Sample Set Annotation Tool: Gene expression analysis of PBMC from HIV and HIV/TB co-infected patients

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Diagnosis of TB, especially in the presence of an HIV co-infection, can be challenging when using conventional diagnostic methods. In this study, we analyzed global gene expression data from PBMC of patients that were either mono-infected with HIV or co-infected with HIV and TB in order to identify a TB-specific gene signature.

Hypothesis

Experimental Design

Total RNA obtained from PBMC from a South African cohort. Microarry analysis was performed to compare gene expression in patients either infected with HIV or co-infected with HIV/TB.

Experimental Variables

Controls

Methods

Additional Information

Expected Samples:

44 Samples Loaded: 44

Species

Human (Homo sapiens)

Sample Source

PBMC

Disease

HIV, Tuberculosis

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Gender	!Sample_title	disease state	sample type
GSM1230902	Female	HIV infected patient 1	HIV only	PBMC
GSM1230903	Female	HIV infected patient 2_1	HIV only	PBMC
GSM1230904	Female	HIV infected patient 2_2	HIV only	PBMC
GSM1230905	Male	HIV infected patient 3	HIV only	PBMC
GSM1230906	Female	HIV infected patient 4	HIV only	PBMC

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File

Samples Viewer / Editor

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Sample ID	Gender	!Sample Title	Disease state	Sample type
GSM1230902	Female	HIV infected patient 1	HIV only	PBMC
GSM1230903	Female	HIV infected patient 2_1	HIV only	PBMC
GSM1230904	Female	HIV infected patient 2_2	HIV only	PBMC
GSM1230905	Male	HIV infected patient 3	HIV only	PBMC
GSM1230906	Female	HIV infected patient 4	HIV only	PBMC
GSM1230907	Female	HIV infected patient 5	HIV only	PBMC
GSM1230908	Female	HIV infected patient 6	HIV only	PBMC
GSM1230909	Female	HIV infected patient 7	HIV only	PBMC
GSM1230910	Male	HIV infected patient 8	HIV only	PBMC
GSM1230911	Female	HIV infected patient 9	HIV only	PBMC
GSM1230912	Female	HIV infected patient 10	HIV only	PBMC
GSM1230913	Female	HIV infected patient 11	HIV only	PBMC
GSM1230914	Female	HIV infected patient 12	HIV only	PBMC
GSM1230915	Male	HIV infected patient 13	HIV only	PBMC
GSM1230916	Female	HIV infected patient 14	HIV only	PBMC
GSM1230917	Female	HIV infected patient 15	HIV only	PBMC
GSM1230918	Female	HIV infected patient 16	HIV only	PBMC
GSM1230919	Male	HIV infected patient 17	HIV only	PBMC
GSM1230920	Female	HIV infected patient 18	HIV only	PBMC
GSM1230921	Male	HIV infected patient 19	HIV only	PBMC
GSM1230922	Female	HIV infected patient 20	HIV only	PBMC
GSM1230923	Male	HIV infected patient 21	HIV only	PBMC
GSM1230924	Female	HIV infected patient 22	HIV only	PBMC
GSM1230925	Female	HIV/TB co-infected patient 1	HIV_TB	PBMC
GSM1230926	Female	HIV/TB co-infected patient 2	HIV_TB	PBMC
GSM1230927	Male	HIV/TB co-infected patient 3	HIV_TB	PBMC
GSM1230928	Female	HIV/TB co-infected patient 4	HIV_TB	PBMC
GSM1230929	Female	HIV/TB co-infected patient 5	HIV_TB	PBMC
GSM1230930	Male	HIV/TB co-infected patient 6	HIV_TB	PBMC
GSM1230931	Female	HIV/TB co-infected patient 7	HIV_TB	PBMC
GSM1230932	Male	HIV/TB co-infected patient 8	HIV_TB	PBMC
GSM1230933	Male	HIV/TB co-infected patient 9	HIV_TB	PBMC
GSM1230934	Male	HIV/TB co-infected patient 10	HIV_TB	PBMC
GSM1230935	Male	HIV/TB co-infected patient 11	HIV_TB	PBMC
GSM1230936	Male	HIV/TB co-infected patient 12	HIV_TB	PBMC
GSM1230937	Female	HIV/TB co-infected patient 13	HIV_TB	PBMC
GSM1230938	Female	HIV/TB co-infected patient 14	HIV_TB	PBMC
GSM1230939	Female	HIV/TB co-infected patient 15	HIV_TB	PBMC
GSM1230940	Female	HIV/TB co-infected patient 16	HIV_TB	PBMC
GSM1230941	Female	HIV/TB co-infected patient 17	HIV_TB	PBMC
GSM1230942	Female	HIV/TB co-infected patient 18	HIV_TB	PBMC
GSM1230943	Male	HIV/TB co-infected patient 19	HIV_TB	PBMC
GSM1230944	Male	HIV/TB co-infected patient 20	HIV_TB	PBMC
GSM1230945	Male	HIV/TB co-infected patient 21	HIV_TB	PBMC

Group Sets View in Gene Expression Browser

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Module Analysis

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SIDRA