Result

Search results for the GEO ID: GSE8132

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Title

Source name

Description

Characteristics

GSM201487

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia with SU-5416 rep1b

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia and SU-5416 Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5% and SU-5416 (hypoxia-SU-5416).

Sample_geo_accession	GSM201487
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced different GCRMA values compared to the previous hypoxia-SU5416 values displayed in columns J, K, and L (which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416).
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201487/suppl/GSM201487.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201488

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia with SU-5416 rep2b

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia and SU-5416 Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5% and SU-5416 (hypoxia-SU-5416).

Sample_geo_accession	GSM201488
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced different GCRMA values compared to the previous hypoxia-SU5416 values displayed in columns J, K, and L (which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416).
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201488/suppl/GSM201488.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201489

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia with SU-5416 rep3b

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia and SU-5416 Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5% and SU-5416 (hypoxia-SU-5416).

Sample_geo_accession	GSM201489
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced different GCRMA values compared to the previous hypoxia-SU5416 values displayed in columns J, K, and L (which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416).
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201489/suppl/GSM201489.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201490

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia, SU-5416, and Sorafenib rep1

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia, SU-5416, and Sorafenib Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5%, SU5416, and Sorafenib (hypoxia-SU5416-Sorafenib).

Sample_geo_accession	GSM201490
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) and the hypoxia-SU5416-sorafenib sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced the values diaplyed below compared against the GCRMA values derived for normoxia, hypoxia, and the first set of hypoxia-SU5416 values which which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416.
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201490/suppl/GSM201490.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201491

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia, SU-5416, and Sorafenib rep2

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia, SU-5416, and Sorafenib Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5%, SU5416, and Sorafenib (hypoxia-SU5416-Sorafenib).

Sample_geo_accession	GSM201491
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) and the hypoxia-SU5416-sorafenib sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced the values diaplyed below compared against the GCRMA values derived for normoxia, hypoxia, and the first set of hypoxia-SU5416 values which which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416.
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201491/suppl/GSM201491.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201492

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia, SU-5416, and Sorafenib rep3

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia, SU-5416, and Sorafenib Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5%, SU5416, and Sorafenib (hypoxia-SU5416-Sorafenib).

Sample_geo_accession	GSM201492
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) and the hypoxia-SU5416-sorafenib sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced the values diaplyed below compared against the GCRMA values derived for normoxia, hypoxia, and the first set of hypoxia-SU5416 values which which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416.
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201492/suppl/GSM201492.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

GSM201493

GPL1355

Dahl Salt Sensitive Rat Lung- Hypoxia, SU-5416, and Sorafenib rep4

Rat Lung

Genotype: Dahl Salt Sensitive Rats with Hypoxia, SU-5416, and Sorafenib Weights: 250-350 grams

Gene expression data from rat lungs exposed to FiO2 of ~9.5%, SU5416, and Sorafenib (hypoxia-SU5416-Sorafenib).

Sample_geo_accession	GSM201493
Sample_status	Public on Jun 15 2007
Sample_submission_date	Jun 14 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	At the termination of each experiment, all animals were euthanized by exsanguination under anesthesia in accordance with institutional guidelines. The pulmonary vasculature was perfused via the pulmonary artery with sterile phosphate-buffered saline (PBS) and the right lung was clamped at the level of the mainstem bronchus, excised, and snap frozen in liquid nitrogen for subsequent RNA analysis/expression profiling. Right lung mRNA was isolated from 3 to 4 samples per strain and condition (as an example, we analyzed 4 SS rat strains exposed to control, and 3 SS rat strains exposed to hypoxia and sugen for expression profiling, etc.).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	The data were again analyzed with GC Robust Multichip Average (RMA) module of Bioconductor package. In a separate subset analysis between hypoxia-SU5416 and hypoxia-SU5416-sorafenib groups, we normalized the same hypoxia-SU5416 (JG7-JG9) and the hypoxia-SU5416-sorafenib sample arrays against a total of seven arrays between the two groups (JG7-JG13) which produced the values diaplyed below compared against the GCRMA values derived for normoxia, hypoxia, and the first set of hypoxia-SU5416 values which which were normalized against all sample arrays including those of normoxia, hypoxia, and hypoxia-SU5416.
Sample_platform_id	GPL1355
Sample_contact_name	Ankit,A,Desai
Sample_contact_email	adesai1@gmail.com
Sample_contact_phone	312-523-7931
Sample_contact_fax	773-834-2687
Sample_contact_laboratory	Joe G.N. Garcia Lab / Center for Integrative Science
Sample_contact_department	Medicine
Sample_contact_institute	The University of Chicago
Sample_contact_address	929 East 57th Street, Room W403R
Sample_contact_city	Chicago
Sample_contact_state	IL
Sample_contact_zip/postal_code	60637
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM201nnn/GSM201493/suppl/GSM201493.CEL.gz
Sample_series_id	GSE8132
Sample_series_id	GSE8134
Sample_data_row_count	31099

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