Result

Search results for the GEO ID: GSE14059

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Title

Source name

Description

Characteristics

GSM352686

GPL1261

Heterozygous periphilin knockout mice

Whole brains from knockout mice

Whole brains of three male 2-months-old periphilin+/-knockout mice

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352686
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352686/suppl/GSM352686.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352686/suppl/GSM352686.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

GSM352698

GPL1261

Heterozygous periphilin knockout mice II

Whole brains from knockout mice

Whole brains of three male 2-months-old periphilin+/-knockout mice

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352698
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352698/suppl/GSM352698.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352698/suppl/GSM352698.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

GSM352699

GPL1261

Heterozygous periphilin knockout mice III

Whole brains from knockout mice

Whole brains of three male 2-months-old periphilin+/-knockout mice

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352699
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352699/suppl/GSM352699.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352699/suppl/GSM352699.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

GSM352700

GPL1261

wt mice I

Whole brains from wild type mice

Whole brains of three C57BL/6-wild type littermates

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352700
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352700/suppl/GSM352700.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352700/suppl/GSM352700.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

GSM352701

GPL1261

wt mice II

Whole brains from wild type mice

Whole brains of three C57BL/6-wild type littermates

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352701
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352701/suppl/GSM352701.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352701/suppl/GSM352701.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

GSM352702

GPL1261

wt mice III

Whole brains from wild type mice

Whole brains of three C57BL/6-wild type littermates

Each cRNA generated from whole brain was hybridized on one microarray separately.

Sample_geo_accession	GSM352702
Sample_status	Public on Apr 01 2009
Sample_submission_date	Dec 19 2008
Sample_last_update_date	Dec 31 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Institute of Developmental Genetics, GSF National Research Center for Environment and Health, Munich-Neuherberg, Germany (Prof. Wurst)
Sample_treatment_protocol_ch1	Whole brains of three male 2-months-old periphilin+/-knockout mice and three C57BL/6-wild type littermates were dissected, snap-frozen and kept at -80°C until further processing.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolation of RNA was performed using RNAeasy® Kit (Qiagen, Germany) according to the manufacturer’s conditions. The quality of isolated RNA was controlled by Lab-on-Chip-System Bioanalyser 2100 (Agilent).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Double-stranded cDNA was synthesized from the total RNA of each cell culture using GeneChip® One-Cycle Target Labeling and Control Reagents (Affymetrix) with a T7-oligo(dT) primer incorporating a T7 RNA polymerase promoter. cRNA was prepared, biotin labeled and subsequently fragmented using the same set of reagents.
Sample_hyb_protocol	Labeled, fragmented cRNA (15 µg) was hybridized for 16 h at 45°C to GeneChip® Mouse Genome 430 2.0 Arrays (Affymetrix) according to the GeneChip® Expression Analysis Technical Manual (701021rev1; Affymetrix).
Sample_scan_protocol	After hybridization, the microarrays were automatically washed and stained with streptavidin–phycoerythrin. The probe arrays were scanned using a GeneChip®-Scanner 3000 (Affymetrix).
Sample_data_processing	In total, six cRNA samples were analyzed (three Periphilin+/- mice and three controls). To filter for transcripts that are differentially expressed between the two genotypes, the signals were first filtered for an absolute change in signal level of 2-fold (corresponding to a signal log ratio of 1.0). The remaining transcripts were subjected to statistical analysis using a t-test. Transcripts with a minimum fold change of 2.0 and a p-value of 0.05 or less were considered as statistically significant regulated. Categorization was based on the NetAffx™ Analysis Center annotations (https://www.affymetrix.com/analysis/netaffx/index.affx).
Sample_platform_id	GPL1261
Sample_contact_name	Michael,,Bonin
Sample_contact_laboratory	Microarray Facility
Sample_contact_department	Medical Genetics
Sample_contact_institute	University Tuebingen
Sample_contact_address	CAlwerstr. 7
Sample_contact_city	Tuebingen
Sample_contact_state	BW
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352702/suppl/GSM352702.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM352nnn/GSM352702/suppl/GSM352702.CHP.gz
Sample_series_id	GSE14059
Sample_data_row_count	45101

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