Sample Set Annotation Tool: Illumina Bead expression array data from Human IgE+ and IgG+ B cell subsets

Study Design
Assay
Sample Info
Files
Info
Samples
Group Sets
Analysis

Purpose

Hypothesis

Experimental Design

Human in-vitro differentiated IgE+ and IgG+ Germinal Centre B cells, plasma blasts and plasma cells were isolated by flow cytometry and subjected to transcriptome analysis using the Illumina HumanHT-12 v4 Expression BeadChip array platform. B cells derived from 4 donors are submitted for each cell population.

Experimental Variables

IL-4, anti-CD40 stimulation, cell types

Controls

Healthy donors

Methods

Total B cells were isolated from discarded tonsillar tissue from 4 donors following routine tonsillectomy (following informed consent) and cultured for 10 days in the presence of IL-4 and anti-CD40 stimulation. After 10 days IgE+ and IgG+ germinal centre, plasma blast or plasma cells were isolated by flow cytometry and total RNA extracted. RNA was then reverse transcribed, amplified and biotin labelled prior to profiling on Illumina Human HT-12 v4 expression arrays.

Additional Information

Expected Samples:

24 Samples Loaded: 24

Species

Human (Homo sapiens)

Sample Source

Plasma Cells , Plasma Blasts , B cells

Disease

Healthy

Treatment Protocol

Growth Protocol

RPMI culture in hum

Extraction Protocol

Total RNA from fixed and permeabilised cultured human tonsil B cells was isolated using the PureLink FFPE total RNA isolation kit (Invitrogen)

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Donor ID	group	Cell type	isotype
GSM2665666	B	B cell_IgE+	Germinal Centre B cell	IgE+
GSM2665667	B	B cell_IgG+	Germinal Centre B cell	IgG+
GSM2665668	B	Plasma Blast_IgG+	Plasma Blast	IgG+
GSM2665669	B	Plasma Blast_IgE+	Plasma Blast	IgE+
GSM2665670	B	Plasma Cell_IgE+	Plasma Cell	IgE+

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File
GSE99948_v1.csv Sample Set Spreadsheet
GSE99948_v1.csv Sample Set Spreadsheet

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	Donor ID	Group	Cell type	Isotype
GSM2665666	B	B cell_IgE+	Germinal Centre B cell	IgE+
GSM2665667	B	B cell_IgG+	Germinal Centre B cell	IgG+
GSM2665668	B	Plasma Blast_IgG+	Plasma Blast	IgG+
GSM2665669	B	Plasma Blast_IgE+	Plasma Blast	IgE+
GSM2665670	B	Plasma Cell_IgE+	Plasma Cell	IgE+
GSM2665671	B	Plasma Cell_IgG+	Plasma Cell	IgG+
GSM2665672	C	B cell_IgE+	Germinal Centre B cell	IgE+
GSM2665673	C	Plasma Blast_IgE+	Plasma Blast	IgE+
GSM2665674	C	B cell_IgG+	Germinal Centre B cell	IgG+
GSM2665675	C	Plasma Blast_IgG+	Plasma Blast	IgG+
GSM2665676	C	Plasma Cell_IgE+	Plasma Cell	IgE+
GSM2665677	C	Plasma Cell_IgG+	Plasma Cell	IgG+
GSM2665678	D	B cell_IgE+	Germinal Centre B cell	IgE+
GSM2665679	D	Plasma Blast_IgE+	Plasma Blast	IgE+
GSM2665680	D	B cell_IgG+	Germinal Centre B cell	IgG+
GSM2665681	D	Plasma Blast_IgG+	Plasma Blast	IgG+
GSM2665682	D	Plasma Cell_IgE+	Plasma Cell	IgE+
GSM2665683	D	Plasma Cell_IgG+	Plasma Cell	IgG+
GSM2665684	A	Plasma Blast_IgE+	Plasma Blast	IgE+
GSM2665685	A	B cell_IgE+	Germinal Centre B cell	IgE+
GSM2665686	A	B cell_IgG+	Germinal Centre B cell	IgG+
GSM2665687	A	Plasma Blast_IgG+	Plasma Blast	IgG+
GSM2665688	A	Plasma Cell_IgE+	Plasma Cell	IgE+
GSM2665689	A	Plasma Cell_IgG+	Plasma Cell	IgG+

Group Sets View in Gene Expression Browser

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Module Analysis

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SIDRA