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Search results for the GEO ID: GSE40960

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GSM1005596

GPL570

HMVEC-D-untreated-Biological Rep1

HMVEC-D-untreated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: none (control)

sm011107_sample-a1 Data providing basal endothelial cell expression

Sample_geo_accession	GSM1005596
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005596/suppl/GSM1005596_SM011107_SampleA1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005596/suppl/GSM1005596_SM011107_SampleA1.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

GSM1005597

GPL570

HMVEC-D-untreated-Biological Rep2

HMVEC-D-untreated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: none (control)

sm011107_sample-a2 Data providing basal endothelial cell expression

Sample_geo_accession	GSM1005597
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005597/suppl/GSM1005597_SM011107_SampleA2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005597/suppl/GSM1005597_SM011107_SampleA2.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

GSM1005598

GPL570

HMVEC-D-untreated-Biological Rep3

HMVEC-D-untreated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: none (control)

sm011107_sample-a3 Data providing basal endothelial cell expression

Sample_geo_accession	GSM1005598
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005598/suppl/GSM1005598_SM011107_SampleA3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005598/suppl/GSM1005598_SM011107_SampleA3.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

GSM1005599

GPL570

HMVEC-D-BMP9treated-Biological Rep1

HMVEC-D-BMP9-treated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: 5 ng/ml human recombinant BMP9 for 24hrs

sm011107_sample-b1 Data providing endothelial cell expression following BMP9 treatment for 24 hours

Sample_geo_accession	GSM1005599
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005599/suppl/GSM1005599_SM011107_SampleB1.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005599/suppl/GSM1005599_SM011107_SampleB1.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

GSM1005600

GPL570

HMVEC-D-BMP9treated-Biological Rep2

HMVEC-D-BMP9-treated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: 5 ng/ml human recombinant BMP9 for 24hrs

sm011107_sample-b2 Data providing endothelial cell expression following BMP9 treatment for 24 hours

Sample_geo_accession	GSM1005600
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005600/suppl/GSM1005600_SM011107_SampleB2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005600/suppl/GSM1005600_SM011107_SampleB2.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

GSM1005601

GPL570

HMVEC-D-BMP9treated-Biological Rep3

HMVEC-D-BMP9-treated

cell type: cultured passage-3 human dermal microvascular endothelial cells media: complete EBM2 endothelial cell media treated with: 5 ng/ml human recombinant BMP9 for 24hrs

sm011107_sample-b3 Data providing endothelial cell expression following BMP9 treatment for 24 hours

Sample_geo_accession	GSM1005601
Sample_status	Public on Sep 19 2012
Sample_submission_date	Sep 18 2012
Sample_last_update_date	Sep 19 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors. Following 24 hours of culture, the cells in the BMP9-treated arm of the study were provided BMP9 at 5 ng/ml. Cwells were harvested 24 hours later and polyA+ RNA was prepared.
Sample_growth_protocol_ch1	Low passage HMVEC-D were grown under standard conditions human dermal microvascular endothelial cells were maintained in EGM-2-MV medium (Lonza) at 37°C and 5% CO2. EGM-2-MV medium consists of EMB-2 with 1% fetal bovine serum and other additives, including growth factors.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Slides are prehybridization buffer: 5x SSC, 0.1% SDS and 1% BSA (Sigma #B-4287) and heated to 50°C while stirring. Slides are placed in 2X hybridization buffer: 50% formamide, 10X SSC and 0.2% SDS. Incubate the solution until it reaches 48°C. The Cy3 and Cy5 labeled targets are suspended in 9 µl water, and the mixture is heated to 95°C for 3 min to denature, and centrifuged at maximum angular velocity for 1 min. The slide is placed in a sealed hybridization chamber (Corning, Acton, MA), and 12 µl water is added to the small reservoirs at each end of the chamber. The sealed chamber is placed in a 48°C water bath and incubated for 40-60 hr.
Sample_scan_protocol	The finished microarray slide is scanned and gridded using an Axon GenePix 4000 A or B with GenePixPro 5.0 software (Axon Instruments, Sunnyvale, CA).
Sample_data_processing	The raw data from the microarray study are statistically analyzed in three steps: (i) the data are normalized [Algorithm: ExpressionStat 5.0], (ii) ANOVA for each gene is determined, and (iii) clustering analysis is carried out. The statistically analyzed datasets are merged into EASE computer programs to determine biological meaning.
Sample_platform_id	GPL570
Sample_contact_name	Calvin,,Vary
Sample_contact_email	varyc@mmc.org
Sample_contact_phone	207-396-8148
Sample_contact_fax	207-396-8179
Sample_contact_department	Maine Medical Center Research Institute
Sample_contact_institute	Maine Medical Center
Sample_contact_address	81 Research Drive
Sample_contact_city	Scarborough
Sample_contact_state	Maine
Sample_contact_zip/postal_code	04074
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005601/suppl/GSM1005601_SM011107_SampleB3.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1005nnn/GSM1005601/suppl/GSM1005601_SM011107_SampleB3.CHP.gz
Sample_series_id	GSE40960
Sample_data_row_count	54675

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