Search results for the GEO ID: GSE46864  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1139384 | GPL1355 |
|
control 1
|
rat organotypic hippocampal cultures
|
treatment: control
tissue: organotypic hippocampal cultures
age: P4
|
untreated (control) cultures
|
| Sample_geo_accession | GSM1139384
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139384/suppl/GSM1139384_C1.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
|
GSM1139385 | GPL1355 |
|
control 2
|
rat organotypic hippocampal cultures
|
treatment: control
tissue: organotypic hippocampal cultures
age: P4
|
untreated (control) cultures
|
| Sample_geo_accession | GSM1139385
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139385/suppl/GSM1139385_C2.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
|
GSM1139386 | GPL1355 |
|
control 3
|
rat organotypic hippocampal cultures
|
treatment: control
tissue: organotypic hippocampal cultures
age: P4
|
untreated (control) cultures
|
| Sample_geo_accession | GSM1139386
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139386/suppl/GSM1139386_C3.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
|
GSM1139387 | GPL1355 |
|
gabazine 1
|
rat organotypic hippocampal cultures
|
treatment: gabazine
tissue: organotypic hippocampal cultures
age: P4
|
treated (gabazine) cultures
|
| Sample_geo_accession | GSM1139387
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139387/suppl/GSM1139387_G1.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
|
GSM1139388 | GPL1355 |
|
gabazine 2
|
rat organotypic hippocampal cultures
|
treatment: gabazine
tissue: organotypic hippocampal cultures
age: P4
|
treated (gabazine) cultures
|
| Sample_geo_accession | GSM1139388
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139388/suppl/GSM1139388_G2.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
|
GSM1139389 | GPL1355 |
|
gabazine 3
|
rat organotypic hippocampal cultures
|
treatment: gabazine
tissue: organotypic hippocampal cultures
age: P4
|
treated (gabazine) cultures
|
| Sample_geo_accession | GSM1139389
| | Sample_status | Public on May 14 2013
| | Sample_submission_date | May 13 2013
| | Sample_last_update_date | May 14 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Gabazine was purchased from Tocris (Bristol, UK). Gabazine treatment (GabT) for microarray samples consisted in treating the cultures for 90 min with 20 µM of gabazine
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | The total RNA for the microarray samples and the time-course samples was extracted using the TRIzol reagent (Sigma, Milano, Italy) according to the manufacturer’s instructions followed by a DNase I (Invitrogen, Carlsbad, California, USA) treatment to remove any genomic DNA contamination. The total RNA was further purified using RNeasy Mini Kit Column (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45℃ on Affymetrix GeneChip Rat Genome 230 2.0 Array (GPL1355). Washing and staining were performed after hybridization under Affymetrix fluidics station protocol.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
| | Sample_data_processing | Low level analysis was performed using an Robust Multi-array Average (RMA) algorithm directly on the scanned images, using the R statistical software with Bioconductor packages as normalization method.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | giovanni,,iacono
| | Sample_contact_institute | sissa
| | Sample_contact_address | via Bonomea, 265
| | Sample_contact_city | Trieste
| | Sample_contact_zip/postal_code | 34136
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1139nnn/GSM1139389/suppl/GSM1139389_G3.CEL.gz
| | Sample_series_id | GSE46864
| | Sample_data_row_count | 31099
| | |
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