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Sample GSM2044369 Query DataSets for GSM2044369
Status Public on Aug 01, 2016
Title PBMC_ASD_rep3
Sample type RNA
Source name PBMC, autistic infant, replicate 3
Organism Homo sapiens
Characteristics diagnosis: autism
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 (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
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
VALUE normalized log2 transformed

Data table
A_23_P11507 5.092634147
A_33_P3319026 5.792261263
A_24_P282108 6.005861873
A_23_P254888 8.417825042
A_23_P426140 5.620849708
A_24_P49533 4.730332433
A_32_P132589 1.565886051
A_33_P3256490 1.750080672
A_23_P303317 3.990671227
A_33_P3295423 5.216430759
A_33_P3334308 6.505603072
A_23_P502627 4.516043915
A_23_P63789 3.499157517
A_33_P3212994 4.910932949
A_33_P3433873 2.909369827
A_23_P64204 6.539481345
A_32_P109522 4.509061587
A_33_P3416420 4.476000629
A_21_P0000778 4.130890602
A_33_P3252989 7.113021381

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.

Supplementary file Size Download File type/resource
GSM2044369_A4.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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