GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM4145467 Query DataSets for GSM4145467
Status Public on Nov 01, 2019
Title PDMC_IBMX_12hr_rep1
Sample type RNA
Source name PDMC, IBMX, 12hr, replicate 1
Organism Homo sapiens
Characteristics gender: female
age: 29
tissue: placenta
differentiation status: IBMX-induced neuronal differentiation
Extracted molecule total RNA
Extraction protocol RNeasy Mini Kit (Qiagen, Hilden, Germany) were used to extract total cellular RNA. Before microarray hybridization, each RNA sample was quantified using NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA) and qualified using Bioanalyzer RNA Nano 6000 chip (Agilent Technologies, Santa Clara, CA, USA).
Label Cy3
Label protocol 0.2 μg of total RNA was amplified by a Low Input Quick-Amp Labeling kit (Agilent Technologies, USA) and labeled with Cy3 (CyDye, Agilent Technologies, USA) during the in vitro transcription process.
Hybridization protocol 0.6 μg of Cy3-labled cRNA was fragmented to an average size of about 50-100 nucleotides by incubation with fragmentation buffer at 60°C for 30 minutes. Correspondingly fragmented labeled cRNA is then pooled and hybridized to Agilent SurePrint G3 Human GE 8×60K Microarray (Agilent Technologies, USA) at 65°C for 17 h.
Scan protocol After washing and drying by nitrogen gun blowing, microarrays are scanned with an Agilent microarray scanner (Agilent Technologies, USA) at 535 nm for Cy3.
Description 0.4 mM IBMX
Data processing Scanned images are analyzed by Feature extraction10.5.1.1 software (Agilent Technologies, USA), an image analysis and normalization software is used to quantify signal and background intensity for each feature.
Submission date Oct 31, 2019
Last update date Nov 01, 2019
Contact name Chih-Cheng Chien
Organization name Sijhih Cathay General Hospital
Street address No 2, Ln 59, Jian-Cheng Rd, Sijhih Dist
City New Taipei
ZIP/Postal code 22174
Country Taiwan
Platform ID GPL13607
Series (1)
GSE139656 Gene expressions of IBMX-induced neuron differentiation from placenta-derived multipotent stem cells

Data table header descriptions
VALUE Cy3 signal intensity after dye normalization

Data table
1 221853.5
2 5.997143
3 6.001882
4 722.1069
5 2537.472
6 41.17319
7 10008.46
8 9122.859
9 79.73356
10 61.30023
11 5.994344
12 1874.987
13 3666.63
14 1529.578
15 14461.47
16 5.953847
17 240.2098
18 38.75633
19 62.98246
20 1906.916

Total number of rows: 62976

Table truncated, full table size 904 Kbytes.

Supplementary file Size Download File type/resource
GSM4145467_15718_252800418467_1_3.txt.gz 12.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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