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Series GSE193979 Query DataSets for GSE193979
Status Public on Aug 02, 2022
Title Transcriptional profiles predict treatment outcome in patients with tuberculosis and diabetes at diagnosis and at two weeks after initiation of anti-tuberculosis treatment
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Globally, the anti-tuberculosis (TB) treatment success rate is approximately 85%, with treatment failure, relapse and death occurring in a significant proportion of pulmonary TB patients. Treatment success rates are lower among people with diabetes mellitus (DM). Predicting treatment failure early after diagnosis would allow early treatment adaptation and may improve global TB control. Methods Samples were collected in a longitudinal cohort study of adult TB patients with or without concomitant DM from South Africa and Indonesia to characterize whole blood transcriptional profiles before and during anti-TB treatment, using unbiased RNA-Seq and targeted gene dcRT-MLPA. Findings We report differences in whole blood transcriptome profiles between patients with a good versus poor anti-TB treatment outcome, which were observed before initiation of treatment and throughout treatment. An eight-gene and 22-gene blood transcriptional signatures distinguished patients with a good treatment outcome from patients with a poor treatment outcome at diagnosis (AUC=0·815) or two weeks (AUC=0·834) after initiation of anti-TB treatment, respectively. Importantly, high accuracy was obtained by cross-validating this signature in an external cohort (AUC=0·749). Interpretation These findings suggest that transcriptional profiles can be used as a prognostic biomarker for treatment failure and success, even in patients with concomitant DM.
 
Overall design Whole blood was collected from patients with TB-only, TB-DM throughout anti tuberculosis treatment at four time points: Diagnosis, Week 2, Month 2 and Month 6 from two field sites; South Africa and Indonesia. Treatment outcome data were collected at Month 12
 
Contributor(s) Eckold C, Cliff JM, Dockrell HM, van Doorn C, Ottenhoff T, Vianello E
Citation(s) 35841871
Submission date Jan 19, 2022
Last update date Aug 03, 2022
Contact name Jackie Cliff
E-mail(s) jackie.cliff@lshtm.ac.uk, Jacqueline.cliff@brunel.ac.uk
Organization name London School of Hygiene & Tropical Medicine
Department Immunology and Infection
Street address Keppel Street
City London
ZIP/Postal code WC1E 7HT
Country United Kingdom
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (231)
GSM5824838 TB-only_Diagnosis_Indonesia_UNPAD16
GSM5824839 TB-only_Month_6_Indonesia_UNPAD16
GSM5824840 TB-DM_Week_2_Indonesia_UNPAD12
Relations
BioProject PRJNA798683

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Supplementary file Size Download File type/resource
GSE193979_RAW.tar 17.2 Mb (http)(custom) TAR (of TXT)
GSE193979_TANDEM_longitudinal_paper2_rawdata.txt.gz 4.2 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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