Comment[GEAAccession]	E-GEAD-631
MAGE-TAB Version	1.1
Investigation Title	Cutibacterium acnes as a candidate pathogen of prostate cancers
Experiment Description	We analyzed the gene expression profiles of the prostate epithelial cells infected with Cutibacterium acnes to investigate if this bacterial infection can influence the gene expression of the prostate cells.
Experimental Design	pathogenicity design
Experimental Factor Name	exposure time
Experimental Factor Type	exposure time
Person Last Name	Ashida
Person First Name	Shingo
Person Affiliation	Kochi Medical School
Person Roles	submitter
Public Release Date	2024-04-01
Protocol Name	P-GEAD-1907	P-GEAD-1908	P-GEAD-1909	P-GEAD-1910	P-GEAD-1911	P-GEAD-1912
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid labeling protocol	nucleic acid hybridization to array protocol	array scanning and feature extraction protocol	normalization data transformation protocol
Protocol Description	PrEC cells were cultured in PrEGM medium (Lonza Group Ltd.) and infected with C. acnes for 24 hours, 48 hours, and 2 weeks.	Total RNA was extracted from PrEC cells using the RNeasy Micro Kit (Qiagen GmbH) according to the manufacturer's instructions. cDNA was synthesized using the GeneChip WT (Whole Transcript) Amplification kit as described by the manufacturer.	The sense cDNA was then fragmented and biotin-labeled with TdT (terminal deoxynucleotidyl transferase) using the GeneChip WT Terminal labeling kit.	As per Affymetrix instructions.	Hybridized arrays were washed and stained on a GeneChip Fluidics Station 450 and scanned on a GCS3000 Scanner (Affymetrix). Array data export processing and analysis was performed using Affymetrix GeneChip Command Console Software (AGCC). Array data export processing and analysis was performed using Affymetrix GeneChip Command Console Software (AGCC).	Standard affymetrix protocols.
SDRF File	E-GEAD-631.sdrf.txt
Comment[Number of channel]	single-channel
Comment[Array Design REF]	A-AFFY-44
Comment[AEExperimentType]	ChIP-chip by array
Comment[BioProject]	PRJDB16274
Comment[Last Update Date]	2024-04-01