Result

Search results for the GEO ID: GSE42607

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GSM ID

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Title

Source name

Description

Characteristics

GSM1045768

GPL1261

neurons, biological rep1

neurons

tissue: cerebral cortical neurons strain: C57BL6 mice age: 16-day-old fetal embryo

Gene expression data from neurons

Sample_geo_accession	GSM1045768
Sample_status	Public on Jul 01 2013
Sample_submission_date	Nov 28 2012
Sample_last_update_date	Jul 01 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Astrocytes were incubated at 37°C in a humidified atmosphere of 5% CO2/95% air. After 24 h, the medium was changed to remove nonadhered cells and then changed every 3–4 days. Regarding neuronal cultures, after 2 h of incubation at 37°C in a humidified atmosphere of 5% CO2/95% air, the medium was changed for basal medium Eagle enriched with 1% fetal calf serum, 19.4 mM glucose, 4 mM glutamine, 20 nM progesterone, 100 nM putrescine, 5 g/ml transferrin, 10 g/ml insulin, 30 nM Na2SeO3, and antibiotics. All assays were carried out on cells grown for 7–8 days in vitro.
Sample_growth_protocol_ch1	Neuronal tissue was minced and incubated in Ca2+-free Krebs–Ringer buffer containing 0.025% trypsin for 15 min at 37°C. Cells were then dissociated by gentle trituration through a fire-polished Pasteur pipette in the presence of 0.52 mg/ml soybean trypsin inhibitor and 170 units/ml DNase I. The cell suspension was then filtered through a 40-um nylon mesh. Cells were collected by centrifugation at 500 g and plated into 24-well plates in basal medium Eagle supplemented with 10% fetal calf serum, 33 mM glucose, 2 mM glutamine, and antibiotics (50 IU/ml penicillin and 50 g/ml streptomycin).
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 to the standard Affymetrix protocol through two cycles of cDNA synthesis (50 ng starting total RNA).
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized, washed and stained according to the standard Affymetrix protocol.
Sample_scan_protocol	GeneChips were scanned according to the standard Affymetrix protocol (Affymetrix Genechip Command Console program 3.0.0.1214, scanner GCS 3000-7G)
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	Joan Marc,,Servitja
Sample_contact_email	servitja@clinic.ub.es
Sample_contact_institute	IDIBAPS
Sample_contact_address	Rosselló, 153
Sample_contact_city	Barcelona
Sample_contact_state	Catalonia
Sample_contact_zip/postal_code	08036
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1045nnn/GSM1045768/suppl/GSM1045768_220N.CEL.gz
Sample_series_id	GSE42607
Sample_data_row_count	45101

GSM1045769

GPL1261

neurons, biological rep2

neurons

tissue: cerebral cortical neurons strain: C57BL6 mice age: 16-day-old fetal embryo

Gene expression data from neurons

Sample_geo_accession	GSM1045769
Sample_status	Public on Jul 01 2013
Sample_submission_date	Nov 28 2012
Sample_last_update_date	Jul 01 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Astrocytes were incubated at 37°C in a humidified atmosphere of 5% CO2/95% air. After 24 h, the medium was changed to remove nonadhered cells and then changed every 3–4 days. Regarding neuronal cultures, after 2 h of incubation at 37°C in a humidified atmosphere of 5% CO2/95% air, the medium was changed for basal medium Eagle enriched with 1% fetal calf serum, 19.4 mM glucose, 4 mM glutamine, 20 nM progesterone, 100 nM putrescine, 5 g/ml transferrin, 10 g/ml insulin, 30 nM Na2SeO3, and antibiotics. All assays were carried out on cells grown for 7–8 days in vitro.
Sample_growth_protocol_ch1	Neuronal tissue was minced and incubated in Ca2+-free Krebs–Ringer buffer containing 0.025% trypsin for 15 min at 37°C. Cells were then dissociated by gentle trituration through a fire-polished Pasteur pipette in the presence of 0.52 mg/ml soybean trypsin inhibitor and 170 units/ml DNase I. The cell suspension was then filtered through a 40-um nylon mesh. Cells were collected by centrifugation at 500 g and plated into 24-well plates in basal medium Eagle supplemented with 10% fetal calf serum, 33 mM glucose, 2 mM glutamine, and antibiotics (50 IU/ml penicillin and 50 g/ml streptomycin).
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 to the standard Affymetrix protocol through two cycles of cDNA synthesis (50 ng starting total RNA).
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized, washed and stained according to the standard Affymetrix protocol.
Sample_scan_protocol	GeneChips were scanned according to the standard Affymetrix protocol (Affymetrix Genechip Command Console program 3.0.0.1214, scanner GCS 3000-7G)
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	Joan Marc,,Servitja
Sample_contact_email	servitja@clinic.ub.es
Sample_contact_institute	IDIBAPS
Sample_contact_address	Rosselló, 153
Sample_contact_city	Barcelona
Sample_contact_state	Catalonia
Sample_contact_zip/postal_code	08036
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1045nnn/GSM1045769/suppl/GSM1045769_318N.CEL.gz
Sample_series_id	GSE42607
Sample_data_row_count	45101

GSM1045770

GPL1261

astrocytes, biological rep1

astrocytes

tissue: cerebral cortical astrocytes strain: C57BL6 mice age: newborn

Gene expression data from astrocytes

Sample_geo_accession	GSM1045770
Sample_status	Public on Jul 01 2013
Sample_submission_date	Nov 28 2012
Sample_last_update_date	Jul 01 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Astrocytes were incubated at 37°C in a humidified atmosphere of 5% CO2/95% air. After 24 h, the medium was changed to remove nonadhered cells and then changed every 3–4 days. Regarding neuronal cultures, after 2 h of incubation at 37°C in a humidified atmosphere of 5% CO2/95% air, the medium was changed for basal medium Eagle enriched with 1% fetal calf serum, 19.4 mM glucose, 4 mM glutamine, 20 nM progesterone, 100 nM putrescine, 5 g/ml transferrin, 10 g/ml insulin, 30 nM Na2SeO3, and antibiotics. All assays were carried out on cells grown for 7–8 days in vitro.
Sample_growth_protocol_ch1	Neuronal tissue was minced and incubated in Ca2+-free Krebs–Ringer buffer containing 0.025% trypsin for 15 min at 37°C. Cells were then dissociated by gentle trituration through a fire-polished Pasteur pipette in the presence of 0.52 mg/ml soybean trypsin inhibitor and 170 units/ml DNase I. The cell suspension was then filtered through a 40-um nylon mesh. Cells were collected by centrifugation at 500 g and plated into 24-well plates in basal medium Eagle supplemented with 10% fetal calf serum, 33 mM glucose, 2 mM glutamine, and antibiotics (50 IU/ml penicillin and 50 g/ml streptomycin).
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 to the standard Affymetrix protocol through two cycles of cDNA synthesis (50 ng starting total RNA).
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized, washed and stained according to the standard Affymetrix protocol.
Sample_scan_protocol	GeneChips were scanned according to the standard Affymetrix protocol (Affymetrix Genechip Command Console program 3.0.0.1214, scanner GCS 3000-7G)
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	Joan Marc,,Servitja
Sample_contact_email	servitja@clinic.ub.es
Sample_contact_institute	IDIBAPS
Sample_contact_address	Rosselló, 153
Sample_contact_city	Barcelona
Sample_contact_state	Catalonia
Sample_contact_zip/postal_code	08036
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1045nnn/GSM1045770/suppl/GSM1045770_A200.CEL.gz
Sample_series_id	GSE42607
Sample_data_row_count	45101

GSM1045771

GPL1261

astrocytes, biological rep2

astrocytes

tissue: cerebral cortical astrocytes strain: C57BL6 mice age: newborn

Gene expression data from astrocytes

Sample_geo_accession	GSM1045771
Sample_status	Public on Jul 01 2013
Sample_submission_date	Nov 28 2012
Sample_last_update_date	Jul 01 2013
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Astrocytes were incubated at 37°C in a humidified atmosphere of 5% CO2/95% air. After 24 h, the medium was changed to remove nonadhered cells and then changed every 3–4 days. Regarding neuronal cultures, after 2 h of incubation at 37°C in a humidified atmosphere of 5% CO2/95% air, the medium was changed for basal medium Eagle enriched with 1% fetal calf serum, 19.4 mM glucose, 4 mM glutamine, 20 nM progesterone, 100 nM putrescine, 5 g/ml transferrin, 10 g/ml insulin, 30 nM Na2SeO3, and antibiotics. All assays were carried out on cells grown for 7–8 days in vitro.
Sample_growth_protocol_ch1	Neuronal tissue was minced and incubated in Ca2+-free Krebs–Ringer buffer containing 0.025% trypsin for 15 min at 37°C. Cells were then dissociated by gentle trituration through a fire-polished Pasteur pipette in the presence of 0.52 mg/ml soybean trypsin inhibitor and 170 units/ml DNase I. The cell suspension was then filtered through a 40-um nylon mesh. Cells were collected by centrifugation at 500 g and plated into 24-well plates in basal medium Eagle supplemented with 10% fetal calf serum, 33 mM glucose, 2 mM glutamine, and antibiotics (50 IU/ml penicillin and 50 g/ml streptomycin).
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 to the standard Affymetrix protocol through two cycles of cDNA synthesis (50 ng starting total RNA).
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized, washed and stained according to the standard Affymetrix protocol.
Sample_scan_protocol	GeneChips were scanned according to the standard Affymetrix protocol (Affymetrix Genechip Command Console program 3.0.0.1214, scanner GCS 3000-7G)
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	Joan Marc,,Servitja
Sample_contact_email	servitja@clinic.ub.es
Sample_contact_institute	IDIBAPS
Sample_contact_address	Rosselló, 153
Sample_contact_city	Barcelona
Sample_contact_state	Catalonia
Sample_contact_zip/postal_code	08036
Sample_contact_country	Spain
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1045nnn/GSM1045771/suppl/GSM1045771_A600.CEL.gz
Sample_series_id	GSE42607
Sample_data_row_count	45101

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