Search results for the GEO ID: GSE11120  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM280602 | GPL1261 |
|
PS43_30,MEF(-/-), 3hrs 643-EJ-5
|
MEF(-/-) cells, pretreated
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
PS43_30,MEF(-/-), 3hrs 643-EJ-5
|
| Sample_geo_accession | GSM280602
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 10 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 20hrs, Preshocked in a constant temperature water bath for 30 minutes, then returned to incubator for 3 hours before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At 3 hours after thermal treatment, cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280602/suppl/GSM280602.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280602/suppl/GSM280602.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282579 | GPL1261 |
|
PS43_30,MEF(-/-), 3hrs 643-EJ-11
|
MEF(-/-) cells, pretreated
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
PS43_30,MEF(-/-), 3hrs 643-EJ-11
|
| Sample_geo_accession | GSM282579
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 20hrs, Preshocked in a constant temperature water bath for 30 minutes, then returned to incubator for 3 hours before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At 3 hours after thermal treatment, cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282579/suppl/GSM282579.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282579/suppl/GSM282579.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282580 | GPL1261 |
|
PS43_30,MEF(-/-), 3hrs 643-EJ-13
|
MEF(-/-) cells, pretreated
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
PS43_30,MEF(-/-), 3hrs 643-EJ-13
|
| Sample_geo_accession | GSM282580
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 20hrs, Preshocked in a constant temperature water bath for 30 minutes, then returned to incubator for 3 hours before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At 3 hours after thermal treatment, cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282580/suppl/GSM282580.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282580/suppl/GSM282580.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282581 | GPL1261 |
|
PS43_30,MEF(+/+), 3hrs 643-EJ-31
|
MEF(+/+) cells, pretreated
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3 that have hsp70.1 gene reintroduced to restore some hsp70 function
|
PS43_30,MEF(+/+), 3hrs 643-EJ-31
|
| Sample_geo_accession | GSM282581
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 20hrs, Preshocked in a constant temperature water bath for 30 minutes, then returned to incubator for 3 hours before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At 3 hours after thermal treatment, cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282581/suppl/GSM282581.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282581/suppl/GSM282581.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282593 | GPL1261 |
|
PS43_30,MEF(+/+), 3hrs 643-EJ-43
|
MEF(+/+) cells, pretreated
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3 that have hsp70.1 gene reintroduced to restore some hsp70 function
|
PS43_30,MEF(+/+), 3hrs 643-EJ-43
|
| Sample_geo_accession | GSM282593
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 20hrs, Preshocked in a constant temperature water bath for 30 minutes, then returned to incubator for 3 hours before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | At 3 hours after thermal treatment, cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282593/suppl/GSM282593.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282593/suppl/GSM282593.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282594 | GPL1261 |
|
Ctrl MEF(+/+), 3hrs 643-EJ-44
|
MEF(+/+) cells, unheated control
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3 that have hsp70.1 gene reintroduced to restore some hsp70 function
|
Ctrl MEF(+/+), 3hrs 643-EJ-44
|
| Sample_geo_accession | GSM282594
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 23 hrs before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282594/suppl/GSM282594.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282594/suppl/GSM282594.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282595 | GPL1261 |
|
Ctrl MEF(+/+), 3hrs 643-EJ-32
|
MEF(+/+) cells, unheated control
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3 that have hsp70.1 gene reintroduced to restore some hsp70 function
|
Ctrl MEF(+/+), 3hrs 643-EJ-32
|
| Sample_geo_accession | GSM282595
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 23 hrs before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282595/suppl/GSM282595.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282595/suppl/GSM282595.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282596 | GPL1261 |
|
Ctrl MEF(-/-), 3hrs 643-EJ-14
|
MEF(-/-) cells, unheated control
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
Ctrl MEF(-/-), 3hrs 643-EJ-14
|
| Sample_geo_accession | GSM282596
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 23 hrs before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282596/suppl/GSM282596.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282596/suppl/GSM282596.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282597 | GPL1261 |
|
Ctrl MEF(-/-), 3hrs 643-EJ-12
|
MEF(-/-) cells, unheated control
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
Ctrl MEF(-/-), 3hrs 643-EJ-12
|
| Sample_geo_accession | GSM282597
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 23 hrs before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282597/suppl/GSM282597.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282597/suppl/GSM282597.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
|
GSM282599 | GPL1261 |
|
Ctrl MEF(-/-), 3hrs 643-EJ-6
|
MEF(-/-) cells, unheated control
|
Murine Embryo Fibroblast hsp70 knockout cells of both isoforms:hsp70.1 and hsp70.3
|
Ctrl MEF(-/-), 3hrs 643-EJ-6
|
| Sample_geo_accession | GSM282599
| | Sample_status | Public on Apr 09 2009
| | Sample_submission_date | Apr 17 2008
| | Sample_last_update_date | Apr 18 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_biomaterial_provider_ch1 | Clayton Hunt, Washington University
| | Sample_treatment_protocol_ch1 | Cells were plate in 96 well plates at 3k/well, incubated 23 hrs before harvesting RNA
| | Sample_growth_protocol_ch1 | Maintained in DMEM with 10% Fetal Bovine Serum, and 2ul/ml of Normocin(Invivogen). Wells were covered with a gas permeable membrane to prevent water influx during thermal treatment.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell lysates from 144 individual wells were pooled and total RNA was harvested to make each sample. Approximately 4-6 ug of RNA was isolated with the RNeasy Micro Kit (Qiagen, Valencia, CA) along with on column DNAse treatment (Qiagen). RLT buffer in the RNeasy Kit was used without adding β- mercaptoethanol in order to reduce background noise on the microarrays. Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Following quality control, the RNA was prepared for microarray analysis using the GeneChip® One-Cycle Target Labeling and Control Reagents kit (Affymetrix Inc, Santa Clara, CA). Briefly, 1.5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
| | Sample_hyb_protocol | The biotinylated cRNA (20 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
| | Sample_scan_protocol | GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
| | Sample_data_processing | CEL files (raw Affymetrix data) were imported in GeneSpring 7.3 (Agilent Technologies) and transformed by Mas5. The "Value" column shows this normalized signal intensity value.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Josh,T,Beckham
| | Sample_contact_email | joshbeckham@gmail.com
| | Sample_contact_phone | 615-343-1645
| | Sample_contact_fax | 615-343-7919
| | Sample_contact_laboratory | Jansen
| | Sample_contact_department | Biomedical Engineering
| | Sample_contact_institute | Vanderbilt University
| | Sample_contact_address | 5824 Stevenson Center
| | Sample_contact_city | Nashville
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 37235
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282599/suppl/GSM282599.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM282nnn/GSM282599/suppl/GSM282599.CHP.gz
| | Sample_series_id | GSE11120
| | Sample_data_row_count | 45101
| | |
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