NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM2044363 Query DataSets for GSM2044363
Status Public on Aug 01, 2016
Title PBMC_control_rep1
Sample type RNA
 
Source name PBMC, healthy infant, replicate 1
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 4.812613341
A_33_P3319026 5.264144929
A_24_P282108 5.612088059
A_23_P254888 9.014262945
A_23_P426140 5.245294757
A_24_P49533 3.818676475
A_32_P132589 2.34821457
A_33_P3256490 1.757730869
A_23_P303317 3.36205245
A_33_P3295423 5.05463286
A_33_P3334308 6.015735479
A_23_P502627 3.726482201
A_23_P63789 5.025639628
A_33_P3212994 5.072016809
A_33_P3433873 3.410059682
A_23_P64204 5.361543008
A_32_P109522 3.575265143
A_33_P3416420 3.52608888
A_21_P0000778 3.098332048
A_33_P3252989 6.995395662

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.




Supplementary file Size Download File type/resource
GSM2044363_C2.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap