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| Status |
Public on Sep 03, 2010 |
| Title |
Expression data from Gambian children with and without the clinical signs of active trachoma: HG-focus array |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Results from 29 samples tested on the Affymetrix HG-focused target array identified transcriptional changes characteristic of ocular disease and ocular Chlamydia trachomatis infection phenotypes. Large numbers of differentially regulated genes were demonstrated. These were characteristic of the host defence response and typical of innate responses at epithelial surfaces and infiltrating leukocytes. These results provide an insight into the complexity of the acute response in trachoma.
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| Overall design |
Samples from 29 participants were tested on the HG-Focus target arrays (17 participants with clinical signs of active trachoma and 12 study participants with normal conjunctivas from the same trachoma endemic population as controls). Conjunctival samples from an additional 60 participants were tested on U133 plus 2.0 arrays and are reported elsewhere. This second set of independent samples was used to assess different gene classifier selection methods and validation tests using >8500 common probe-sets shared between HG-focus target and U133 plus 2.0 arrays. Potential biomarkers of disease and infection are identified.
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| Contributor(s) |
Natividad A, Jeffries D, Burton MJ, Mabey DC, Bailey RL, Holland MJ |
| Citation(s) |
20823212, 26616738 |
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| Submission date |
Feb 19, 2010 |
| Last update date |
Jul 11, 2018 |
| Contact name |
Martin James Holland |
| E-mail(s) |
Martin.Holland@lshtm.ac.uk
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| Phone |
+442079272295
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| Organization name |
London School of Hygiene and Tropical Medicine
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| Department |
Infectious and Tropical Diseases
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| Lab |
Clinical Research
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| Street address |
Keppel Street
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| City |
London |
| ZIP/Postal code |
WC1E 7HT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL201 |
[HG-Focus] Affymetrix Human HG-Focus Target Array |
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| Samples (29)
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| GSM512412 |
Tarsal conjunctiva, GAR_14 |
| GSM512413 |
Tarsal conjunctiva, GAR_15 |
| GSM512414 |
Tarsal conjunctiva, GAR_16 |
| GSM512415 |
Tarsal conjunctiva, GAR_17 |
| GSM512416 |
Tarsal conjunctiva, GAR_20 |
| GSM512417 |
Tarsal conjunctiva, GAR_23 |
| GSM512418 |
Tarsal conjunctiva, GAR_24 |
| GSM512419 |
Tarsal conjunctiva, GAR_25 |
| GSM512420 |
Tarsal conjunctiva, GAR_26 |
| GSM512421 |
Tarsal conjunctiva, GAR_27 |
| GSM512422 |
Tarsal conjunctiva, GAR_28 |
| GSM512423 |
Tarsal conjunctiva, GAR_29 |
| GSM512424 |
Tarsal conjunctiva, GAR_30 |
| GSM512425 |
Tarsal conjunctiva, GAR_31 |
| GSM512426 |
Tarsal conjunctiva, GAR_33 |
| GSM512427 |
Tarsal conjunctiva, GAR_34 |
| GSM512428 |
Tarsal conjunctiva, GAR_35 |
| GSM512429 |
Tarsal conjunctiva, GAR_37 |
| GSM512430 |
Tarsal conjunctiva, GAR_38 |
| GSM512431 |
Tarsal conjunctiva, GAR_44 |
| GSM512432 |
Tarsal conjunctiva, GAR_51 |
| GSM512433 |
Tarsal conjunctiva, GAR_55 |
| GSM512434 |
Tarsal conjunctiva, GAR_57 |
| GSM512435 |
Tarsal conjunctiva, GAR_73A |
| GSM512436 |
Tarsal conjunctiva, GAR_74 |
| GSM512437 |
Tarsal conjunctiva, GAR_78 |
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| Relations |
| BioProject |
PRJNA125597 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE20430_RAW.tar |
25.9 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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