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| Status |
Public on May 05, 2011 |
| Title |
Expression Data from HNF4a RNAi Knockdown in HepG2 cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
HNF4a is an important liver transcription factor that regulates at least a thousand genes in the liver. Here we used expression profiling in HepG2 cells, a hepatocellular carcinoma cell line, in which HNF4a was knocked down by RNAi to identify some of those target genes. This dataset accompanies the article in Hepatology 2010 Feb;51(2):642-53. Integrated approach for the identification of human hepatocyte nuclear factor 4alpha target genes using protein binding microarrays by Bolotin E, Liao H, Ta TC, Yang C, Hwang-Verslues W, Evans JR, Jiang T, Sladek FM.
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| Overall design |
RNA interference (RNAi) against HNF4a2 was performed in HepG2 cells using small, interfering RNAs (siRNAs) corresponding to nucleotides +179 to +197 of human HNF4A (NM_178849, sense siRNA: 5'-UGUGCAGGUGUUGACGAUGdTdT-3', antisense siRNA 5'-CAUCGUCAACACCUGCACAdTdT-3') (Dharmacon, Lafayette, CO). Total RNA was extracted with Trizol (Life Technologies, Carlsbad, CA) and reverse transcribed with the Reverse Transcription System (Promega, Madison, WI). Polymerase chain reaction (PCR) amplification was performed in the linear range (see Supporting Table 3B for a list of PCR primers). Expression profiling analysis was performed with Affymetrix oligonucleotide arrays (HGU133 Plus 2.0) using RNA from control (PGL3 siRNA) or treated (HNF4a siRNA) HepG2 cells
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| Contributor(s) |
Bolotin E, Sladek F |
| Citation(s) |
20054869 |
| Submission date |
May 05, 2011 |
| Last update date |
Mar 25, 2019 |
| Contact name |
Eugene L Bolotin |
| Organization name |
UC Riverside
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| Department |
Cell Biology and Neuroscience
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| Lab |
Frances Sladek Lab
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| Street address |
900 university ave
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| City |
Riverside |
| State/province |
CA |
| ZIP/Postal code |
92521 |
| Country |
USA |
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| Platforms (1) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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| Samples (4)
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| GSM720619 |
HepG2 cells, HNF4a RNAi treated, rep2 |
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| Relations |
| BioProject |
PRJNA140301 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE29084_RAW.tar |
15.8 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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