How to find public microbiome data based on 16S rRNA gene
Majority of microbiome taxonomic profile data are based on 16S rRNA gene targetting bacteria. In this document, I will explain how to search and locate
Tag: 16S rRNA
Subscribe To Our Newsletter
Get updates and learn from the best
Microbiomes revealed by taxonomic profiling
The following data were processed by CJ Bioscience’s 16S Microbiome Profiling Service with EzBioCloud database. You can access the taxonomic profiles without login. Sample NGS
Check List for 16S-based Microbiome Analysis
A reliable database is frequently updated, and most importantly, it is systematically organized by best practices with regards to taxonomic classification of prokaryotic organisms. This
EzBioCloud Apps
EzBioCloud offers the following applications for microbial genomics: 16S-based ID This service was previously found under the “Identify” menu. Input data is a single 16S
[Quiz] Comparing BLAST and EzBioCloud search
Objectives: Understanding the DNA sequence searching algorithm and difference from the sequence similarity calculation. Please do the followings: Select randomly five 16S sequences from this
[Resource] 16S rRNA gene sequences of the human gut microbiota
This page contains example 16S rRNA sequences of the human gut microbiota. Data was generated by the conventional Sanger capillary sequencing method and published by
Bacterial identification in clinical diagnostic laboratories using 16S rRNA sequences
Bacterial infection may be caused by either new species or novel genetic variants in known bacteria that cannot be identified by conventional methods. 16S rRNA (16S)
[Tutorial] How to identify bacteria using a single Sanger sequence
This document explains how to use EzBioCloud’s “Identity” service using single Sanger sequencing data. Preparations Use ab1 file but not a text file. An ab1
Example files for Microbiome Taxonomic Profile pipeline
The below are the example files for you to test drive Microbiome Taxonomic Profile (MTP) pipeline of the EzBioCloud cloud. Illumina MiSeq paired-end data of a
MTP (Microbiome Taxonomic Profile)
MTP (Microbiome Taxonomic Profile) is a unit of data that contains the taxonomic profile of a sample. At present, we provide MTP for bacterial and
[Tutorial] How to browse individual Human Microbiome Project (HMP) data
Human Microbiome Project funded by US National Institutes of Health (NIH) resulted in the taxonomic profiling data of microbiomes on 19 body sites of 242
EzBioCloud 16S database
Publications that introduced the EzBioCloud 16S database Our database has been introduced in the following three publications (The numbers of citations are as of Mar.
Taxonomic group
“Taxonomic group” in EzBioCloud 16S database Even though 16S rRNA gene has been widely used in the classification and identification of Bacteria and Archaea, it has
[Tutorial] Comparison of respiratory tract microbiomes between healthy and diseased humans
Welcome! In this tutorial, we will work with you to compare human respiratory samples between diseased and healthy subjects to get you familiarized with EzBioCloud’s microbiome taxonomic
Bacterial species concept explained
What is a species? A species is often defined as a group of individuals that can actually or potentially interbreed in nature. In practice, this
[Quiz] Sequence similarities of small subunit rRNA genes
Objectives: Small subunit ribosomal RNA (rRNA) gene is one of the most widely used phylogenetic markers or DNA barcodes. A similarity between two DNA sequences is
[EzEditor2] Phylogenetic analysis
This article will explain how to carry out phylogenetic analysis using EzEditor2 and other programs. We assume that you already aligned all sequences (either 16S
[EzEditor2] Tutorial
Contents What is EzEditor2? EzEditor2 is a nucleotide and amino acid sequence editor that can be used along with EzBioCloud’s Identify and comparative genomics service.
[EzEditor2] Working with 16S rRNA sequences
We will work through with an example file. Please download “Leuconostoc_16s.ezb” here and open it with EzEditor2. This file contains 16S sequences of the type
[EzEditor2] Installation
Installation of EzEditor2 and related programs EzEditor2 is a JAVA program and requires other external programs to run together. Install the followings before running EzEditor2 program.
