E-GEOD-13273 - siRNA profiling of human SH-SY5Y cells after LSD1 knock down

Status
Submitted on 19 October 2008, released on 13 November 2008, last updated on 10 June 2011
Organism
Homo sapiens
Samples (4)
Array (1)
Protocols (3)
Description
To analyze the functional relevance of LSD1 in neuroblastic tumors, SH-SY5Y cells were transiently transfected with siRNA directed against LSD1 or with a scrambled control siRNA. Microarray analysis revealed changes in expression that were consistent with these observations 72 hours after LSD1 knock-down. At this time, 28 genes were significantly induced at least 1.5-fold and 29 genes were significantly repressed at least 1.5-fold. Among the 28 induced genes, 4 are markers of cytoskeletal remodelling (TNS1, TPM1, DNM2, DNAL4), indicating differentiation, and 3 (TPM1, DNM2 and SHANK2) are functionally linked to neurite dynamics and synaptic trafficking. TaqMan quantitative RT-PCR confirmed the expression changes detected via microarray analysis for LSD1, DNAL4, DNM2, TNS1 and TPM1 Experiment Overall Design: SH-SY5Y cells were transfected with siRNA directed against LSD1 or control siRNA. 2 independent transfection experiments were performed each. Reverse transcription, labelling of total RNA and subsequent hybridization to Affymetrix U133v2 chips were performed according to the manufacturer´s protocols
Experiment types
RNAi profiling by array, unknown experiment type
Contact
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-13273.idf.txt
Sample and data relationshipE-GEOD-13273.sdrf.txt
Raw data (1)E-GEOD-13273.raw.1.zip
Processed data (1)E-GEOD-13273.processed.1.zip
Array designA-AFFY-44.adf.txt
R ExpressionSetE-GEOD-13273.eSet.r
Links