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Sample GSM2198053 Query DataSets for GSM2198053
Status Public on Dec 16, 2016
Title LN2 CD36+#1
Sample type RNA
 
Source name LN2 CD36+
Organism Homo sapiens
Characteristics group: LN2
cd36 population: CD36+
conc.ng.ul: 358.11
Growth protocol Cells were grown in an orthotopic xenograft model in NOD-SCIDγ mice (NSG)
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from FACS sorted cells with RNAClean XP kit– Agentcourt A63987 following the manufacturer’s instructions and immediately amplified using the TransPlex Complete Whole Transcriptome Amplification Kit (Sigma WTA2) to generate the cDNA
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cDNA was prepared from 500ng of ds cDNA using the SureTag Complete DNA Labeling kit (Agilent 5190-4240) according to manufacturer’s instructions. Dye incorporation and cDNA yield were checked with the NanoDrop ND-1000 Spectophotometer.
 
Hybridization protocol 600ng of Cy3 labeled cDNA was directly mix with hybridization buffer and Agilent blocking agent incubated at 95ºC for 3 minutes and immediately transfer on ice. Then, it was hybridized on microarrays for 40h at 65ºC in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent)
Scan protocol The intensity data of each individual hybridization were extracted and the quality was assessed with the Feature Extraction software 10.7 (Agilent).
Description 759 2016
Data processing Background correction was applied with normexp method and offset=45. Quantile normalization followed by avereps to average over replicate probes. All functions from the R limma package
 
Submission date Jun 13, 2016
Last update date Dec 16, 2016
Contact name Antoni Berenguer-LLergo
E-mail(s) aberenguerl@tauli.cat
Organization name Parc Taulí Research and Innovation Institute (I3PT)
Department A8G2 Group - Rheumatology Service
Street address Parc del Taulí, 1
City Sabadell
State/province Barcelona
ZIP/Postal code 08208
Country Spain
 
Platform ID GPL17077
Series (1)
GSE83276 Targeting metastasis stem cells through the fatty acid receptor CD36

Data table header descriptions
ID_REF
VALUE log2 expression values

Data table
ID_REF VALUE
GE_BrightCorner 15.43235622
DarkCorner 5.950373139
A_23_P117082 11.14473291
A_33_P3246448 6.946892919
A_33_P3318220 6.417346415
A_33_P3236322 13.28676166
A_33_P3319925 6.935151585
A_21_P0000509 9.329685987
A_21_P0000744 8.624966978
A_24_P215804 8.857409293
A_23_P110167 12.02715427
A_33_P3211513 12.97700273
A_23_P103349 8.268884662
A_32_P61480 6.001057621
A_33_P3788124 6.006678057
A_33_P3414202 13.13530059
A_33_P3316686 9.32610277
A_33_P3300975 8.676597286
A_33_P3263061 10.45016915
A_33_P3261373 7.337354403

Total number of rows: 50739

Table truncated, full table size 1259 Kbytes.




Supplementary file Size Download File type/resource
GSM2198053_133_NA_1300253949445873_Cy3_759_2016_1_3.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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