Microbiome Analysis of Inflammatory Bowel Diseases

We also include a brief analysis of microbiome data from a study of inflammatory bowel diseases (IBDs) [28] (link). This comprised faecal samples from 78 individuals where the V5-6 region of the 16S rRNA gene was pyrosequenced using 454. 35 samples were from healthy individuals, 12 from individuals with colonic Crohn's disease (CCD), 15 from individuals exhibiting ileal Crohn's disease (ICD), and 16 from individuals with ulcerative colitis (UC). We processed the data as above. This gave a total of 134,276 reads with individual samples varying in size from 394 to 3,258 with a median of 1,710 reads. 93 separate genera were observed in these samples with a genera diversity per sample that varied from 8 to 33 with a median of 22.

Free full text: Click here

Holmes I., Harris K, & Quince C. (2012). Dirichlet Multinomial Mixtures: Generative Models for Microbial Metagenomics. PLoS ONE, 7(2), e30126.

Publication 2012

Colonic crohn disease Crohn disease Faecal Ileal Ileal disease Inflammatory bowel diseases Microbiome Rrna gene Ulcerative colitis

Corresponding Organization :

Other organizations : University of California, Berkeley, University of Glasgow

Top 5 similar protocols

Protocol cited in 38 other protocols

Variable analysis

independent variables

Individuals with colonic Crohn's disease (CCD)
Individuals exhibiting ileal Crohn's disease (ICD)
Individuals with ulcerative colitis (UC)
Healthy individuals

dependent variables

Microbiome data from faecal samples
Number of reads (total 134,276)
Individual sample size (394 to 3,258 reads, median 1,710 reads)
Number of genera observed (93)
Genera diversity per sample (8 to 33, median 22)

control variables

V5-6 region of the 16S rRNA gene was pyrosequenced using 454

Annotations

Based on most similar protocols

Etiam vel ipsum. Morbi facilisis vestibulum nisl. Praesent cursus laoreet felis. Integer adipiscing pretium orci. Nulla facilisi. Quisque posuere bibendum purus. Nulla quam mauris, cursus eget, convallis ac, molestie non, enim. Aliquam congue. Quisque sagittis nonummy sapien. Proin molestie sem vitae urna. Maecenas lorem.

As authors may omit details in methods from publication, our AI will look for missing critical information across the 5 most similar protocols.

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!