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Sample GSM1904749 Query DataSets for GSM1904749
Status Public on Oct 10, 2015
Title Control, repeat 3
Sample type RNA
Source name Control cells expressing the empty vector
Organism Homo sapiens
Characteristics cell type: Cultured cancer cells
cell line: H1299
Treatment protocol Before transfection, cells were seeded into normal growth medium at 50% confluence in six-well tissue plates. The FuGENE HD transfection reagent (Promega, Fitchburg, WI, USA) was applied according to the product manual. Briefely, the transfection complex was made by 1 μg plasmid, 3 μl FuGENE HD and 100 μl media. Six hours after the complex was added to the cells, normal culture media was used to culture cells for additional 48 h
Growth protocol The human H1299 (p53-null) cells were maintained in DMEM medium (Gibco, Gaithersburg, MD, USA) supplemented with 10% fetal bovine serum (Invitrogen) and cultured in a humidified incubator at 37 °C under 5% CO2.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Rneasy mini Kit from QIAGEN following the product manual.
Label Biotin
Label protocol A total of 200 ng small RNA was used in sample preparation with a FlashTag Biotin RNA Labeling Kit for Affymetrix GeneChip miRNA arrays (Genisphere).
Hybridization protocol The labeled RNA was consequently hybridized for sixteen hours to an Affymetrix GeneChip miRNA array according to the product manual.
Scan protocol Microarrays were washed and stained in the Affymetrix Fluidics Station 450, and scanned on the Affymetrix G3000 GeneArray Scanner.
Description miRNA expression profile
Data processing The image files were analyzed using the Affymetrix software (Expression Console)
Submission date Oct 09, 2015
Last update date Oct 10, 2015
Contact name Jie Xu
Organization name Shanghai Institute for Digestive Diseases
Department Shanghai Renji Hospital
Lab State Key Laboratory for Oncogenes and Related Genes
Street address Shandong Rd 145
City Shanghai
ZIP/Postal code 200001
Country China
Platform ID GPL19117
Series (1)
GSE73876 Effect of mutant p53 R282W on miRNA expression

Data table header descriptions
VALUE Values were processed by Robust Multi-array Average (RMA) background correction, log-2 transformations and global normalization methods were performed for data pre-processing, and normalization.

Data table
MIMAT0000062_st 10.97585
MIMAT0004481_st -0.4838451
MIMAT0010195_st 2.03137
MIMAT0000063_st 9.920531
MIMAT0004482_st 0.6758785
MIMAT0000064_st 8.532413
MIMAT0026472_st -0.4388121
MIMAT0000065_st 7.563807
MIMAT0004484_st -0.09167233
MIMAT0000066_st 10.01233
MIMAT0004485_st 0.7819018
MIMAT0000067_st 5.571357
MIMAT0004486_st -0.09321678
MIMAT0004487_st -0.4920346
MIMAT0000068_st 5.855622
MIMAT0004488_st -0.1728506
MIMAT0000069_st 11.01736
MIMAT0004489_st -0.1701272
MIMAT0000070_st 11.11371
MIMAT0000071_st 3.335639

Total number of rows: 6658

Table truncated, full table size 170 Kbytes.

Supplementary file Size Download File type/resource
GSM1904749_NC3.CEL.gz 648.8 Kb (ftp)(http) CEL
Processed data included within Sample table

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