Result

Search results for the GEO ID: GSE47714

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM1155324

GPL1261

Wild type NT2.5

cell type: Wild type NT2.5 metastatic site preference: bone, liver, lung

Sample_geo_accession	GSM1155324
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 12 2013
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	RNeasy RNA purification kit (Qiagen) was used according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized on GeneChip Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	Data in the matrix table below were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The nonparametric hypothesis-based analysis of microarrays approach of Kowalski et al., Bioinformatics, 2004 was applied, designed to address analyses of several groups based on as few as a single sample per group. This approach was applied to (quantile) normalized, within each sample type, log2 transformed expression data using the RMA approach of Irizarry et al., Biostatistics, 2003 to obtain candidate overexpressed genes. The complete set of log2 RMA normalized data were not supplied by the submitter.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,,Kominsky
Sample_contact_email	kominsc@jhmi.edu
Sample_contact_institute	Johns Hopkins University School of Medicine
Sample_contact_address	720 Rutland Ave, Ross 209
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155324/suppl/GSM1155324_SKom-MBM-WT-1a-MOE430_2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155324/suppl/GSM1155324_SKom-MBM-WT-1a-MOE430_2.CHP.gz
Sample_series_id	GSE47714
Sample_data_row_count	45101

GSM1155325

GPL1261

Bo3

NT2.5 bone sub-line, 3rd passage

cell type: NT2.5 bone sub-line, 3rd passage metastatic site preference: bone

Sample_geo_accession	GSM1155325
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 12 2013
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	RNeasy RNA purification kit (Qiagen) was used according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized on GeneChip Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	Data in the matrix table below were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The nonparametric hypothesis-based analysis of microarrays approach of Kowalski et al., Bioinformatics, 2004 was applied, designed to address analyses of several groups based on as few as a single sample per group. This approach was applied to (quantile) normalized, within each sample type, log2 transformed expression data using the RMA approach of Irizarry et al., Biostatistics, 2003 to obtain candidate overexpressed genes. The complete set of log2 RMA normalized data were not supplied by the submitter.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,,Kominsky
Sample_contact_email	kominsc@jhmi.edu
Sample_contact_institute	Johns Hopkins University School of Medicine
Sample_contact_address	720 Rutland Ave, Ross 209
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155325/suppl/GSM1155325_SKom-MBM-Bo3-1a-MOE430_2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155325/suppl/GSM1155325_SKom-MBM-Bo3-1a-MOE430_2.CHP.gz
Sample_series_id	GSE47714
Sample_data_row_count	45101

GSM1155326

GPL1261

Bo6

NT2.5 bone sub-line, 6th passage

cell type: NT2.5 bone sub-line, 6th passage metastatic site preference: bone

Sample_geo_accession	GSM1155326
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 12 2013
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	RNeasy RNA purification kit (Qiagen) was used according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized on GeneChip Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	Data in the matrix table below were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The nonparametric hypothesis-based analysis of microarrays approach of Kowalski et al., Bioinformatics, 2004 was applied, designed to address analyses of several groups based on as few as a single sample per group. This approach was applied to (quantile) normalized, within each sample type, log2 transformed expression data using the RMA approach of Irizarry et al., Biostatistics, 2003 to obtain candidate overexpressed genes. The complete set of log2 RMA normalized data were not supplied by the submitter.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,,Kominsky
Sample_contact_email	kominsc@jhmi.edu
Sample_contact_institute	Johns Hopkins University School of Medicine
Sample_contact_address	720 Rutland Ave, Ross 209
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155326/suppl/GSM1155326_SKom-MBM-Bo6-1a-MOE430_2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155326/suppl/GSM1155326_SKom-MBM-Bo6-1a-MOE430_2.CHP.gz
Sample_series_id	GSE47714
Sample_data_row_count	45101

GSM1155327

GPL1261

Li1

NT2.5 liver sub-line, 1st passage

cell type: NT2.5 liver sub-line, 1st passage metastatic site preference: liver

Sample_geo_accession	GSM1155327
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 12 2013
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	RNeasy RNA purification kit (Qiagen) was used according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized on GeneChip Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	Data in the matrix table below were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The nonparametric hypothesis-based analysis of microarrays approach of Kowalski et al., Bioinformatics, 2004 was applied, designed to address analyses of several groups based on as few as a single sample per group. This approach was applied to (quantile) normalized, within each sample type, log2 transformed expression data using the RMA approach of Irizarry et al., Biostatistics, 2003 to obtain candidate overexpressed genes. The complete set of log2 RMA normalized data were not supplied by the submitter.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,,Kominsky
Sample_contact_email	kominsc@jhmi.edu
Sample_contact_institute	Johns Hopkins University School of Medicine
Sample_contact_address	720 Rutland Ave, Ross 209
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155327/suppl/GSM1155327_SKom-MBM-Li1-1a-MOE430_2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155327/suppl/GSM1155327_SKom-MBM-Li1-1a-MOE430_2.CHP.gz
Sample_series_id	GSE47714
Sample_data_row_count	45101

GSM1155328

GPL1261

Li3

NT2.5 liver sub-line, 3rd passage

cell type: NT2.5 liver sub-line, 3rd passage metastatic site preference: liver

Sample_geo_accession	GSM1155328
Sample_status	Public on Jun 07 2013
Sample_submission_date	Jun 06 2013
Sample_last_update_date	Jun 12 2013
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	RNeasy RNA purification kit (Qiagen) was used according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
Sample_hyb_protocol	Following fragmentation, cRNA were hybridized on GeneChip Mouse Genome 430 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Sample_data_processing	Data in the matrix table below were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The nonparametric hypothesis-based analysis of microarrays approach of Kowalski et al., Bioinformatics, 2004 was applied, designed to address analyses of several groups based on as few as a single sample per group. This approach was applied to (quantile) normalized, within each sample type, log2 transformed expression data using the RMA approach of Irizarry et al., Biostatistics, 2003 to obtain candidate overexpressed genes. The complete set of log2 RMA normalized data were not supplied by the submitter.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,,Kominsky
Sample_contact_email	kominsc@jhmi.edu
Sample_contact_institute	Johns Hopkins University School of Medicine
Sample_contact_address	720 Rutland Ave, Ross 209
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155328/suppl/GSM1155328_SKom-MBM-Li3-1a-MOE430_2.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1155nnn/GSM1155328/suppl/GSM1155328_SKom-MBM-Li3-1a-MOE430_2.CHP.gz
Sample_series_id	GSE47714
Sample_data_row_count	45101

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