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| Status |
Public on Mar 01, 2013 |
| Title |
The human Gut Chip “HuGChip”, an explorative phylogenetic microarray for determining gut microbiome diversity at Family level |
| Platform organism |
human gut metagenome |
| Sample organisms |
Escherichia coli; Bacteroides fragilis; Blautia coccoides; [Clostridium] leptum; Lactobacillus acidophilus; uncultured bacterium |
| Experiment type |
Expression profiling by array
|
| Summary |
A phylogenetic microarray targeting 66 families described in the human gut microbiota has been developped aud used to monitor the gut microbiota's structure and diversity. The microarray format provided by Agilent and used in this study is 8x15K.
A study with a total of 4 chips was realized.
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| Overall design |
Arrays 1 and 2: Hybridization with 100ng of labelled 16S rRNA gene amplicons from a mock community sample and 250ng of labelled 16S rRNA gene amplicons from 1 faecal sample. Each Agilent-030618 array probe (4441) was synthetized in three replicates.
Arrays 3 and 4: Hybridization with 250ng of labelled 16S rRNA gene amplicons from 2 faecal samples. Each Agilent-40558 array probe (4441) was synthetized in three replicates.
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| Contributor(s) |
Tottey W, Denonfoux J, Jaziri F, Parisot N, Missaoui M, Peyretaillade E, Alric M, Peyret P, Brugère J |
| Citation(s) |
23690942 |
| Submission date |
Feb 28, 2013 |
| Last update date |
May 31, 2013 |
| Contact name |
Nicolas Parisot |
| Organization name |
EA 4678 CIDAM
|
| Street address |
28 place Henri Dunant
|
| City |
Clermont-Ferrand |
| ZIP/Postal code |
63001 |
| Country |
France |
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| Platforms (1) |
| GPL16731 |
Agilent Human gut metagenome array |
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| Samples (4)
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| GSM1090078 |
100ng 16S rRNA gene amplicon of a mock community |
| GSM1090079 |
250ng 16S rRNA gene amplicon of faecal sample 176 |
| GSM1090080 |
250ng 16S rRNA gene amplicon of faecal sample 204 |
| GSM1090081 |
250ng 16S rRNA gene amplicon of faecal sample 205 |
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| Relations |
| BioProject |
PRJNA191614 |
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