Natividad, A, Freeman, TC, Jeffries, D, Burton, MJ, Mabey, DCW, Bailey, RL and Holland, MJ. 2010. Expression data from Gambian children with and without the clinical signs of active trachoma: U133 Plus2.0 array. [Online]. NCBI Gene Expression Omnibus. Available from: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20436
Natividad, A, Freeman, TC, Jeffries, D, Burton, MJ, Mabey, DCW, Bailey, RL and Holland, MJ. Expression data from Gambian children with and without the clinical signs of active trachoma: U133 Plus2.0 array [Internet]. NCBI Gene Expression Omnibus; 2010. Available from: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20436
Natividad, A, Freeman, TC, Jeffries, D, Burton, MJ, Mabey, DCW, Bailey, RL and Holland, MJ (2010). Expression data from Gambian children with and without the clinical signs of active trachoma: U133 Plus2.0 array. [Data Collection]. NCBI Gene Expression Omnibus. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE20436
Description
Conjunctival samples from 60 individuals with and without the clinical signs of active trachoma were analysed on the U133 Plus 2.0 arrays. Global transcriptional changes characteristic of disease and infection phenotypes were identified. Two analysis methods found large numbers of differentially regulated genes and the existence of networks of co-expressed genes. There were signatures characteristic of the host defence response with evidence supporting infiltration of various types of leukocytes and activation of innate responses of epithelial cells. Two separate methods could classify disease and infection phenotype based on transcription signatures with 70% accuracy. These results provide an insight into the complexity of the acute response in trachoma but are able to partly explain the biology of trachoma through the identification of pathways and gene expression sets useful to future studies on chlamydial immunopathogenesis.
| Description of data capture | Conjunctival samples from 60 participants were tested on U133 plus 2.0 arrays (40 participants with clinical signs of active trachoma and 20 controls with normal conjunctivas as before). Samples were further sub-divided based on the detection and quantification of ocular Chlamydia trachomatis load by PCR tests. Gene expression was then assessed using differential expression and construction of co-expression networks. The content of the constructed gene lists which were identified as part of a network or differentially expressed were then tested for enrichment using publically available analysis tools to identify biological pathways expressed in the conjunctiva during C. trachomatis infection and disease episodes. |
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| Data capture method | Experiment |
| Date (Date published in a 3rd party system) | 3 September 2010 |
| Language(s) of written materials | English |
| Data Creators | Natividad, A, Freeman, TC, Jeffries, D, Burton, MJ, Mabey, DCW, Bailey, RL and Holland, MJ |
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| LSHTM Faculty/Department | Faculty of Infectious and Tropical Diseases > Dept of Clinical Research Faculty of Infectious and Tropical Diseases > Dept of Disease Control |
| Participating Institutions | London School of Hygiene & Tropical Medicine, London, United Kingdom |
| Date Deposited | 11 Jan 2019 10:20 |
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| Last Modified | 08 Jul 2021 12:52 |
| Publisher | NCBI Gene Expression Omnibus |
