Result

Search results for the GEO ID: GSE8310

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Title

Source name

Description

Characteristics

GSM206008

GPL1355

hypothalamus of juvenile (JUV) rat_JUV1

Hypothalamus of 26 day old juvenile female rat

Hypothalamus of 26 day old female juvenile rat

gene expression data derived from a hypothalamus of a normal juvenile female rat. This sample is considered as a control sample.

Sample_geo_accession	GSM206008
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206008/suppl/GSM206008.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206008/suppl/GSM206008.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206009

GPL1355

hypothalamus of juvenile (JUV) rat_JUV2

Hypothalamus of 26 day old juvenile female rat

Hypothalamus of 26 day old female juvenile rat

gene expression data derived from a hypothalamus of a normal juvenile female rat. This sample is considered as a control sample.

Sample_geo_accession	GSM206009
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206009/suppl/GSM206009.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206009/suppl/GSM206009.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206010

GPL1355

hypothalamus of juvenile (JUV) rat_JUV3

Hypothalamus of 26 day old juvenile female rat

Hypothalamus of 26 day old female juvenile rat

gene expression data derived from a hypothalamus of a normal juvenile female rat. This sample is considered as a control sample.

Sample_geo_accession	GSM206010
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206010/suppl/GSM206010.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206010/suppl/GSM206010.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206011

GPL1355

hypothalamus of early pubertal (EP) rat_EP7

Hypothalamus of 29 day old early pubertal female rat

Hypothalamus of 29 day old female early pubertal rat

gene expression data derived from a hypothalamus of a normal early pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206011
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206011/suppl/GSM206011.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206011/suppl/GSM206011.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206012

GPL1355

hypothalamus of early pubertal (EP) rat_EP8

Hypothalamus of 29 day old early pubertal female rat

Hypothalamus of 29 day old female early pubertal rat

gene expression data derived from a hypothalamus of a normal early pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206012
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206012/suppl/GSM206012.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206012/suppl/GSM206012.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206013

GPL1355

hypothalamus of early pubertal (EP) rat_EP10

Hypothalamus of 29 day old early pubertal female rat

Hypothalamus of 29 day old female early pubertal rat

gene expression data derived from a hypothalamus of a normal early pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206013
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206013/suppl/GSM206013.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206013/suppl/GSM206013.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206014

GPL1355

hypothalamus of late pubertal (LP) rat_LP12

Hypothalamus of 31 day old late pubertal female rat

Hypothalamus of 31 day old female late pubertal rat

gene expression data derived from a hypothalamus of a normal late pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206014
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206014/suppl/GSM206014.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206014/suppl/GSM206014.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206015

GPL1355

hypothalamus of late pubertal (LP) rat_LP14

Hypothalamus of 31 day old late pubertal female rat

Hypothalamus of 31 day old female late pubertal rat

gene expression data derived from a hypothalamus of a normal late pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206015
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206015/suppl/GSM206015.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206015/suppl/GSM206015.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

GSM206016

GPL1355

hypothalamus of late pubertal (LP) rat_LP20

Hypothalamus of 31 day old late pubertal female rat

Hypothalamus of 31 day old female late pubertal rat

gene expression data derived from a hypothalamus of a normal late pubertal female rat. This sample is considered as an experimental sample.

Sample_geo_accession	GSM206016
Sample_status	Public on Jun 27 2007
Sample_submission_date	Jun 27 2007
Sample_last_update_date	Aug 14 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_biomaterial_provider_ch1	Tissue samples were obtained from normal female Sprague Dowley rats.
Sample_treatment_protocol_ch1	Tissue was rapidly extracted and stored in RNAlater solution (Ambion) according to the manufacturers instructions.
Sample_growth_protocol_ch1	none
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated and purified using RNeasy Mini Columns according to the manufacturer’s specifications. RNA quality was assessed by OD reading and was subjected to electrophoretic trace using an Agilent Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	For target labelling, messenger RNA was amplified and labeled from 2 mg of total RNA in two steps. In the first step, mRNA was converted to double-stranded cDNA using Superscript Reverse Transcriptase (Invitrogen) and an oligo-dT primer linked to a T7 RNA polymerase binding site sequence (IDT). In the second step, amplified and labeled cRNA (the target) was produced in an in vitro transcription reaction using T7 RNA polymerase and biotin-UTP (Affymetrix, Santa Clara, CA). Following removal of free nucleotides, target yield was measured by UV260 absorbance. For target quality assessment, approximately 200 ng of each sample cRNA target along with a control cRNA target was analyzed on the RNA 6000 LabChip using the 2100 Bioanalyzer (Agilent). The target quality was determined based on yield and cRNA size distribution produced in the in vitro synthesis reaction. Samples that fail quality control were discarded or relabeled.
Sample_hyb_protocol	For array hybridization and processing, the labelled target was fragmented at 95°C in the presence of high magnesium concentration. The fragmented material was combined with biotinylated hybridization control oligomer and biotinylated control cRNAs for BioB, BioC, BioD and cre (Affymetrix) in hybridization buffer. Ten mg of target was hybridized with the GeneChip (Rat Genome 230 2.0) array (Affymetrix) overnight, followed by washing, staining, signal amplification with biotinylated anti-streptavidin antibody, and a final staining step on the Fluidics Station (Affymetrix). The distribution of fluorescent material on the processed array was determined using the GeneArray laser scanner (Affymetrix). Image inspection was performed manually immediately following each scan.
Sample_scan_protocol	The array image scan was processed with Affymetrix Microarray Suite software, version 5.0 (MAS 5.0). The GeneChip expression arrays contained control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, cre and species-specific actin and GAPDH).
Sample_data_processing	Image processing and expression analysis were performed using Affymetrix Microarray Suite (MAS) 5.0 software. An absolute (single assay) expression analysis was performed for each GeneChip genome array hybridization. The GeneChip expression arrays contain control probe sets for both spiked and endogenous RNA transcripts (e.g., BioB, BioC, BioD, CreX and species-specific actin and GAPDH). Following image processing and absolute analysis of the array pattern with MAS 5.0, six parameters were examined to assess the overall assay performance: background, noise, average signal, % present, ratio of signal values for probe sets representing the 5’ and 3’ ends of actin and GAPDH transcripts, and total signal for BioC, BioD and CreX probe sets. Prior to further analysis, array data were globally scaled to a uniform, average target intensity for all assays prior to further analysis. Initial filters removed all absent genes and genes with no change across all data sets.
Sample_platform_id	GPL1355
Sample_contact_name	Alejandro,,Lomniczi
Sample_contact_email	lomniczi@ohsu.edu
Sample_contact_phone	503-690-5305
Sample_contact_fax	503-690-5384
Sample_contact_department	Neuroscience
Sample_contact_institute	Oregon National Primate Research Center - OHSU
Sample_contact_address	505 NW 185th Ave
Sample_contact_city	Beaverton
Sample_contact_state	OR
Sample_contact_zip/postal_code	97006
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206016/suppl/GSM206016.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM206nnn/GSM206016/suppl/GSM206016.CHP.gz
Sample_series_id	GSE8310
Sample_data_row_count	31099

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