Search results for the GEO ID: GSE46054  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1122645 | GPL570 |
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Hela Control siRNA_Normoxia
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Hela_control_normoxia
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cell line: HeLa
genotype/variation: control
oxygen level: normoxia
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Hela Co_N
imimura_s01_HelaCoN_avg100.txt
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| Sample_geo_accession | GSM1122645
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122645/suppl/GSM1122645_110628_Shoji_01_HelaCoN.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
| | |
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GSM1122646 | GPL570 |
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Hela SPAG4 siRNA#1_Normoxia
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Hela_SPAG4 KO_normoxia
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cell line: HeLa
genotype/variation: SPAG4 knockdown
oxygen level: normoxia
|
Hela Spa1_N
imimura_s02_HelaSpa1N_avg100.txt
|
| Sample_geo_accession | GSM1122646
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122646/suppl/GSM1122646_110628_Shoji_mimura_02_HelaSpa1N.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
| | |
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GSM1122647 | GPL570 |
|
Hela SPAG4 siRNA#2_Normoxia
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Hela_SPAG4 KO_normoxia
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cell line: HeLa
genotype/variation: SPAG4 knockdown
oxygen level: normoxia
|
Hela Spa2_N
imimura_s03_HelaSpa2N_avg100.txt
|
| Sample_geo_accession | GSM1122647
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122647/suppl/GSM1122647_110628_Shoji_mimura_03_HelaSpa2N.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
| | |
|
GSM1122648 | GPL570 |
|
Hela Control siRNA_Hypoxia
|
Hela_control_hypoxia
|
cell line: HeLa
genotype/variation: control
oxygen level: hypoxia
|
Hela Co_H
imimura_s04_HelaCoH_avg100.txt
|
| Sample_geo_accession | GSM1122648
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122648/suppl/GSM1122648_110628_Shoji_mimura_04_HelaCoH.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
| | |
|
GSM1122649 | GPL570 |
|
Hela SPAG4 siRNA#1_Hypoxia
|
Hela_SPAG4 KO_hypoxia
|
cell line: HeLa
genotype/variation: SPAG4 knockdown
oxygen level: hypoxia
|
Hela Spa1_H
imimura_s05_HelaSpa1H_avg100.txt
|
| Sample_geo_accession | GSM1122649
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122649/suppl/GSM1122649_110628_Shoji_mimura_05_HelaSpa1H.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
| | |
|
GSM1122650 | GPL570 |
|
Hela SPAG4 siRNA#2_Hypoxia
|
Hela_SPAG4 KO_hypoxia
|
cell line: HeLa
genotype/variation: SPAG4 knockdown
oxygen level: hypoxia
|
Hela Spa2_H
imimura_s06_HelaSpa2H_avg100.txt
|
| Sample_geo_accession | GSM1122650
| | Sample_status | Public on Apr 16 2013
| | Sample_submission_date | Apr 15 2013
| | Sample_last_update_date | Apr 16 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Two different kinds of sequences for siRNA were used to knockdown of SPAG4 (#1,#2). Hypoxic condition is 1% for 24 hours.
| | Sample_growth_protocol_ch1 | Hela cells were cultured for 48 hours with knocking down of SPAG4, then cultured for 24 hours under normoxia and 1% hypoxic conditions.
| | 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 | In vitro transcription was performed on 1 microgram of cDNA using the Enzo BioArray High Yield RNA transcript labelling kit (Enzo Diagnostics). The cRNA was cleaned using RNAeasy clean-up columns (Qiagen). The cRNA was fragmented by heating in 40 mM Tris-acetate pH 8.1, 100 mM KOAc, 30 mM MgOAc.
| | Sample_hyb_protocol | 10 micrograms of fragmented cRNA were hybridised (45degree CelsiusC, 16 hours). Hybridization was controled by use of the GeneChip Eukaryotic Hybridization Control Kit (Affymetrix). Washing and staining was performed in a Fluidics Station 450 (Affymetrix) using the protocol EukGE-WS2v4.
| | Sample_scan_protocol | Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
| | Sample_data_processing | Affymetrix GeneChip Operating Software (GCOS) Version 1.0. with target intensity=100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Imari,,Mimura
| | Sample_contact_department | Laboratory for Systems Biology and Medicine
| | Sample_contact_institute | Research Center for Advanced Science and Technology
| | Sample_contact_address | 4-6-1 Komaba Meguro-ku
| | Sample_contact_city | Tokyo
| | Sample_contact_zip/postal_code | 153-8904
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1122nnn/GSM1122650/suppl/GSM1122650_110628_Shoji_mimura_06_HelaSpa2H.CEL.gz
| | Sample_series_id | GSE46054
| | Sample_data_row_count | 54675
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