Result

Search results for the GEO ID: GSE27129

(Click on the check boxes provided under "Select for analysis", to initiate grouping)

(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down)

GSM ID

GPL ID

Select for analysis

Title

Source name

Description

Characteristics

GSM670197

GPL1261

01 - mdx mice at 1 month of age

skeletal muscle, mdx, 1 month

strain: C57BL/6J genotype: mdx tissue: tibialis anterior muscle age: 1 month

Tibialis anterior muscle from mdx mice at 1 month of age.

Sample_geo_accession	GSM670197
Sample_status	Public on Feb 19 2011
Sample_submission_date	Feb 08 2011
Sample_last_update_date	Feb 19 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from the skeletal muscle using the RNeasy mini kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. RNA quality was checked using an Agilent 2100 Bioanalyzer (Agilent Technologies, Wilmington DE) before cDNA synthesis.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (100ng) from each sample was used to synthesize double-stranded cDNA (One-Cycle cDNA Synthesis Kit, Affymetrix). The double-stranded cDNA samples were subsequently reverse transcribed, amplified, and biotin-labeled according to the Affymetrix standard protocol.
Sample_hyb_protocol	12.5 μg of the fragmented cRNA were then hybridized with the mouse Genome 430 2.0 array (Affymetrix). Hybridization was allowed to proceed 16 hours, followed by automated washing and staining in the Fluidics Station 450 (Affymetrix).
Sample_scan_protocol	The GeneChips were scanned with an Affymetrix GeneChip Scanner 3000 and the data acquired via the Microarray Suite version 5.0 (MAS 5.0).
Sample_data_processing	The data were analyzed with MAS 5.0 using Affymetrix Expression Console software with default analysis settings.
Sample_platform_id	GPL1261
Sample_contact_name	daigo,,miyazaki
Sample_contact_email	miyajiro@shinshu-u.ac.jp
Sample_contact_phone	+81-263-37-2673
Sample_contact_fax	+81-263-34-0929
Sample_contact_department	Department of Medicine (Neurology and Rheumatology)
Sample_contact_institute	Shinshu University School of Medicine
Sample_contact_address	3-1-1 Asahi
Sample_contact_city	Matsumoto
Sample_contact_zip/postal_code	390-8621
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670197/suppl/GSM670197.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670197/suppl/GSM670197.CHP.gz
Sample_series_id	GSE27129
Sample_data_row_count	45101

GSM670198

GPL1261

02 - mdx mice at 3 months of age

skeletal muscle, mdx, 3 months

strain: C57BL/6J genotype: mdx tissue: tibialis anterior muscle age: 3 months

Tibialis anterior muscle from mdx mice at 3 months of age.

Sample_geo_accession	GSM670198
Sample_status	Public on Feb 19 2011
Sample_submission_date	Feb 08 2011
Sample_last_update_date	Feb 19 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from the skeletal muscle using the RNeasy mini kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. RNA quality was checked using an Agilent 2100 Bioanalyzer (Agilent Technologies, Wilmington DE) before cDNA synthesis.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (100ng) from each sample was used to synthesize double-stranded cDNA (One-Cycle cDNA Synthesis Kit, Affymetrix). The double-stranded cDNA samples were subsequently reverse transcribed, amplified, and biotin-labeled according to the Affymetrix standard protocol.
Sample_hyb_protocol	12.5 μg of the fragmented cRNA were then hybridized with the mouse Genome 430 2.0 array (Affymetrix). Hybridization was allowed to proceed 16 hours, followed by automated washing and staining in the Fluidics Station 450 (Affymetrix).
Sample_scan_protocol	The GeneChips were scanned with an Affymetrix GeneChip Scanner 3000 and the data acquired via the Microarray Suite version 5.0 (MAS 5.0).
Sample_data_processing	The data were analyzed with MAS 5.0 using Affymetrix Expression Console software with default analysis settings.
Sample_platform_id	GPL1261
Sample_contact_name	daigo,,miyazaki
Sample_contact_email	miyajiro@shinshu-u.ac.jp
Sample_contact_phone	+81-263-37-2673
Sample_contact_fax	+81-263-34-0929
Sample_contact_department	Department of Medicine (Neurology and Rheumatology)
Sample_contact_institute	Shinshu University School of Medicine
Sample_contact_address	3-1-1 Asahi
Sample_contact_city	Matsumoto
Sample_contact_zip/postal_code	390-8621
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670198/suppl/GSM670198.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670198/suppl/GSM670198.CHP.gz
Sample_series_id	GSE27129
Sample_data_row_count	45101

GSM670199

GPL1261

03 - mdx/MMP-2-/- mice at 1 month of age

skeletal muscle, mdx/MMP-2-/-, 1 month

strain: C57BL/6J genotype: mdx/MMP-2-/- tissue: tibialis anterior muscle age: 1 month

Tibialis anterior muscle from mdx/MMP-2-/- mice at 1 month of age.

Sample_geo_accession	GSM670199
Sample_status	Public on Feb 19 2011
Sample_submission_date	Feb 08 2011
Sample_last_update_date	Feb 19 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from the skeletal muscle using the RNeasy mini kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. RNA quality was checked using an Agilent 2100 Bioanalyzer (Agilent Technologies, Wilmington DE) before cDNA synthesis.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (100ng) from each sample was used to synthesize double-stranded cDNA (One-Cycle cDNA Synthesis Kit, Affymetrix). The double-stranded cDNA samples were subsequently reverse transcribed, amplified, and biotin-labeled according to the Affymetrix standard protocol.
Sample_hyb_protocol	12.5 μg of the fragmented cRNA were then hybridized with the mouse Genome 430 2.0 array (Affymetrix). Hybridization was allowed to proceed 16 hours, followed by automated washing and staining in the Fluidics Station 450 (Affymetrix).
Sample_scan_protocol	The GeneChips were scanned with an Affymetrix GeneChip Scanner 3000 and the data acquired via the Microarray Suite version 5.0 (MAS 5.0).
Sample_data_processing	The data were analyzed with MAS 5.0 using Affymetrix Expression Console software with default analysis settings.
Sample_platform_id	GPL1261
Sample_contact_name	daigo,,miyazaki
Sample_contact_email	miyajiro@shinshu-u.ac.jp
Sample_contact_phone	+81-263-37-2673
Sample_contact_fax	+81-263-34-0929
Sample_contact_department	Department of Medicine (Neurology and Rheumatology)
Sample_contact_institute	Shinshu University School of Medicine
Sample_contact_address	3-1-1 Asahi
Sample_contact_city	Matsumoto
Sample_contact_zip/postal_code	390-8621
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670199/suppl/GSM670199.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670199/suppl/GSM670199.CHP.gz
Sample_series_id	GSE27129
Sample_data_row_count	45101

GSM670200

GPL1261

04 - mdx/MMP-2-/- mice at 3 months of age

skeletal muscle, mdx/MMP-2-/-, 3 months

strain: C57BL/6J genotype: mdx/MMP-2-/- tissue: tibialis anterior muscle age: 3 months

Tibialis anterior muscle from mdx/MMP-2-/- mice at 3 months of age.

Sample_geo_accession	GSM670200
Sample_status	Public on Feb 19 2011
Sample_submission_date	Feb 08 2011
Sample_last_update_date	Feb 19 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from the skeletal muscle using the RNeasy mini kit (Qiagen, Hilden, Germany) according to the manufacturer’s instructions. RNA quality was checked using an Agilent 2100 Bioanalyzer (Agilent Technologies, Wilmington DE) before cDNA synthesis.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA (100ng) from each sample was used to synthesize double-stranded cDNA (One-Cycle cDNA Synthesis Kit, Affymetrix). The double-stranded cDNA samples were subsequently reverse transcribed, amplified, and biotin-labeled according to the Affymetrix standard protocol.
Sample_hyb_protocol	12.5 μg of the fragmented cRNA were then hybridized with the mouse Genome 430 2.0 array (Affymetrix). Hybridization was allowed to proceed 16 hours, followed by automated washing and staining in the Fluidics Station 450 (Affymetrix).
Sample_scan_protocol	The GeneChips were scanned with an Affymetrix GeneChip Scanner 3000 and the data acquired via the Microarray Suite version 5.0 (MAS 5.0).
Sample_data_processing	The data were analyzed with MAS 5.0 using Affymetrix Expression Console software with default analysis settings.
Sample_platform_id	GPL1261
Sample_contact_name	daigo,,miyazaki
Sample_contact_email	miyajiro@shinshu-u.ac.jp
Sample_contact_phone	+81-263-37-2673
Sample_contact_fax	+81-263-34-0929
Sample_contact_department	Department of Medicine (Neurology and Rheumatology)
Sample_contact_institute	Shinshu University School of Medicine
Sample_contact_address	3-1-1 Asahi
Sample_contact_city	Matsumoto
Sample_contact_zip/postal_code	390-8621
Sample_contact_country	Japan
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670200/suppl/GSM670200.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM670nnn/GSM670200/suppl/GSM670200.CHP.gz
Sample_series_id	GSE27129
Sample_data_row_count	45101

Make groups for comparisons

(2 groups will be compared at a time)

Select GSMs and click on "Add groups"

Enter the group name here:

Select expression type

Transcripts profile based on;

A. Differential status (Up/Down regulation)

B. Absolute calls (Transcribed/Not-detected)

Filter results by number of probes