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Sample GSM2044365 Query DataSets for GSM2044365
Status Public on Aug 01, 2016
Title PBMC_control_rep3
Sample type RNA
 
Source name PBMC, healthy infant, replicate 3
Organism Homo sapiens
Characteristics diagnosis: healthy
tissue: whole blood
cell type: PBMC
Growth protocol PBMC was isolated by density gradient centrifugation on Percoll (d = 1.077) .
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions and purified by RNeasy MinElute Cleanup kit.
Label Cy3
Label protocol Complementary DNA amplification was carried out from 35 ng of total RNA using an Ovation PicoSL WTA System V2. After amplification, cDNA samples were labeled with Cy3 using Klenow polymerase.
 
Hybridization protocol Slide was hybridized with 1.65 μg Cy3-labeled cDNA using a Gene Expression Hybridization Kit (Agilent technologies, Santa Clara, CA, USA) in a hybridization oven.
Scan protocol After 17 h of hybridization at 65 °C, the slide was washed with a Gene Expression Wash Buffer Kit (Agilent technologies, Santa Clara, CA, USA), according to the manufacturer’s instructions. Slides were scanned after washing on the Agilent DNA Microarray Scanner (G2505C) using one color scan setting for 8x60k array slides.
Data processing The scanned images were analyzed with Feature Extraction Software 11.0.1.1 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. The intensity signals was imported to CLC Main workbench 6.0 and normalized by the quartile normalization method and log2 transformed.
 
Submission date Jan 21, 2016
Last update date Aug 01, 2016
Contact name Ryo Inoue
E-mail(s) r-inoue@kpu.ac.jp
Organization name Kyoto Prefectural University
Street address 1-5, Hangi-cho, shimogamo
City Kyoto
ZIP/Postal code 606-8522
Country Japan
 
Platform ID GPL17077
Series (1)
GSE77103 Gene expression in peripheral blood mononuclear cells from healthy control and autistic infants

Data table header descriptions
ID_REF
VALUE normalized log2 transformed

Data table
ID_REF VALUE
A_23_P11507 6.347951775
A_33_P3319026 6.523650015
A_24_P282108 6.771142702
A_23_P254888 8.77816824
A_23_P426140 6.075132941
A_24_P49533 5.32724027
A_32_P132589 1.574578754
A_33_P3256490 1.99021041
A_23_P303317 4.260965887
A_33_P3295423 5.932177806
A_33_P3334308 7.035035056
A_23_P502627 4.196517099
A_23_P63789 5.558070789
A_33_P3212994 5.364864969
A_33_P3433873 5.888103786
A_23_P64204 7.155347494
A_32_P109522 5.722282978
A_33_P3416420 5.18051206
A_21_P0000778 3.61749555
A_33_P3252989 9.318123017

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.




Supplementary file Size Download File type/resource
GSM2044365_C5.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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