 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jul 15, 2019 |
| Title |
Dynamic Gene Network Analysis of Caco-2 Cell Response to Shiga Toxin-Producing Escherichia coli-Associated Hemolytic–Uremic Syndrome |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
A dynamic network approach was conducted to investigate the differential Caco-2 response to two STEC isolates - EH41, isolated from a HUS patient in Australia, and Ec472/01, isolated from bovine feces in Brazil - along in vitro enterocyte-bacteria interaction. The genomic analysis was based on temporal gene co-expression analysis (GCN) data in order to gain a better understanding on the molecular mechanisms underlying the capacity to cause HUS. The GCN topological analyses for Caco-2/EH41 group revealed loss of the scale-free status after one hour of interaction, persistence of this condition along the second hour and establishment of a new gene hierarchy thereafter. These events resemble the gene network mechanism of health-disease transition. The new established network represents an adaptive cell response to the pathogen and not the return to a “normal” state. Conversely, the networks for Caco-2/Ec472 group showed a slow and progressive loss of the scale-free status without its restoration at the end of the time interval here studied. These results contribute for a better understanding of the molecular mechanism involved in STEC pathogenicity associated to HUS.
|
| |
|
| Overall design |
The transcriptomic profiles of Caco-2 cells during interaction with STEC strain Ec472/01 were obtained. The time-series adopted equal intervals of 7.5 minutes along 3 hours. We performed a sliding-window analysis to investigate temporal gene co-expression network (GCN) variation along 3 hours of enterocyte-bactria interaction.
|
| |
|
| Contributor(s) |
Iamashita P, Bando SY, Silva FN, da F Costa L, Abe CM, Bertonha FB, Guth BE, Fujita A, Moreira-Filho CA |
| Citation(s) |
31288487 |
| |
| Submission date |
Oct 02, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Carlos Alberto Moreira-Filho |
| E-mail(s) |
carlos.moreira@hc.fm.usp.br
|
| Phone |
55-11-3061-8449
|
| Organization name |
Faculdade de Medicina da Universidade de Sao Paulo
|
| Department |
Departments of Pediatrics
|
| Lab |
LIM36
|
| Street address |
Av. Dr. Eneas Carvalho de Aguiar 647
|
| City |
Sao Paulo |
| State/province |
SP |
| ZIP/Postal code |
05403-900 |
| Country |
Brazil |
| |
|
| Platforms (1) |
| GPL13497 |
Agilent-026652 Whole Human Genome Microarray 4x44K v2 (Probe Name version) |
|
| Samples (25)
|
| GSM2801387 |
Caco-2 after STEC Ec472 interaction, time 0 |
| GSM2801388 |
Caco-2 after STEC Ec472 interaction, time 1 |
| GSM2801389 |
Caco-2 after STEC Ec472 interaction, time 2 |
| GSM2801390 |
Caco-2 after STEC Ec472 interaction, time 3 |
| GSM2801391 |
Caco-2 after STEC Ec472 interaction, time 4 |
| GSM2801392 |
Caco-2 after STEC Ec472 interaction, time 5 |
| GSM2801393 |
Caco-2 after STEC Ec472 interaction, time 6 |
| GSM2801394 |
Caco-2 after STEC Ec472 interaction, time 7 |
| GSM2801395 |
Caco-2 after STEC Ec472 interaction, time 8 |
| GSM2801396 |
Caco-2 after STEC Ec472 interaction, time 9 |
| GSM2801397 |
Caco-2 after STEC Ec472 interaction, time 10 |
| GSM2801398 |
Caco-2 after STEC Ec472 interaction, time 11 |
| GSM2801399 |
Caco-2 after STEC Ec472 interaction, time 12 |
| GSM2801400 |
Caco-2 after STEC Ec472 interaction, time 13 |
| GSM2801401 |
Caco-2 after STEC Ec472 interaction, time 14 |
| GSM2801402 |
Caco-2 after STEC Ec472 interaction, time 15 |
| GSM2801403 |
Caco-2 after STEC Ec472 interaction, time 16 |
| GSM2801404 |
Caco-2 after STEC Ec472 interaction, time 17 |
| GSM2801405 |
Caco-2 after STEC Ec472 interaction, time 18 |
| GSM2801406 |
Caco-2 after STEC Ec472 interaction, time 19 |
| GSM2801407 |
Caco-2 after STEC Ec472 interaction, time 20 |
| GSM2801408 |
Caco-2 after STEC Ec472 interaction, time 21 |
| GSM2801409 |
Caco-2 after STEC Ec472 interaction, time 22 |
| GSM2801410 |
Caco-2 after STEC Ec472 interaction, time 23 |
| GSM2801411 |
Caco-2 after STEC Ec472 interaction, time 24 |
|
| This SubSeries is part of SuperSeries: |
| GSE104492 |
Dynamic gene network analysis of Caco-2 cell response to Shiga toxin-producing Escherichia coli-associated hemolytic-uremic syndrome |
|
| Relations |
| BioProject |
PRJNA412854 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE104488_RAW.tar |
228.1 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
|
|
|
|
 |
Less...
More...