Sample Set Annotation Tool: Genome-wide expression analysis demonstrates a dominant role of TLR4 for activation of human phagocytes by the alarmin MRP8

Study Design
Assay
Sample Info
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Samples
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Analysis

Purpose

The alarmins myeloid-related protein (MRP) 8 and MRP14 are the dominant cytoplasmic proteins in phagocytes. After release by activated phagocytes extracellular MRP8/MRP14 complexes promote inflammation in many diseases, including infections, allergies, autoimmune diseases, rheumatoid arthritis or inflammatory bowel disease. As receptors for the pro-inflammatory effects of human MRP8, the active component of the MRP8/MRP14-complex, Toll-like receptor (TLR) 4 and the multi-ligand receptor of advanced glycation end products (RAGE) are controversial discussed. Using a comparative bioinformatics analysis between genome-wide response patterns of monocytes to MRP8, endotoxin and different cytokines we demonstrated a dominant role of TLR4 during MRP8-mediated phagocyte activation.

Hypothesis

TLR4 pathways plays an important role in the response to alarmin MRP8

Experimental Design

Human blood monocyte stimulated with various stimuli (control, MRP8, LPS, TNF, IL1) were selected for RNA extraction and hybridization on Affymetrix microarrays.

Experimental Variables

MRP8, LPS, TNF, IL1

Controls

Media

Methods

Additional Information

Expected Samples:

19 Samples Loaded: 19

Species

Human (Homo sapiens)

Sample Source

Monocytes

Disease

Healthy

Treatment Protocol

Growth Protocol

Extraction Protocol

Extraction of total RNA was performed with chaotropic ions and silica membran according to the manufacturer's instructions (Macherey-Nagel RNA isolation user manual).

Storage Conditions

Sample Set Spreadsheet

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Samples Preview

Sample ID	Cell type	Sample Title	Treament
GSM1366783	human blood monocyte	MS25_3_KO_1_091007	control
GSM1366784	human blood monocyte	MS25_5_KO_1_091007	control
GSM1366785	human blood monocyte	MS25_7_KO_1_091007	control
GSM1366786	human blood monocyte	MS25_A_1_S100_A8_21.08_20071214	MRP8
GSM1366787	human blood monocyte	MS25_B_2_S100_A8_29.08_20071214	MRP8

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File
GSE56681_ori.csv Sample Set Spreadsheet

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Sample ID	Cell type	Sample Title	Treament
GSM1366783	human blood monocyte	MS25_3_KO_1_091007	control
GSM1366784	human blood monocyte	MS25_5_KO_1_091007	control
GSM1366785	human blood monocyte	MS25_7_KO_1_091007	control
GSM1366786	human blood monocyte	MS25_A_1_S100_A8_21.08_20071214	MRP8
GSM1366787	human blood monocyte	MS25_B_2_S100_A8_29.08_20071214	MRP8
GSM1366788	human blood monocyte	MS25_C_3_S100_A8_12.09_20071214	MRP8
GSM1366789	human blood monocyte	MS25_Sample1_KO_5.6_20080819	control
GSM1366790	human blood monocyte	MS25_Sample2_TNF_alpha_5.6_20080819	TNF
GSM1366791	human blood monocyte	MS25_Sample3_IL1_beta_5.6_20080819	IL1b
GSM1366792	human blood monocyte	MS25_Sample4_TNF_alpha_30.5_20080819	TNF
GSM1366793	human blood monocyte	MS25_Sample5_IL1_beta_30.5_20080819	IL1b
GSM1366794	human blood monocyte	MS25_Sample6_TNF_alpha_13.6_20080819	TNF
GSM1366795	human blood monocyte	MS25_Sample7_IL1_beta_13.6_20080819	IL1b
GSM1366796	human blood monocyte	MS514_KO_020305_P4_260405	control
GSM1366797	human blood monocyte	MS514_KO_160205_P1_260405	control
GSM1366798	human blood monocyte	MS514_KO_160305_P7_260405	control
GSM1366799	human blood monocyte	MS514_LPS_020305_P5_260405	LPS
GSM1366800	human blood monocyte	MS514_LPS_160205_P2_260405	LPS
GSM1366801	human blood monocyte	MS514_LPS_160305_P8_260405	LPS

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SIDRA