Search results for the GEO ID: GSE15891  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM399031 | GPL1261 |
|
Mus_Liver_1400_1
|
liver of mice housed at 1400m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: control (ambient Reno air, 1400 m)
|
no additional information
|
| Sample_geo_accession | GSM399031
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399031/suppl/GSM399031.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399032 | GPL1261 |
|
Mus_Liver_1400_2
|
liver of mice housed at 1400m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: control (ambient Reno air, 1400 m)
|
no additional information
|
| Sample_geo_accession | GSM399032
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399032/suppl/GSM399032.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399033 | GPL1261 |
|
Mus_Liver_1400_3
|
liver of mice housed at 1400m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: control (ambient Reno air, 1400 m)
|
no additional information
|
| Sample_geo_accession | GSM399033
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399033/suppl/GSM399033.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399034 | GPL1261 |
|
Mus_Liver_3000_1
|
liver of mice housed at simulated 3000 m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: hypoxic environment of 3000 m
|
no additional information
|
| Sample_geo_accession | GSM399034
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399034/suppl/GSM399034.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399035 | GPL1261 |
|
Mus_Liver_3000_2
|
liver of mice housed at simulated 3000 m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: hypoxic environment of 3000 m
|
no additional information
|
| Sample_geo_accession | GSM399035
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399035/suppl/GSM399035.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399036 | GPL1261 |
|
Mus_Liver_4500_1
|
liver of mice housed in simulated 4500 m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: hypoxic environment of 4500 m
|
no additional information
|
| Sample_geo_accession | GSM399036
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399036/suppl/GSM399036.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399037 | GPL1261 |
|
Mus_Liver_4500_2
|
liver of mice housed in simulated 4500 m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: hypoxic environment of 4500 m
|
no additional information
|
| Sample_geo_accession | GSM399037
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399037/suppl/GSM399037.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
GSM399038 | GPL1261 |
|
Mus_Liver_4500_3
|
liver of mice housed in simulated 4500 m for 32 days
|
tissue: liver
gender: male
strain: C57BL/6
age: 16 weeks
stress: hypoxic environment of 4500 m
|
no additional information
|
| Sample_geo_accession | GSM399038
| | Sample_status | Public on Apr 30 2009
| | Sample_submission_date | Apr 29 2009
| | Sample_last_update_date | Apr 29 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus domesticus
| | Sample_taxid_ch1 | 10092
| | Sample_treatment_protocol_ch1 | At the end of the hypoxic treatment period, mice were sacrificed via cervical dislocation and livers were immediately removed and preserved in RNALater (Ambion, Inc.) for later RNA extraction.
| | Sample_growth_protocol_ch1 | Mice were housed in one of three hypoxic treatments: 1400 m (Reno ambient air), 3000 m and 4500 m .
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from liver tissue using Qiagen® RNeasy Mini Kit according to manufacturer’s directions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were synthesized from 5 microg. total RNA following standard Affymetrix® protocols
| | Sample_hyb_protocol | Hybridization of purified and fragmented cRNAs to Affymetrix® GeneChip® Mouse Genome 430 2.0 Array was performed using standard Affymetrix® protocols.
| | Sample_scan_protocol | A Hewlett-Packard GeneArray® Scanner was used to scan the microarrays,
| | Sample_data_processing | Eight of the nine arrays were used for data analysis; one array was excluded as several Affymetrix quality control metrics indicated data quality that was not reliable. Affymetrix® microarray data were collected with Affymetrix® GeneChip® Operating Software version 1.1 using default parameters settings. The Bioconductor 'affy' package from R [http://cran.r-project.org/] was used for data analysis. Probe values were normalized via quantile normalization, and a median polish was applied to compute one expression measure from all probe values. Resulting RMA expression values were log2-transformed; presence calls and detection p-values were calculated with the 'mas5calls' function using default parameters.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Monica,M,Baze
| | Sample_contact_email | mbaze@unr.edu
| | Sample_contact_department | Biology
| | Sample_contact_institute | University of Nevada, Reno
| | Sample_contact_address | Dept. of Biology/ 314
| | Sample_contact_city | Reno
| | Sample_contact_state | NV
| | Sample_contact_zip/postal_code | 89704
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM399nnn/GSM399038/suppl/GSM399038.CEL.gz
| | Sample_series_id | GSE15891
| | Sample_data_row_count | 45101
| | |
|
| |
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