Sample Set Annotation Tool: Comparison of CD4+ T cell function between HIV-1 resistant and HIV-1 susceptible individuals (Affymetrix)

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Understanding why some indidivual resist HIV-1 infection despite continued exposure is an important goal for vaccine development.

We compared CD4+ T cell gene expression at baseline in HIV-1 resistant commercial sex-workers from Nairobi, Kenya to HIV-1 high-risk negative (non-resistant) commercial sex-workers using gene expression arrays

Hypothesis

Experimental Design

CD4+ T cells from both HIV resistant and HIV low-risk negative individuals were isolated from PBMC after 24 hours of culture by negative slelction. Total RNA was isolated and gene expression compared using Affymetrix total genome arrays.

Experimental Variables

Controls

Methods

Additional Information

Expected Samples:

18 Samples Loaded: 18

Species

Human (Homo sapiens)

Sample Source

CD4 T cells

Disease

HIV

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	!Sample_title	HIV resistant
GSM357147	HIV-R sample 1	True
GSM357148	HIV-R sample 2	True
GSM357149	HIV-R sample 3	True
GSM357150	HIV-R sample 4	True
GSM357151	HIV-R sample 5	True

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File

Samples Viewer / Editor

All fields are editable except the "Sample ID" column. To edit a cell, click within the cell. To edit a "date" cell, click on the calendar icon. To cancel an edit, press the ESC key.

Sample ID	!Sample Title	HIV high-risk negative	HIV resistant
GSM357147	HIV-R sample 1		True
GSM357148	HIV-R sample 2		True
GSM357149	HIV-R sample 3		True
GSM357150	HIV-R sample 4		True
GSM357151	HIV-R sample 5		True
GSM357152	HIV-R sample 6		True
GSM357153	HIV-R sample 7		True
GSM357154	HIV-R sample 8		True
GSM357155	HIV-R sample 9		True
GSM357156	HIV-HRN sample 1	True
GSM357157	HIV-HRN sample 2	True
GSM357158	HIV-HRN sample 3	True
GSM357159	HIV-HRN sample 4	True
GSM357160	HIV-HRN sample 5	True
GSM357161	HIV-HRN sample 6	True
GSM357162	HIV-HRN sample 7	True
GSM357163	HIV-HRN sample 8	True
GSM357164	HIV-HRN sample 9	True

Group Sets View in Gene Expression Browser

Name
All Samples		View
Without outlier	Default	View
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Module Analysis

Group Set
All Samples
Without outlier

SIDRA