Result

Search results for the GEO ID: GSE18182

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM448952

GPL570

NME2 Depleted A549 cell Replicate1

NME2 Depleted A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM448952
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 03 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM448nnn/GSM448952/suppl/GSM448952.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

GSM448953

GPL570

NME2 depleted A549 cell Replicate2

NME2 Depleted A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM448953
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 03 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM448nnn/GSM448953/suppl/GSM448953.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

GSM448954

GPL570

NME2 Depleted A549 cell Replicate3

NME2 Depleted A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM448954
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 03 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM448nnn/GSM448954/suppl/GSM448954.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

GSM454301

GPL570

NME2 Control A549 cell Replicate1

Control A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM454301
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 18 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM454nnn/GSM454301/suppl/GSM454301.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

GSM454307

GPL570

NME2 Control A549 cell Replicate2

Control A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM454307
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 18 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM454nnn/GSM454307/suppl/GSM454307.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

GSM454309

GPL570

NME2 Control A549 cell Replicate3

Control A549

tissue type: lung adenocarcinoma cell line: A549

NME2

Sample_geo_accession	GSM454309
Sample_status	Public on Feb 08 2011
Sample_submission_date	Sep 18 2009
Sample_last_update_date	Feb 08 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Isolated total RNA samples were processed as recommended by Affymetrix, Inc. (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetric, Inc., Santa Clara, CA). In brief, total RNA was initially isolated using TRI Reagent (Sigma, St. Louis, MO), and passed through an RNeasy spin column (Qiagen, Chatsworth, CA) for further clean up. All starting total RNA samples were quality assessed prior to beginning target preparation/processing steps by running out a small amount of each sample (typically 25-250 ng/well) onto a RNA Lab-On-A-Chip (Caliper Technologies Corp., Mountain View, CA) that was evaluated on an Agilent Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Single-stranded, then double-stranded cDNA was synthesized from the poly(A)+ mRNA present in the isolated total RNA (5 ug total RNA starting material each sample reaction) using the one cycle cDNA synthesis kit (Affymetrix, Inc.,Santa Clara CA ). A portion of the resulting ds cDNA was used as a template to generate biotin-tagged cRNA from an in vitro transcription reaction (IVT), using the Gene Chip IVT labeling kit.20ug of the resulting biotin-tagged cRNA was fragmented to strands of 35-200 bases in length following prescribed protocols (Affymetrix GeneChip Expression Analysis Technical Manual).
Sample_hyb_protocol	Subsequently, 15 ug of this fragmented target cRNA was hybridized at 45°C with rotation for 16 hours (Affymetrix GeneChip Hybridization Oven 640) to probe sets present on an Affymetrix HU133 plus 2.0 array.
Sample_scan_protocol	The GeneChip arrays were washed and then stained (SAPE, streptavidin-phycoerythrin) on an Affymetrix Fluidics Station 450, followed by scanning on a GeneChip Scanner 3000.
Sample_data_processing = The results were quantified and analyzed using GCOS 1.1.1 software (Affymetrix, Inc.) using default values (Scaling, Target Signal Intensity	500; Normalization, All Probe Sets; Parameters, all set at default values).
Sample_platform_id	GPL570
Sample_contact_name	Vinod,Kumar,Yadav
Sample_contact_email	vinod.yadav@igib.in
Sample_contact_department	Bioinformatics
Sample_contact_institute	IGIB
Sample_contact_address	Mall Road
Sample_contact_city	Delhi
Sample_contact_state	Delhi
Sample_contact_zip/postal_code	110009
Sample_contact_country	India
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM454nnn/GSM454309/suppl/GSM454309.CEL.gz
Sample_series_id	GSE18182
Sample_series_id	GSE18285
Sample_data_row_count	54675

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