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Sample GSM3511841 Query DataSets for GSM3511841
Status Public on Jun 05, 2019
Title pILC2 donor: 806
Sample type RNA
 
Source name PB pILC2
Organism Homo sapiens
Characteristics donor: 806
cell type: pILC2
tissue: Peripheral Blood
Extracted molecule total RNA
Extraction protocol Buffy coats were provided by the blood bank (Sanquin, Amsterdam). Tonsils were obtained from routine tonsillectomies and tissue collection was done at the Academic Medical Center (AMC), Onze Lieve Vrouwe Gasthuis (OLVG) hospital (Amsterdam, The Netherlands). Inflamed nasal polyps were obtained from chronic rhinosinusitis patients during surgery and umbilical cord blood was collected at the AMC. The collection and use of all human samples was approved by the Medical Ethical Committee of the AMC and with informed consent. Peripheral blood and umbilical cord blood mononuclear cells were isolated by Ficoll-Hypaque density gradient (Lymphoprep; Axis-Shield). Tonsil tissue was cut in fine pieces and mechanically disrupted using the Stomacher 80 Biomaster. Cell suspensions were filtered through a 70- µm cell strainer. Nasal tissues were manually cut into fine pieces and digested for 45 min at 37°C with Liberase TM (125 µg/mL) and DNase I (50 U/mL). Cell suspensions were filtered through a 70 µm cell strainer. Mononuclear cells were then isolated by Ficoll-Hypaque density gradient. Subsequently, ILCs were isolated as described previously .
Label biotin
Label protocol Briefly, PB and cord blood was enriched for ILCs by immunomagnetic cell sorting, using a negative selection of CD3, CD14, CD16 and CD19 with Mojosort magnetic cell separation system (BioLegend, San Diego, CA, USA) Tonsillar mononuclear cells were depleted of CD3 and CD19 cells by MACS depletion. The cells suspensions were stained with antibodies against Lineage (CD1a, CD3, CD4, CD5, CD14, CD19, CD16, CD34, CD94, CD123, BDCA2, TCRαβ, TCRγδ, FcER1α), CD45, CD161, CD127, CD117, CRTH2, KLRG1, NKp44, NKp46, CD56 and IL-1R1. Cells were sorted on a FACSAria, purity of the sorted cells in all experiments was >99%.
 
Hybridization protocol Affymetrix protocol
Scan protocol Affymetrix protocol
Data processing R/Bioconductor, limma rma
 
Submission date Dec 13, 2018
Last update date Jun 05, 2019
Contact name Balthasar Adrianus Heesters
Organization name Utrecht University
Department Pharmaceutical Sciences
Lab Heesters
Street address Universiteitsweg 99
City Utrecht
State/province Utrecht
ZIP/Postal code 3584 CG
Country Netherlands
 
Platform ID GPL24324
Series (1)
GSE123817 KLRG1 and NKp46 discriminate subpopulations of human CD117+ CRTH2- ILCs biased toward ILC2 or ILC3

Data table header descriptions
ID_REF
VALUE log2 RMA signal

Data table
ID_REF VALUE
TC0100006437.hg.1 4.095919218
TC0100006476.hg.1 5.130763698
TC0100006479.hg.1 6.791690982
TC0100006480.hg.1 6.025977074
TC0100006483.hg.1 6.85371571
TC0100006486.hg.1 6.1398294
TC0100006490.hg.1 4.451030067
TC0100006492.hg.1 7.23943207
TC0100006494.hg.1 4.00125414
TC0100006497.hg.1 4.486332836
TC0100006499.hg.1 6.078436989
TC0100006501.hg.1 4.576020942
TC0100006502.hg.1 5.035105144
TC0100006514.hg.1 5.579470396
TC0100006516.hg.1 5.609140941
TC0100006517.hg.1 4.286175259
TC0100006524.hg.1 7.851315928
TC0100006540.hg.1 4.12336381
TC0100006548.hg.1 3.974281609
TC0100006550.hg.1 5.955590367

Total number of rows: 19367

Table truncated, full table size 565 Kbytes.




Supplementary file Size Download File type/resource
GSM3511841_08_E05.CEL.gz 1.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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