteria and analyzes probiotics and pathogens species.We constructed a database that recorded the species of probiotics and pathogens from literature, along with a modified Smith-Waterman algorithm for assigning the taxonomy of the sequenced 16S rRNA sequences. We also constructed a bacteria disease risk model for seven diseases based on 98 samples. Applicability of the proposed platform is demonstrated by collecting the microbiome in human gut of 13 samples.The proposed platform provides a relatively easy means of identifying a certain amount of bacteria and their species (including uncultivable pathogens) for clinical microbiology applications. That is, detecting how probiotics and pathogens inhabit humans and how affect their health can significantly contribute to develop a diagnosis and treatment method.
Year
DOI
Venue
2013
10.1186/2043-9113-4-1
J. Clinical Bioinformatics
Keywords
DocType
Volume
bioinformatics,health informatics
Conference
4
Issue
ISSN
Citations 
1
2043-9113
1
PageRank 
References 
Authors
0.35
4
10
Name
Order
Citations
PageRank
Chih-Min Chiu11356.98
Feng-Mao Lin223715.34
Tzu-Hao Chang314511.92
Wei-Chih Huang41348.04
Chao Liang51256.44
Ting Yang610.35
Wei-Yun Wu71085.68
Tzu-Ling Yang8572.36
Shun-Long Weng91326.40
Hsien-Da Huang1083563.83