Search results for the GEO ID: GSE8599  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM213361 | GPL339 |
|
M1 biol repl 1
|
liver from wild type mouse receiving doxycycline
|
3 mo old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213361
| | 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 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 as 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/GSM213361/suppl/GSM213361.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213362 | GPL339 |
|
M1 biol repl 2
|
liver from wild type mouse receiving doxycycline
|
3 mo old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213362
| | 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 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 as 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/GSM213362/suppl/GSM213362.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213363 | GPL339 |
|
M1 biol repl 3
|
liver from wild type mouse receiving doxycycline
|
3 mo old male
|
doxycycline, wt
|
| Sample_geo_accession | GSM213363
| | 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 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 as 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/GSM213363/suppl/GSM213363.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213364 | GPL339 |
|
Z1 biol repl 1
|
liver from mutant mouse receiving doxycycline
|
3 mo old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213364
| | 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 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 as 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/GSM213364/suppl/GSM213364.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213365 | GPL339 |
|
Z1 biol repl 2
|
liver from mutant mouse receiving doxycycline
|
3 mo old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213365
| | 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 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 as 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/GSM213365/suppl/GSM213365.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213366 | GPL339 |
|
Z1 biol repl 3
|
liver from mutant mouse receiving doxycycline
|
3 mo old male
|
doxycycline, mutant
|
| Sample_geo_accession | GSM213366
| | 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 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 as 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/GSM213366/suppl/GSM213366.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213367 | GPL339 |
|
Z4 biol repl 1
|
liver from mutant mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213367
| | 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 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 as 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/GSM213367/suppl/GSM213367.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213368 | GPL339 |
|
Z4 biol repl 2
|
liver from mutant mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213368
| | 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 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 as 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/GSM213368/suppl/GSM213368.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213369 | GPL339 |
|
Z4 biol repl 3
|
liver from mutant mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, mutant
|
| Sample_geo_accession | GSM213369
| | 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 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 as 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/GSM213369/suppl/GSM213369.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213370 | GPL339 |
|
M4 biol repl 1
|
liver from wild type mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213370
| | 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 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 as 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/GSM213370/suppl/GSM213370.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213371 | GPL339 |
|
M4 biol repl 2
|
liver from wild type mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213371
| | 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 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 as 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/GSM213371/suppl/GSM213371.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213372 | GPL339 |
|
M4 biol repl 3
|
liver from wild type mouse not receiving doxycycline
|
3 mo old male
|
no doxycycline, wt
|
| Sample_geo_accession | GSM213372
| | 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 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 as 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/GSM213372/suppl/GSM213372.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213373 | GPL339 |
|
WT biol repl1
|
liver from wild type littermates
|
3 mo old male
|
no doxycycline, no AAT
|
| Sample_geo_accession | GSM213373
| | 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 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 as 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/GSM213373/suppl/GSM213373.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213374 | GPL339 |
|
WT biol repl2
|
liver from wild type littermates
|
3 mo old male
|
no doxycycline, no AAT
|
| Sample_geo_accession | GSM213374
| | 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 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 as 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/GSM213374/suppl/GSM213374.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
|
GSM213375 | GPL339 |
|
WT biol repl3
|
liver from wild type littermates
|
3 mo old male
|
no doxycycline, no AAT
|
| Sample_geo_accession | GSM213375
| | 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 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 as 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/GSM213375/suppl/GSM213375.CEL.gz
| | Sample_series_id | GSE8599
| | Sample_data_row_count | 22690
| | |
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