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Sample GSM2366342 Query DataSets for GSM2366342
Status Public on Nov 01, 2019
Title L+a-10 [Donor125_10]
Sample type RNA
 
Source name monocyte derived dendritic cells
Organism Homo sapiens
Characteristics condition: L+a-10
tissue: blood
time point: H8
Treatment protocol Monocyte-derived DCs were pre- treated for one hour with mouse IgG1 (20 µg/mL, R&D Systems), mouse anti-IL10R blocking antibody (10 µg/mL, R&D Systems) or mouse anti-TNFα Receptors 1 and 2 (10 µg/mL, R&D Systems) and then cultured with medium or LPS (100 ng/mL, LPS-EB Ultrapure, activates TLR4 only, Invivogen) for additional 4 or 8 hours based on the time point
Growth protocol Fresh blood samples collected from healthy donors were obtained from Hôpital Crozatier Établissement Français du Sang (EFS), Paris, France, in conformity with Institut Curie ethical guidelines. PBMCs were isolated by centrifugation on a Ficoll gradient (Ficoll-Paque PLUS, GE Healthcare Life Sciences). Monocytes were selected using antibody-coated magnetic beads and magnetic columns according to manufacturer’s instructions (CD14 MicroBeads, Miltenyi Biotec). To generate immature DCs, CD14+ cells were cultured for 5 days with IL-4 (50 ng/mL) and GM-CSF (10 ng/mL) in RPMI 1640 Medium, GlutaMAX (Life Technologies) with 10% FCS.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy micro kit (Qiagen) in accordance with manufacturer's
Label biotin
Label protocol Samples were amplified and labelled according to the protocol recommended by Affymetrix for hybridization to Human Genome U133 Plus 2.0 arrays.
 
Hybridization protocol Samples were amplified and labelled according to the protocol recommended by Affymetrix for hybridization to Human Genome U133 Plus 2.0 arrays.
Scan protocol Affymetrix GeneTitan device ( combined hybridization oven, fluidics processing, and imaging device )
Description gene expression data for MoDC stimulated 8 hours with LPS + anti-IL10R blocking antibodies
Data processing Expression data were normalized with Plier. Transcriptomics analysis was performed in a Matlab environment. For independent filtering, we used the function geneverfilter, which calculates the variance of each probe across the samples and identifies the ones with low variance. Probes with variance less the 40th percentile were filtered out because poorly informative.
 
Submission date Oct 31, 2016
Last update date Dec 17, 2020
Contact name Vassili Soumelis
Organization name INSERM
Department U976 - HIPI
Lab Human systems immunology and inflammatory networks
Street address 1 avenue Claude Vellefaux
City Paris
ZIP/Postal code 75010
Country France
 
Platform ID GPL17692
Series (1)
GSE89342 Dissection of intercellular communication using the transcriptome-based framework ICELLNET

Data table header descriptions
ID_REF
VALUE Arbitrary units of expression values after normalization with Plier (Matlab environment)

Data table
ID_REF VALUE
16876116 20.74809
16866275 64.55041
16714348 49.13603
16780651 44.36061
16761012 2854.747
16748111 45.40297
16748015 39.51746
16760978 14.14457
16761106 35.52494
16761118 50.35431
16935690 30.13377
16959623 25.98579
16843288 34.9181
16765284 80.38261
16758885 86.84203
17003602 14.15678
16947045 6.869959
16947026 6.539779
16659349 52.80441
16659343 16.0784

Total number of rows: 27784

Table truncated, full table size 485 Kbytes.




Supplementary file Size Download File type/resource
GSM2366342_Donor125_10.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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