Search results for the GEO ID: GSE8600  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM213378 | GPL339 |
|
M1 juvenile biol repl 1
|
liver from wild type mouse receiving doxycycline
|
6 wk old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213378
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213378/suppl/GSM213378.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213379 | GPL339 |
|
M1 juvenile biol repl 2
|
liver from wild type mouse receiving doxycycline
|
6 wk old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213379
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213379/suppl/GSM213379.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213380 | GPL339 |
|
M1 juvenile biol repl 3
|
liver from wild type mouse receiving doxycycline
|
6 wk old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213380
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213380/suppl/GSM213380.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213381 | GPL339 |
|
Z1 juvenile biol repl 1
|
liver from mutant mouse receiving doxycycline
|
6 wk old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213381
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213381/suppl/GSM213381.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213382 | GPL339 |
|
Z1 juvenile biol repl 2
|
liver from mutant mouse receiving doxycycline
|
6 wk old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213382
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213382/suppl/GSM213382.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213383 | GPL339 |
|
Z1 juvenile biol repl 3
|
liver from mutant mouse receiving doxycycline
|
6 wk old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213383
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213383/suppl/GSM213383.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213385 | GPL339 |
|
Z4 juvenile biol repl 1
|
liver from mutant mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213385
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213385/suppl/GSM213385.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213386 | GPL339 |
|
Z4 juvenile biol repl 2
|
liver from mutant mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213386
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213386/suppl/GSM213386.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213387 | GPL339 |
|
Z4 juvenile biol repl 3
|
liver from mutant mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213387
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213387/suppl/GSM213387.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213388 | GPL339 |
|
M4 juvenile biol repl 1
|
liver from wild type mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213388
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213388/suppl/GSM213388.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213389 | GPL339 |
|
M4 juvenile biol repl 2
|
liver from wild type mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213389
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213389/suppl/GSM213389.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
| | |
|
GSM213390 | GPL339 |
|
M4 juvenile biol repl 3
|
liver from wild type mouse not receiving doxycycline
|
6 wk old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213390
| | Sample_status | Public on Jul 26 2007
| | Sample_submission_date | Jul 26 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Group1 mice received 40 ug/mL doxycycline in drinking water from conception till they were sacrificed.
| | Sample_growth_protocol_ch1 | Mice with hepatocyte-specific inducible expression of wild type AT (M mice), mutant ATZ (Z mice) human alpha1-antitrypsin were were maintained with doxycycline (group1) or without doxycycline (group4)
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Curde RNA was prepared from liver samples by TRIZOL followed by RNEasy purification.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_hyb_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_scan_protocol | Sample preparation and array hybridization was conducted by the Genomics and Proteomics Core Laboratories of the University of Pittsburgh.
| | Sample_data_processing = Probe level data (CEL files) were processed by S-PLUS 6.2 Array Analyzer Module (Insightful). Normalization to adjust for background noise, to correct for random and non-specific binding was done as follows: background control = RMA, normalization | quantiles. Then Differential Expression Analysis was performed applying Local Pooled Error (LPE) Test with Bonferroni adjustment (FWER/FDR control= 0.05).
| | Sample_platform_id | GPL339
| | Sample_contact_name | Tunda ,,Hidvegi
| | Sample_contact_institute | University of Pittsburgh
| | Sample_contact_address | 3460 Fifth Ave
| | Sample_contact_city | Pittsburgh
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 15213
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM213nnn/GSM213390/suppl/GSM213390.CEL.gz
| | Sample_series_id | GSE8600
| | Sample_data_row_count | 22690
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