Search results for the GEO ID: GSE12217  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM307202 | GPL341 |
|
CAS 10
|
Weaning rat mammary gland, life-time exposures to casein based diet AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time exposures to casein based diet AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307202
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307202/suppl/GSM307202.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307203 | GPL341 |
|
CAS 18
|
Weaning rat mammary gland, life-time ingestion of casein based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time ingestion of casein based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307203
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307203/suppl/GSM307203.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307204 | GPL341 |
|
CAS 20
|
Weaning rat mammary gland, life-time exposure to casein based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time exposure to casein based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307204
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307204/suppl/GSM307204.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307205 | GPL341 |
|
CAS 6
|
Weaning rat mammary gland, life-time expose to casein based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to casein based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307205
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307205/suppl/GSM307205.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307206 | GPL341 |
|
CAS 7
|
Weaning rat mammary gland, life-time expose to casein based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to casein based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307206
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307206/suppl/GSM307206.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307207 | GPL341 |
|
SPI 147
|
Weaning rat mammary gland, life-time expose to soy protein isolate based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to soy protein isolate based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307207
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307207/suppl/GSM307207.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307208 | GPL341 |
|
SPI 149
|
Weaning rat mammary gland, life-time expose to soy protein isolate based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to soy protein isolate based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307208
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307208/suppl/GSM307208.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307209 | GPL341 |
|
SPI 155
|
Weaning rat mammary gland, life-time expose to soy protein isolate based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to soy protein isolate based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307209
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307209/suppl/GSM307209.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307210 | GPL341 |
|
SPI 157
|
Weaning rat mammary gland, life-time expose to soy protein isolate based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to soy protein isolate based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307210
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307210/suppl/GSM307210.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
| | |
|
GSM307211 | GPL341 |
|
SPI 159
|
Weaning rat mammary gland, life-time expose to soy protein isolate based AIN-93G diet
|
Female Sprague-Dawley rat, postnatal day 21, life-time expose to soy protein isolate based AIN-93G diet
|
Bacterial sequence-derived probes on the arrays served as external controls for hybridization, whereas the housekeeping genes β-actin and GAPDH served as endogenous controls and for monitoring the quality of the RNA target.
|
| Sample_geo_accession | GSM307211
| | Sample_status | Public on Jul 23 2009
| | Sample_submission_date | Jul 23 2008
| | Sample_last_update_date | Jul 24 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | TriTRIzol extraction procedure, followed by a cleanup using QIAGEN RNeasy Mini kit.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | RNA from PND21 rat was used for cDNA synthesis using a T7-(deoxythymidine)24 primer and Superscript II (Life Technologies, Inc., Gaithersburg, MD). The resulting cDNA was used with the ENZO BioArray High Yield RNA Transcript labeling kit (ENZO, Farmingdale, NY) to synthesize biotin-labeled cRNA. The cRNA was purified on RNeasy spin columns (QIAGEN) and subjected to chemical fragmentation (size range of 35 to 200 bp). Three replicate cRNA targets were made in parallel starting from each RNA pool
| | Sample_hyb_protocol | 10 ug of cRNA was hybridized for 16 hours to an Affymetrix (Santa Clara, CA) rat RAE230A GeneChip (3-4 chips used per diet group), followed by incubations with streptavidin-conjugated phycoerythrin, and then with polyclonal anti-streptavidin antibody coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using an Agilent GeneArray laser scanner. Images were analyzed using Affymetrix MAS 5.0 software.
| | Sample_data_processing | Value column are raw signal intensity generated from MAS 5.0.
| | Sample_platform_id | GPL341
| | Sample_contact_name | Ying,,Su
| | Sample_contact_email | suying@uams.edu
| | Sample_contact_phone | 501-364-2033
| | Sample_contact_fax | 501-364-3161
| | Sample_contact_department | physiology
| | Sample_contact_institute | UAMS
| | Sample_contact_address | 1120 Marshall St. South Campus
| | Sample_contact_city | Little Rock
| | Sample_contact_state | AR
| | Sample_contact_zip/postal_code | 72202
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM307nnn/GSM307211/suppl/GSM307211.CEL.gz
| | Sample_series_id | GSE12217
| | Sample_data_row_count | 15923
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| Select GSMs and click on "Add groups" |
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