Result

Search results for the GEO ID: GSE15322

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Description

Characteristics

GSM384860

GPL570

CCD-18Co CONTROL (contains only the mixture of enzymes + salts)_24h_biological rep1

CCD-18Co fibroblasts, control mixture

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: control mixture treatment time: 24h

Gene expression data from normal colon CCD-18Co cells exposed for 24h to a control mixture containing only the equivalent quantities of digestive enzymes and salts as those used in the in vitro gastro-duodenal digestion of the orange extract.

Sample_geo_accession	GSM384860
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384860/suppl/GSM384860.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

GSM384861

GPL570

CCD-18Co CONTROL (contains only the mixture of enzymes + salts)_24h_biological rep2

CCD-18Co fibroblasts, control mixture

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: control mixture treatment time: 24h

Sample_geo_accession	GSM384861
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384861/suppl/GSM384861.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

GSM384862

GPL570

CCD-18Co CONTROL (contains only the mixture of enzymes + salts)_24h_biological rep3

CCD-18Co fibroblasts, control mixture

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: control mixture treatment time: 24h

Sample_geo_accession	GSM384862
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384862/suppl/GSM384862.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

GSM384863

GPL570

CCD-18Co TREATED (digested orange extract, 60 μM total flavanones)_24h_biological rep1

CCD-18Co fibroblasts, pre-digested orange extract rich in flavanones

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: pre-digested orange extract containing a mixture of flavanones treatment time: 24h

Gene expression data from normal colon CCD-18Co cells exposed for 24h to a pre-digested orange extract containing a mixture of flavanones.

Sample_geo_accession	GSM384863
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384863/suppl/GSM384863.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

GSM384864

GPL570

CCD-18Co TREATED (digested orange extract, 60 μM total flavanones)_24h_biological rep2

CCD-18Co fibroblasts, pre-digested orange extract rich in flavanones

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: pre-digested orange extract containing a mixture of flavanones treatment time: 24h

Gene expression data from normal colon CCD-18Co cells exposed for 24h to a pre-digested orange extract containing a mixture of flavanones.

Sample_geo_accession	GSM384864
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384864/suppl/GSM384864.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

GSM384865

GPL570

CCD-18Co TREATED (digested orange extract, 60 μM total flavanones)_24h_biological rep3

CCD-18Co fibroblasts, pre-digested orange extract rich in flavanones

cell line: CCD-18Co cell type: Normal human colon fibroblasts cells confluency: ~90% confluent monolayer treatment: pre-digested orange extract containing a mixture of flavanones treatment time: 24h

Gene expression data from normal colon CCD-18Co cells exposed for 24h to a pre-digested orange extract containing a mixture of flavanones.

Sample_geo_accession	GSM384865
Sample_status	Public on Mar 21 2009
Sample_submission_date	Mar 20 2009
Sample_last_update_date	Mar 20 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	CCD-18Co cells were treated as follows: i) Control cells (C): treated for 24 h with the equivalent quantities of digestive enzymes and salts as those used in the treated group; ii) Treated cells (T): pre-digested orange bitter extract (final concentration of total flavanones in the culture medium, ~60 μM) for 24h.
Sample_growth_protocol_ch1	Human colon fibroblasts cells (CCD-18Co) were obtained from the American Type Culture Collection (ATCC) (Rockville, MD, USA). Cells were grown in Eagle´s minimum essential medium (EMEM) supplemented with 2 mM L-glutamine, 0.1 mM nonessential amino acids, 1 mM sodium pyruvate, 1.5 g/L sodium bicarbonate, 100 U mL-1 penicillin, 100 μg mL-1 streptomycin (Gibco, Invitrogen S.A., Barcelona, Spain) and 10% v/v foetal bovine serum (FBS) at a final pH 7.2–7.4 and maintained at 37°C under a 5% CO2/95% air atmosphere at constant humidity. For the experiments, cells between passage number 13 and 14 (doubling population between 30 and 35) were seeded onto 6-wells plates at a density of 6000 cells cm-2, and used on day 5 after seeding (~90% confluent monolayers).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated using an RNeasy ® Mini Kit (Qiagen) according to the manufacturer's instructions. RNA was eluted in RNAse-free water, aliquoted and stored at –80ºC.
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, 2004, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the GeneChip Scanner 3000.
Sample_data_processing	The data were analyzed with Robust Multichip Average (RMA) using CEL files obtained from GCOS software (Affymetrix).
Sample_platform_id	GPL570
Sample_contact_name	María-Teresa,,García-Conesa
Sample_contact_email	mtconesa@cebas.csic.es
Sample_contact_phone	+ 34 968 396276
Sample_contact_department	Quality, Safety and Bioactivity of Plant Foods
Sample_contact_institute	CEBAS-CSIC
Sample_contact_address	Campus de Espinardo
Sample_contact_city	Espinardo
Sample_contact_state	Murcia
Sample_contact_zip/postal_code	30100
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM384nnn/GSM384865/suppl/GSM384865.CEL.gz
Sample_series_id	GSE15322
Sample_data_row_count	54675

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