Search results for the GEO ID: GSE6970  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM159846 | GPL339 |
|
JT_Gm1_01
|
hypertrophy in males
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
male mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM159846
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 01 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM159nnn/GSM159846/suppl/GSM159846.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM159849 | GPL339 |
|
JT_Gm2_02
|
hypertrophy in males
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
male mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM159849
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 01 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM159nnn/GSM159849/suppl/GSM159849.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM159931 | GPL339 |
|
JT_Gm4_03
|
hypertrophy in males
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
male mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM159931
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 01 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM159nnn/GSM159931/suppl/GSM159931.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM159932 | GPL339 |
|
JT_Gm5_04
|
hypertrophy in males
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
male mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM159932
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 01 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM159nnn/GSM159932/suppl/GSM159932.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160222 | GPL339 |
|
JT_Gw1_05
|
hypertrophy in females
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
female mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM160222
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160222/suppl/GSM160222.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160298 | GPL339 |
|
JT_Gw2_06
|
hypertrophy in females
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
female mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM160298
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160298/suppl/GSM160298.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160313 | GPL339 |
|
JT_Gw3_07
|
hypertrophy in females
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
female mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM160313
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160313/suppl/GSM160313.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160315 | GPL339 |
|
JT_Gw5_08
|
hypertrophy in females
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
female mouse with cardiac hypertrophy induced by transverse aortic constriction
|
| Sample_geo_accession | GSM160315
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Transverse aortic constriction (TAC) was preformed to induce cardiac hypertrophy. For the TAC the animals were anesthetized via the intra-peritoneal injection of ketamine (50mg/kg body weight) in combination with isoflurane (2-3%). Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160315/suppl/GSM160315.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160319 | GPL339 |
|
JT_Sm1_09
|
sham operated male
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
sham operated male control mouse
|
| Sample_geo_accession | GSM160319
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160319/suppl/GSM160319.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160323 | GPL339 |
|
JT_Sm2_10
|
sham operated male
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
sham operated male control mouse
|
| Sample_geo_accession | GSM160323
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160323/suppl/GSM160323.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160330 | GPL339 |
|
JT_Sm3_11
|
sham operated male
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
sham operated male control mouse
|
| Sample_geo_accession | GSM160330
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160330/suppl/GSM160330.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160333 | GPL339 |
|
JT_Sm4_12
|
sham operated male
|
strain: C57BL/6J
age: 12-14 weeks
sex: male
|
sham operated male control mouse
|
| Sample_geo_accession | GSM160333
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160333/suppl/GSM160333.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160339 | GPL339 |
|
JT_Sw1_13
|
sham operated female
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
sham operated female control mouse
|
| Sample_geo_accession | GSM160339
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160339/suppl/GSM160339.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160340 | GPL339 |
|
JT_Sw2_14
|
sham operated female
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
sham operated female control mouse
|
| Sample_geo_accession | GSM160340
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160340/suppl/GSM160340.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160341 | GPL339 |
|
JT_Sw3_15
|
sham operated female
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
sham operated female control mouse
|
| Sample_geo_accession | GSM160341
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160341/suppl/GSM160341.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
|
GSM160342 | GPL339 |
|
JT_Sw4_16
|
sham operated female
|
strain: C57BL/6J
age: 12-14 weeks
sex: female
|
sham operated female control mouse
|
| Sample_geo_accession | GSM160342
| | Sample_status | Public on Jan 01 2008
| | Sample_submission_date | Feb 05 2007
| | Sample_last_update_date | Mar 06 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Mice were sham operated. Animals received buprenorphine (0.05mg/kg body weight) bid for the first 2 days following thoracotomy. All procedures were in accordance with animal welfare guidelines and were approved by the respective governmental agencies.
| | Sample_growth_protocol_ch1 | 12-14 week old male and female C57BL/6J mice were housed under climate-controlled conditions with a 12h light/dark cycle and were provided with standard food and water ad libitum.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated 14 days after surgery of the left ventricle using TRIzol Reagent (Invitrogen).
| | Sample_label_ch1 | biotin labeled
| | Sample_label_protocol_ch1 | The amplification and labeling of the RNA samples were carried out according to the manufacturer's instructions (Affymetrix, Santa Clara, CA). Briefly, total RNA was quantified by UV-spectroscopy and its quality evaluated by analysis on a LabChip (BioAnalyzer, AGILENT Technologies, Santa Clara, CA). In the presence of an oligo(dT)24 primer containing a T7 RNA polymerase promoter (TIBMOL Biol, Berlin, Germany) one to three micrograms of total RNA were used for double-stranded cDNA synthesis (SuperScript transcriptase, Life Technologies, Inc., Carlsbad, CA). Labeled complementary RNA (cRNA) was prepared from double-stranded cDNA by in vitro transcription using the GeneChip RNA transcript labeling kit (Affymetrix, Santa Clara, CA). After cleanup (Qiagen, Hilden, Germany), the biotin-labeled cRNA was fragmented by alkaline treatment (40 mM Tris-acetate (pH 8.2), 100 mM potassium acetate, and 50 mM magnesium acetate) at 94°C for 35 minutes.
| | Sample_hyb_protocol | Fifteen micrograms of each cRNA sample was hybridized for 16 hours at 45°C to rat expression Affymetrix RAE 430A GeneChip arrays. Following the hybridization arrays were washed and stained with streptavidin-phycoerythrin using a fluidics station in accordance with the Affymetrix protocol.
| | Sample_scan_protocol | Affymetrix GeneChip System confocal scanner 2500
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS)
| | Sample_platform_id | GPL339
| | Sample_contact_name | Henning,,Witt
| | Sample_contact_email | witt@molgen.mpg.de
| | Sample_contact_phone | ++49-30-450578727
| | Sample_contact_laboratory | Patricia Ruiz
| | Sample_contact_department | Hans Lehrach
| | Sample_contact_institute | Max Planck Institute for Molecular Genetics
| | Sample_contact_address | Ihnestrasse 65
| | Sample_contact_city | Berlin
| | Sample_contact_zip/postal_code | 14195
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM160nnn/GSM160342/suppl/GSM160342.CEL.gz
| | Sample_series_id | GSE6970
| | Sample_data_row_count | 22690
| | |
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