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| Status |
Public on May 05, 2016 |
| Title |
A microfluidics-based in vitro model of the gastrointestinal human-microbe interface |
| Platform organisms |
Homo sapiens; synthetic construct |
| Sample organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
Non-coding RNA profiling by array
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| Summary |
We have developed a microfluidics-based in vitro model of the human gut allowing co-culture of human and microbial cells and subsequent multi-omic assessment of the effect of the co-culture on the host transcriptome.
We compare the transcriptional changes induced in the human epithelial cell line, Caco-2 after co-culture with Lactobacillus rhamnosus GG or a consortium of Lactobacillus rhamnosus GG and Bacteroides caccae.
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| Overall design |
Caco-2 cells were monocultured, co-cultured with LGG and a consortium of LGG & B.caccae and the RNA was analyzed for evaluating the transcriptional changes induced in Caco-2 cells following HuMiX-based co-culture. Both for mRNA and miRNA expression profiling, 9 microarray samples were analyzed, covering 3 biological replicates for 3 conditions (control, co-culture with the commensal Lactobacillus rhamnosus GG (LGG), and co-culture with the obligate anaerobe Bacteroides caccae and LGG).
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| Contributor(s) |
Shah P, Fritz JV, Glaab E, Desai MS, Greenhalgh K, Frachet A, Niegowska M, Estes M, Jäger C, Seguin-Devaux C, Zenhausern F, Wilmes P |
| Citation(s) |
27168102 |
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| Submission date |
Mar 18, 2016 |
| Last update date |
Oct 29, 2018 |
| Contact name |
Enrico Glaab |
| E-mail(s) |
enrico.glaab@uni.lu
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| Organization name |
University of Luxembourg
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| Street address |
6, avenue du Swing
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| City |
Belvaux |
| State/province |
Capellen |
| ZIP/Postal code |
L-4367 |
| Country |
Luxembourg |
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| Platforms (2) |
| GPL17586 |
[HTA-2_0] Affymetrix Human Transcriptome Array 2.0 [transcript (gene) version] |
| GPL19117 |
[miRNA-4] Affymetrix Multispecies miRNA-4 Array |
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| Samples (18)
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| GSM2094166 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic control, rep1 |
| GSM2094167 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic control, rep2 |
| GSM2094168 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic control, rep3 |
| GSM2094169 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG), rep1 |
| GSM2094170 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG), rep2 |
| GSM2094171 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG), rep3 |
| GSM2094172 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG+B.caccae), rep1 |
| GSM2094173 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG+B.caccae), rep2 |
| GSM2094174 |
Caco-2 human epithelial colorectal adenocarcinoma cells, mRNA, anaerobic co-culture (LGG+B.caccae), rep3 |
| GSM2094175 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic control, rep1 |
| GSM2094176 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic control, rep2 |
| GSM2094177 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic control, rep3 |
| GSM2094178 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG), rep1 |
| GSM2094179 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG), rep2 |
| GSM2094180 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG), rep3 |
| GSM2094181 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG+B.caccae), rep1 |
| GSM2094182 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG+B.caccae), rep2 |
| GSM2094183 |
Caco-2 human epithelial colorectal adenocarcinoma cells, miRNA, anaerobic co-culture (LGG+B.caccae), rep3 |
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| Relations |
| BioProject |
PRJNA315665 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE79383_RAW.tar |
230.4 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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