Search results for the GEO ID: GSE11916 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM301104 | GPL570 |
|
Control Huh7_Vec#1
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Huh7 Cells with PCI-Neo stable integration into genome
|
Huh7 Cells with PCI-Neo stable integration into genome
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301104
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301104/suppl/GSM301104.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
|
GSM301105 | GPL570 |
|
Control Huh7_Vec#2
|
Huh7 Cells with PCI-Neo stable integration into genome
|
Huh7 Cells with PCI-Neo stable integration into genome
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301105
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301105/suppl/GSM301105.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
|
GSM301106 | GPL570 |
|
Control Huh7_Vec#3
|
Huh7 Cells with PCI-Neo stable integration into genome
|
Huh7 Cells with PCI-Neo stable integration into genome
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301106
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301106/suppl/GSM301106.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
|
GSM301119 | GPL570 |
|
High TCF activity Huh7_S33Y#1
|
Huh7 stably expressing S33Y beta-catenin
|
Huh7 stably expressing S33Y beta-catenin
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301119
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301119/suppl/GSM301119.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
|
GSM301132 | GPL570 |
|
High TCF activity Huh7_S33Y#2
|
Huh7 stably expressing S33Y beta-catenin
|
Huh7 stably expressing S33Y beta-catenin
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301132
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301132/suppl/GSM301132.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
|
GSM301133 | GPL570 |
|
High TCF activity Huh7_S33Y#3
|
Huh7 stably expressing S33Y beta-catenin
|
Huh7 stably expressing S33Y beta-catenin
|
Replicates were done by using the same total RNA preparation
|
Sample_geo_accession | GSM301133
| Sample_status | Public on Sep 30 2009
| Sample_submission_date | Jun 27 2008
| Sample_last_update_date | Jun 22 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated from early passages of tranfected cells cell lines (referred to as “Huh7-S33Y” and “Huh7-Vec” based on construct integrated into genome of Huh7) using the guanidine isothiocyanate method.
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample processing. First and second strand cDNA synthesis were performed by using 10 ug of total RNA (quality was checked by gel electrophoresis), according to one-cycle cDNA synthesis protocol in the Affymetrix handbook.
| Sample_hyb_protocol | Affymetrix's protocol for U133 2.0 Plus arrays was followed during sample hybridization. 15 ug of biotin labeled cRNA was used for hybridization.
| Sample_scan_protocol | Arrays were washed and scanned using Affymetrix Array Station
| Sample_data_processing | GenePattern software of MIT was used for RMA normalization of 6 samples in this series (3 replicates of Huh7-Vec and 3 replicates of Huh7-S33Y). And the value stated here is after RMA normalization with GenePattern.
| Sample_platform_id | GPL570
| Sample_contact_name | Ersen,,Kavak
| Sample_contact_email | ersenkavak@gmail.com
| Sample_contact_phone | 0046707875729
| Sample_contact_laboratory | AKLAB (Ahmet Koman Lab)
| Sample_contact_department | Molecular Biology and Genetics
| Sample_contact_institute | Bogazici University
| Sample_contact_address | Bogazici Uni. North Campus, North otopark building, 212
| Sample_contact_city | Istanbul
| Sample_contact_zip/postal_code | 34342
| Sample_contact_country | Turkey
| Sample_contact_web_link | http://aklab.boun.edu.tr
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM301nnn/GSM301133/suppl/GSM301133.CEL.gz
| Sample_series_id | GSE11916
| Sample_series_id | GSE11956
| Sample_data_row_count | 54675
| |
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