Result

Search results for the GEO ID: GSE36487

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM894977

GPL96

smc_untreated LDL_21h

Human vSMCs 21h after treatment with unoxidized LDL

tissue: vascular smooth muscle treatment: with unoxidized LDL

Human vSMCs 21h after treatment with unoxidized LDL

Sample_geo_accession	GSM894977
Sample_status	Public on Mar 16 2012
Sample_submission_date	Mar 13 2012
Sample_last_update_date	Mar 16 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	The cells were then washed and incubated in SmBM+0.5% FBS in the absence or presence of unoxidized LDL or moxLDL (2 μg/ml) for 3h and 21h. These two time points were used for the analysis of the regulation of early and late atherogenesis response genes, respectively. Each reaction was performed in quadruplicate.
Sample_growth_protocol_ch1	Human coronary artery SMCs were purchased from Clonetics (Walkersville, MD) and cultured according to the manufacturer‟s instructions and used between passages 4-7. Confluent SMC cultures were synchronized to quiescence by incubation for 48h in basal medium (SmBM) containing 0.5% FBS.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	DNA-free mRNA was extracted from the cells and mRNA samples from corresponding cell cultures were pooled to reduce inter-sample variation.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA samples were biotinylated for hybridization according to protocols supplied by Affymetrix
Sample_hyb_protocol	Biotinylated cRNA samples were hybridized to HG-U133A oligonucleotide array Gene Chip (Affymetrix, Santa Clara, CA) following the manufacturer's protocol.
Sample_scan_protocol	The arrays were stained with streptavidin-phycoerythrin and scanned using the GeneChip Scanner 3000. The data files were analyzed using Affymetrix GeneChipH Software (GCOS) version 1.0 to identify differentially expressed genes.
Sample_data_processing	We processed the original Affymetrix HG-U133A CEL image data files using the Bioconductor Affy library for R. Background correction and normalization was performed on the datasets using the RMA method
Sample_platform_id	GPL96
Sample_contact_name	Jochen,,Weile
Sample_contact_email	jochen.weile@mail.utoronto.ca
Sample_contact_laboratory	Roth Lab
Sample_contact_department	Department of Molecular Genetics
Sample_contact_institute	University of Toronto
Sample_contact_address	160 College Street
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M2N 0A9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM894nnn/GSM894977/suppl/GSM894977.CEL.gz
Sample_series_id	GSE36487
Sample_data_row_count	22283

GSM894978

GPL96

smc_moxLDL_3h

Human vSMCs 3h after treatment with moxLDL

tissue: vascular smooth muscle treatment: with moxLDL (2 ug/ml)

Human vSMCs 3h after treatment with moxLDL

Sample_geo_accession	GSM894978
Sample_status	Public on Mar 16 2012
Sample_submission_date	Mar 13 2012
Sample_last_update_date	Mar 16 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	The cells were then washed and incubated in SmBM+0.5% FBS in the absence or presence of unoxidized LDL or moxLDL (2 μg/ml) for 3h and 21h. These two time points were used for the analysis of the regulation of early and late atherogenesis response genes, respectively. Each reaction was performed in quadruplicate.
Sample_growth_protocol_ch1	Human coronary artery SMCs were purchased from Clonetics (Walkersville, MD) and cultured according to the manufacturer‟s instructions and used between passages 4-7. Confluent SMC cultures were synchronized to quiescence by incubation for 48h in basal medium (SmBM) containing 0.5% FBS.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	DNA-free mRNA was extracted from the cells and mRNA samples from corresponding cell cultures were pooled to reduce inter-sample variation.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA samples were biotinylated for hybridization according to protocols supplied by Affymetrix
Sample_hyb_protocol	Biotinylated cRNA samples were hybridized to HG-U133A oligonucleotide array Gene Chip (Affymetrix, Santa Clara, CA) following the manufacturer's protocol.
Sample_scan_protocol	The arrays were stained with streptavidin-phycoerythrin and scanned using the GeneChip Scanner 3000. The data files were analyzed using Affymetrix GeneChipH Software (GCOS) version 1.0 to identify differentially expressed genes.
Sample_data_processing	We processed the original Affymetrix HG-U133A CEL image data files using the Bioconductor Affy library for R. Background correction and normalization was performed on the datasets using the RMA method
Sample_platform_id	GPL96
Sample_contact_name	Jochen,,Weile
Sample_contact_email	jochen.weile@mail.utoronto.ca
Sample_contact_laboratory	Roth Lab
Sample_contact_department	Department of Molecular Genetics
Sample_contact_institute	University of Toronto
Sample_contact_address	160 College Street
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M2N 0A9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM894nnn/GSM894978/suppl/GSM894978.CEL.gz
Sample_series_id	GSE36487
Sample_data_row_count	22283

GSM894979

GPL96

smc_moxLDL_21h

Human vSMCs 21h after treatment with moxLDL

tissue: vascular smooth muscle treatment: with moxLDL (2 ug/ml)

Human vSMCs 21h after treatment with moxLDL

Sample_geo_accession	GSM894979
Sample_status	Public on Mar 16 2012
Sample_submission_date	Mar 13 2012
Sample_last_update_date	Mar 16 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	The cells were then washed and incubated in SmBM+0.5% FBS in the absence or presence of unoxidized LDL or moxLDL (2 μg/ml) for 3h and 21h. These two time points were used for the analysis of the regulation of early and late atherogenesis response genes, respectively. Each reaction was performed in quadruplicate.
Sample_growth_protocol_ch1	Human coronary artery SMCs were purchased from Clonetics (Walkersville, MD) and cultured according to the manufacturer‟s instructions and used between passages 4-7. Confluent SMC cultures were synchronized to quiescence by incubation for 48h in basal medium (SmBM) containing 0.5% FBS.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	DNA-free mRNA was extracted from the cells and mRNA samples from corresponding cell cultures were pooled to reduce inter-sample variation.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA samples were biotinylated for hybridization according to protocols supplied by Affymetrix
Sample_hyb_protocol	Biotinylated cRNA samples were hybridized to HG-U133A oligonucleotide array Gene Chip (Affymetrix, Santa Clara, CA) following the manufacturer's protocol.
Sample_scan_protocol	The arrays were stained with streptavidin-phycoerythrin and scanned using the GeneChip Scanner 3000. The data files were analyzed using Affymetrix GeneChipH Software (GCOS) version 1.0 to identify differentially expressed genes.
Sample_data_processing	We processed the original Affymetrix HG-U133A CEL image data files using the Bioconductor Affy library for R. Background correction and normalization was performed on the datasets using the RMA method
Sample_platform_id	GPL96
Sample_contact_name	Jochen,,Weile
Sample_contact_email	jochen.weile@mail.utoronto.ca
Sample_contact_laboratory	Roth Lab
Sample_contact_department	Department of Molecular Genetics
Sample_contact_institute	University of Toronto
Sample_contact_address	160 College Street
Sample_contact_city	Toronto
Sample_contact_state	ON
Sample_contact_zip/postal_code	M2N 0A9
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM894nnn/GSM894979/suppl/GSM894979.CEL.gz
Sample_series_id	GSE36487
Sample_data_row_count	22283

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