Transcriptomics

Dataset Information

3

Gene expression in primary human B cells sorted according to IL-10 secretion or not after 2 days of activation.


ABSTRACT: To determine characterize human B cells that express IL-10 on a molecular level, we compared the global gene expression of primary CD19pos B cells secreting IL-10 or not, upon activation with anti-CD40, IL-4 and CpG for 2 days. Human B cells from healthy donors were sorted according to CD19 expression by magnetic cell separation. The cells were stimulated at 2.5E06 cells/ml by activating anti-CD40 mAb (1 µg/ml, clone 82111, RnD Systems), recombinant human IL-4 (10 ng/ml, Immunotools) and CpG2006 (3 µg/ml) for 2 days following restimulation for 3 h with phorbol myristate acetate (PMA, 10 ng/ml) and ionomycin (1 µg/ml). Staining of viable IL-10 secreting human CD19pos B cells was performed by the IL-10 capture assay according the manufacturers instructions (Miltenyi Biotec, n=2). Finally, the cells were sorted into IL-10posCD69pos and IL-10negCD69pos cells by flow cytometric cell sorting on a BD Aria II sorter (Becton Dickinson). Dead cells were excluded using propidium iodide. Total RNA was extracted using the RNeasy Mini kit (Qiagen). The integrity and amount of isolated RNA was assessed for each sample using an Agilent 2100 Bioanalyzer (Agilent, Waldbronn, Germany) and a NanoDrop ND-1000 spectrophotometer (NanoDrop Technologies, Wilmington, DE). Double-stranded complementary RNA was synthesized from 1 µg total RNA using Message AmpII Biotin (Ambion, USA). Fifteen micrograms of fragmented cRNA of each sample were hybridized to four HG-U133A plus 2.0 GeneChips (Affymetrix). Hybridization was performed in a Hybridization Oven 640, and chips were washed and stained in the Fluidics Station 400 (both Affymetrix). Finally, the arrays were scanned with a GeneChip Scanner 3000 using the GCOS software, version 1.4, both Affymetrix. All relevant GCOS data of quality checked microarrays were analyzed with High Performance Chip Data Analysis (HPCDA, unpublished), using the BioRetis database (www.bioretis-analysis.de), as described and validated previously.

ORGANISM(S): Homo sapiens  

SUBMITTER: Guido Heine   Joachim R. Grün  Joachim R Grün  Gennadiy Drozdenko  Margitta Worm  Andreas Radbruch  Hyun-Dong Chang 

PROVIDER: E-GEOD-49853 | ArrayExpress | 2014-03-24

SECONDARY ACCESSION(S): GSE49853PRJNA215155

REPOSITORIES: GEO, ArrayExpress

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Publications

SiPaGene: A new repository for instant online retrieval, sharing and meta-analyses of GeneChip expression data.

Menssen Adriane A   Edinger Götz G   Grün Joachim R JR   Haase Ulrike U   Baumgrass Ria R   Grützkau Andreas A   Radbruch Andreas A   Burmester Gerd-R GR   Häupl Thomas T  

BMC genomics 20090305


BACKGROUND: Microarray expression profiling is becoming a routine technology for medical research and generates enormous amounts of data. However, reanalysis of public data and comparison with own results is laborious. Although many different tools exist, there is a need for more convenience and online analysis with restriction of access and user specific sharing options. Furthermore, most of the currently existing tools do not use the whole range of statistical power provided by the MAS5.0/GCOS  ...[more]

Publication: 1/2

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