Search results for the GEO ID: GSE10224  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM258077 | GPL339 |
|
Motorneuron_wildtype_sample1
|
veichle-treated wildtype mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn+/− (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated wildtype mouse motoneurons
|
| Sample_geo_accession | GSM258077
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258077/suppl/GSM258077.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258078 | GPL339 |
|
Motorneuron_wildtype_sample2
|
veichle-treated wildtype mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn+/− (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated wildtype mouse motoneurons
|
| Sample_geo_accession | GSM258078
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258078/suppl/GSM258078.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258079 | GPL339 |
|
Motorneuron_wildtype_sample3
|
veichle-treated wildtype mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn+/− (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated wildtype mouse motoneurons
|
| Sample_geo_accession | GSM258079
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258079/suppl/GSM258079.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258080 | GPL339 |
|
Motorneuron_SMA_sample1
|
veichle-treated SMA mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated SMA mouse motoneurons
|
| Sample_geo_accession | GSM258080
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258080/suppl/GSM258080.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258081 | GPL339 |
|
Motorneuron_SMA_sample2
|
veichle-treated SMA mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated SMA mouse motoneurons
|
| Sample_geo_accession | GSM258081
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258081/suppl/GSM258081.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258082 | GPL339 |
|
Motorneuron_SMA_sample3
|
veichle-treated SMA mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
veichle-treated SMA mouse motoneurons
|
| Sample_geo_accession | GSM258082
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258082/suppl/GSM258082.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258083 | GPL339 |
|
Motorneuron_TranslplantedSMA_sample1
|
NSC-transplanted SMA mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
NSC-transplanted SMA mouse motoneurons
|
| Sample_geo_accession | GSM258083
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258083/suppl/GSM258083.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
| | |
|
GSM258084 | GPL339 |
|
Motorneuron_TranslplantedSMA_sample2
|
NSC-transplanted SMA mouse motoneurons
|
SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
|
NSC-transplanted SMA mouse motoneurons
|
| Sample_geo_accession | GSM258084
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258084/suppl/GSM258084.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
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GSM258085 | GPL339 |
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Motorneuron_TranslplantedSMA_sample3
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NSC-transplanted SMA mouse motoneurons
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SMA mice, SMN2+/+;SmnΔ7+/+;mSmn -/- (line 4299; FVB.Cg-Tg(SMN2*delta7)4299Ahmb Tg(SMN2)89Ahmb Smn1tm1Msd
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NSC-transplanted SMA mouse motoneurons
|
| Sample_geo_accession | GSM258085
| | Sample_status | Public on Aug 06 2008
| | Sample_submission_date | Jan 22 2008
| | Sample_last_update_date | Aug 06 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | Motoneurons were microdissected using the Leica Laser Microdissection Microscope – ASLMD (Leica). Motoneurones were microdissected using the laser microdissector recovering device (ASLMD). Motoneurones were catapulted into a microfuge cap moistened with a drop of mineral oil (Sigma Chemical, Saint Louis, USA). Approximately 100 cells were collected per cap. Motoneurones were pooled from one animal per GeneChip.
| | Sample_growth_protocol_ch1 | We analyzed the LCM motor neurons from the lumbar spinal tract of transplanted SMA mice (n=3), untransplanted SMA mice (n=3) and wt (n=3). The latter groups underwent surgical procedure with vehicle. The surgical procedure and cell transplantation was done at P1 and the animals were sacrificed at 13 days. Spinal cords (lumbar regions L1–L5) of perfused with PFA mice were rapidly removed, embedded in Tissue-Tek OCT Compound (Zoeterwoude, the Netherlands) and frozen in liquid Nitrogen and stored at -80°C. Tissues were sectioned at 16 μm and mounted on covered membrane slides (Leica). The sections were stored at –80°C until microdissection.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA from the microdissected motoneurons was isolated using RNeasy® Micro Kit (Qiagen, Valencia, CA, USA) including Dnase treatment to remove potential genomic DNA contamination.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared through a double amplification procedure according to the protocol developed by Affymetrix (GeneChip® Eukaryotic Small Sample Target Labeling Assay Version II; Affymetrix, Santa Clara, CA, USA).
| | Sample_hyb_protocol | Following fragmentation, 15 micrograms of duoble-amplified cRNA were hybridized for 16 hr and 30 minutes at 45°C on GeneChip Mouse Genome 430A Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | Microarrays were scanned using the Agilent GeneArray Scanner G2500A (Affymetrix).
| | 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 100.
| | Sample_platform_id | GPL339
| | Sample_contact_name | Stefania,,Corti
| | Sample_contact_email | stefania.corti@unimi.it
| | Sample_contact_phone | +390255033817
| | Sample_contact_fax | +390250320430
| | Sample_contact_department | Neurological Sciences
| | Sample_contact_institute | University of Milan
| | Sample_contact_address | via F. Sforza 35
| | Sample_contact_city | Milan
| | Sample_contact_zip/postal_code | 20100
| | Sample_contact_country | Italy
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM258nnn/GSM258085/suppl/GSM258085.CEL.gz
| | Sample_series_id | GSE10224
| | Sample_data_row_count | 22690
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