Search results for the GEO ID: GSE23700  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM584582 | GPL1261 |
|
Wild-type heart, biological rep1
|
Wild-type mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Wild-type
age: Embryonic day 16.5
|
Gene expression data from wild-type E16.5 heart
|
| Sample_geo_accession | GSM584582
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584582/suppl/GSM584582.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584582/suppl/GSM584582.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584583 | GPL1261 |
|
Wild-type heart, biological rep2
|
Wild-type mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Wild-type
age: Embryonic day 16.5
|
Gene expression data from wild-type E16.5 heart
|
| Sample_geo_accession | GSM584583
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584583/suppl/GSM584583.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584583/suppl/GSM584583.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584584 | GPL1261 |
|
Wild-type heart, biological rep3
|
Wild-type mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Wild-type
age: Embryonic day 16.5
|
Gene expression data from wild-type E16.5 heart
|
| Sample_geo_accession | GSM584584
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584584/suppl/GSM584584.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584584/suppl/GSM584584.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584585 | GPL1261 |
|
Hdac2-null heart, biological rep1
|
Hdac2-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2 knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2 knockout E16.5 heart
|
| Sample_geo_accession | GSM584585
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584585/suppl/GSM584585.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584585/suppl/GSM584585.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584586 | GPL1261 |
|
Hdac2-null heart, biological rep2
|
Hdac2-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2 knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2 knockout E16.5 heart
|
| Sample_geo_accession | GSM584586
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584586/suppl/GSM584586.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584586/suppl/GSM584586.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584587 | GPL1261 |
|
Hdac2-null heart, biological rep3
|
Hdac2-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2 knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2 knockout E16.5 heart
|
| Sample_geo_accession | GSM584587
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584587/suppl/GSM584587.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584587/suppl/GSM584587.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584588 | GPL1261 |
|
Hopx-null heart, biological rep1
|
Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hopx knockout E16.5 heart
|
| Sample_geo_accession | GSM584588
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584588/suppl/GSM584588.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584588/suppl/GSM584588.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584589 | GPL1261 |
|
Hopx-null heart, biological rep2
|
Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hopx knockout E16.5 heart
|
| Sample_geo_accession | GSM584589
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584589/suppl/GSM584589.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584589/suppl/GSM584589.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584590 | GPL1261 |
|
Hopx-null heart, biological rep3
|
Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hopx knockout E16.5 heart
|
| Sample_geo_accession | GSM584590
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584590/suppl/GSM584590.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584590/suppl/GSM584590.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584591 | GPL1261 |
|
Hdac2-Hopx double-null heart, biological rep1
|
Hdac2-Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2-Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2-Hopx double knockout E16.5 heart
|
| Sample_geo_accession | GSM584591
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584591/suppl/GSM584591.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584591/suppl/GSM584591.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584592 | GPL1261 |
|
Hdac2-Hopx double-null heart, biological rep2
|
Hdac2-Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2-Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2-Hopx double knockout E16.5 heart
|
| Sample_geo_accession | GSM584592
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584592/suppl/GSM584592.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584592/suppl/GSM584592.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
|
GSM584593 | GPL1261 |
|
Hdac2-Hopx double-null heart, biological rep3
|
Hdac2-Hopx-null mouse embryonic ventricle at E16.5
|
tissue: embryonic cardiac ventricle
genotype/variation: Hdac2-Hopx knockout
age: Embryonic day 16.5
|
Gene expression data from Hdac2-Hopx double knockout E16.5 heart
|
| Sample_geo_accession | GSM584593
| | Sample_status | Public on Aug 19 2010
| | Sample_submission_date | Aug 18 2010
| | Sample_last_update_date | Aug 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according the Affymetrix GeneChip Expression Analysis Technical Manual. Briefly, total RNA was converted to first-strand cDNA using Superscript II reverse transcriptase primed by a poly(T) oligomer that incorporated the T7 promoter. Second-strand cDNA synthesis was followed by in vitro transcription for linear amplification of each transcript and incorporation of biotinylated CTP and UTP.
| | Sample_hyb_protocol | The cRNA products were fragmented to 200 nucleotides or less, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Affimatrix MOE 430 2.0 microarrays. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
| | Sample_scan_protocol | A confocal scanner was used to collect fluorescence signal at 3um resolution after excitation at 570 nm. The average signal from two sequential scans was calculated for each microarray feature.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jonathan,A,Epstein
| | Sample_contact_email | epsteinj@mail.med.upenn.edu
| | Sample_contact_phone | 215-898-8731
| | Sample_contact_fax | 215-573-2094
| | Sample_contact_laboratory | 954, BRB II
| | Sample_contact_department | Cell and Developmental Biology
| | Sample_contact_institute | University of Pennsylvania, School of Medicine
| | Sample_contact_address | 421, Curie Blvd
| | Sample_contact_city | Philadelphia
| | Sample_contact_state | PA
| | Sample_contact_zip/postal_code | 19104
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.med.upenn.edu/mcrc/epstein_lab/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584593/suppl/GSM584593.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM584nnn/GSM584593/suppl/GSM584593.CHP.gz
| | Sample_series_id | GSE23700
| | Sample_data_row_count | 45101
| | |
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