Search results for the GEO ID: GSE12427  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM311194 | GPL570 |
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KM-H2 (K9)
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KM-H2
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KMH2, Hodgkin lymphoma cell line.
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Array was performed as a control cell line to determine the effects of EBER in this Hodgkin lymphoma cell line. See also (accession number: GSM311195) for array of EBER1-expressing celll line KE.
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| Sample_geo_accession | GSM311194
| | Sample_status | Public on Feb 13 2010
| | Sample_submission_date | Aug 10 2008
| | Sample_last_update_date | Feb 13 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | KM-H2 was obtained from German Collection of Microorganisms and Cell Culture (DSMZ, Braunschweig, Germany).
| | Sample_treatment_protocol_ch1 | 1x 106 KMH2 cells were transfected with 30 ug control plasmid (empty vector with express EGFP) by electroporation with an ECM630 system (BTX, Holliston, MA). Stable clone expressing the fluorescent protein EGFP from a PCMV promoter, was selected in RPMI1640 and 10% fetal bovine serum containing 1mg/ml GENETICIN (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | They were cultured in RPMI1640 containing 10% fetal bovine serum, 100 ug/ml streptomycin, and 100U/ ml penicillin, at 37oC with 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA sample was extracted by TRIzol® reagent (Invitrogen ).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The Affymetrix chip, Human Genome U133 plus 2.0, was used. First-strand cDNAs were synthesized from 10 ug total RNAs with a T7-ptomoter-oligo(dT) primer. After second-strand synthesis, biotin-labeled cRNAs were transcribed from the T7 promoter. The quality of cRNAs was checked by gel electrophoresis with an Agilent 6000 Bioanalyzer (Agilent Technologies, Foster City, CA). The cRNAs were fragmented into sizes from 35 to 200 nucleotides, and labeled with streptavidin-PE. The fragmented cRNAs were mixed with control RNAs (bioB, bioC, bioD, and cre) and hybridized with the membrane.
| | Sample_hyb_protocol | Hybridization and washing of the arrays was done according to GeneChip Expression Analysis Technical Manual from Affymetrix.
| | Sample_scan_protocol | The arrays were scanned with GenePix 4000B (Molecular Devices, Sunnyvale, CA).
| | Sample_data_processing | The data were extracted with Affymetrix Microarray suite software (MAS).
| | Sample_platform_id | GPL570
| | Sample_contact_name | ChungWu,,Lin
| | Sample_contact_email | chungwulin@yahoo.com
| | Sample_contact_phone | +886-2-23123456-65454
| | Sample_contact_fax | +886-2-23598341
| | Sample_contact_laboratory | Tissue Bank
| | Sample_contact_department | pathology
| | Sample_contact_institute | National Taiwan University
| | Sample_contact_address | 2, Syujhou Rd
| | Sample_contact_city | Taipei
| | Sample_contact_state | Taiwan
| | Sample_contact_zip/postal_code | 100
| | Sample_contact_country | Taiwan
| | Sample_contact_web_link | http://www.mc.ntu.edu.tw/department/ntupath/main.php?Page=N2
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM311nnn/GSM311194/suppl/GSM311194.CEL.gz
| | Sample_series_id | GSE12427
| | Sample_data_row_count | 54675
| | |
|
GSM311195 | GPL570 |
|
EBER+ KM-H2 (KE)
|
KM-H2
|
KM-H2, Hodgkin lymphoma cell lines.
|
Array was performed to determine the effects of EBER in this Hodgkin lymphoma cell line. See also (accession number: GSM311194) for array of the control celll line KM-H2.
|
| Sample_geo_accession | GSM311195
| | Sample_status | Public on Feb 13 2010
| | Sample_submission_date | Aug 10 2008
| | Sample_last_update_date | Feb 13 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | KM-H2 was obtained from German Collection of Microorganisms and Cell Culture (DSMZ, Braunschweig, Germany).
| | Sample_treatment_protocol_ch1 | 1x 106 KMH2 cells were transfected with 30 ug plasmid by electroporation with an ECM630 system (BTX, Holliston, MA). Stable clone expressing the 167-nucleotide EBER1 transcribed from a H1 promoter in p9362 and the fluorescent protein EGFP from a PCMV promoter, was selected in RPMI1640 and 10% fetal bovine serum containing 1mg/ml GENETICIN (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | They were cultured in RPMI1640 containing 10% fetal bovine serum, 100 ug/ml streptomycin, and 100U/ ml penicillin, at 37oC with 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA sample was extracted by TRIzol® reagent (Invitrogen ).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The Affymetrix chip, Human Genome U133 plus 2.0, was used. First-strand cDNAs were synthesized from 10 ug total RNAs with a T7-ptomoter-oligo(dT) primer. After second-strand synthesis, biotin-labeled cRNAs were transcribed from the T7 promoter. The quality of cRNAs was checked by gel electrophoresis with an Agilent 6000 Bioanalyzer (Agilent Technologies, Foster City, CA). The cRNAs were fragmented into sizes from 35 to 200 nucleotides, and labeled with streptavidin-PE. The fragmented cRNAs were mixed with control RNAs (bioB, bioC, bioD, and cre) and hybridized with the membrane.
| | Sample_hyb_protocol | Hybridization and washing of the arrays was done according to GeneChip Expression Analysis Technical Manual from Affymetrix.
| | Sample_scan_protocol | The arrays were scanned with GenePix 4000B (Molecular Devices, Sunnyvale, CA).
| | Sample_data_processing | The data were extracted with Affymetrix Microarray suite software (MAS).
| | Sample_platform_id | GPL570
| | Sample_contact_name | ChungWu,,Lin
| | Sample_contact_email | chungwulin@yahoo.com
| | Sample_contact_phone | +886-2-23123456-65454
| | Sample_contact_fax | +886-2-23598341
| | Sample_contact_laboratory | Tissue Bank
| | Sample_contact_department | pathology
| | Sample_contact_institute | National Taiwan University
| | Sample_contact_address | 2, Syujhou Rd
| | Sample_contact_city | Taipei
| | Sample_contact_state | Taiwan
| | Sample_contact_zip/postal_code | 100
| | Sample_contact_country | Taiwan
| | Sample_contact_web_link | http://www.mc.ntu.edu.tw/department/ntupath/main.php?Page=N2
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM311nnn/GSM311195/suppl/GSM311195.CEL.gz
| | Sample_series_id | GSE12427
| | Sample_data_row_count | 54675
| | |
|
GSM311200 | GPL570 |
|
L428 (L9)
|
L428
|
L428, Hodgkin lymphoma cell lines.
|
Array was performed as a control cell line to determine the effects of EBER in this Hodgkin lymphoma cell line. See also (accession number: GSM311203) for array of EBER1-expressing celll line LE.
|
| Sample_geo_accession | GSM311200
| | Sample_status | Public on Feb 13 2010
| | Sample_submission_date | Aug 10 2008
| | Sample_last_update_date | Feb 13 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | L428 was obtained from German Collection of Microorganisms and Cell Culture (DSMZ, Braunschweig, Germany).
| | Sample_treatment_protocol_ch1 | 1x 106 L428 cells were transfected with 30 ug plasmid (empty vector) by electroporation with an ECM630 system (BTX, Holliston, MA). Stable clone expressing the fluorescent protein EGFP from a PCMV promoter, was selected in RPMI1640 and 10% fetal bovine serum containing 1mg/ml GENETICIN (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | They were cultured in RPMI1640 containing 10% fetal bovine serum, 100 ug/ml streptomycin, and 100U/ ml penicillin, at 37oC with 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA sample was extracted by TRIzol® reagent (Invitrogen ).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The Affymetrix chip, Human Genome U133 plus 2.0, was used. First-strand cDNAs were synthesized from 10 ug total RNAs with a T7-ptomoter-oligo(dT) primer. After second-strand synthesis, biotin-labeled cRNAs were transcribed from the T7 promoter. The quality of cRNAs was checked by gel electrophoresis with an Agilent 6000 Bioanalyzer (Agilent Technologies, Foster City, CA). The cRNAs were fragmented into sizes from 35 to 200 nucleotides, and labeled with streptavidin-PE. The fragmented cRNAs were mixed with control RNAs (bioB, bioC, bioD, and cre) and hybridized with the membrane.
| | Sample_hyb_protocol | Hybridization and washing of the arrays was done according to GeneChip Expression Analysis Technical Manual from Affymetrix.
| | Sample_scan_protocol | The arrays were scanned with GenePix 4000B (Molecular Devices, Sunnyvale, CA).
| | Sample_data_processing | The data were extracted with Affymetrix Microarray suite software (MAS).
| | Sample_platform_id | GPL570
| | Sample_contact_name | ChungWu,,Lin
| | Sample_contact_email | chungwulin@yahoo.com
| | Sample_contact_phone | +886-2-23123456-65454
| | Sample_contact_fax | +886-2-23598341
| | Sample_contact_laboratory | Tissue Bank
| | Sample_contact_department | pathology
| | Sample_contact_institute | National Taiwan University
| | Sample_contact_address | 2, Syujhou Rd
| | Sample_contact_city | Taipei
| | Sample_contact_state | Taiwan
| | Sample_contact_zip/postal_code | 100
| | Sample_contact_country | Taiwan
| | Sample_contact_web_link | http://www.mc.ntu.edu.tw/department/ntupath/main.php?Page=N2
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM311nnn/GSM311200/suppl/GSM311200.CEL.gz
| | Sample_series_id | GSE12427
| | Sample_data_row_count | 54675
| | |
|
GSM311203 | GPL570 |
|
EBER+ L428 (LE)
|
L428
|
L428, Hodgkin lymphoma cell line.
|
Array was performed to determine the effects of EBER in this Hodgkin lymphoma cell line. See also (accession number: GSM311200) for array of the control celll line L428.
|
| Sample_geo_accession | GSM311203
| | Sample_status | Public on Feb 13 2010
| | Sample_submission_date | Aug 10 2008
| | Sample_last_update_date | Feb 13 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | L428 was obtained from German Collection of Microorganisms and Cell Culture (DSMZ, Braunschweig, Germany).
| | Sample_treatment_protocol_ch1 | 1x 106 L428 cells were transfected with 30 ug plasmid by electroporation with an ECM630 system (BTX, Holliston, MA). Stable clone expressing the 167-nucleotide EBER1 transcribed from a H1 promoter in p9362 and the fluorescent protein EGFP from a PCMV promoter, was selected in RPMI1640 and 10% fetal bovine serum containing 1mg/ml GENETICIN (Invitrogen, Carlsbad, CA).
| | Sample_growth_protocol_ch1 | They were cultured in RPMI1640 containing 10% fetal bovine serum, 100 ug/ml streptomycin, and 100U/ ml penicillin, at 37oC with 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA sample was extracted by TRIzol® reagent (Invitrogen ).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The Affymetrix chip, Human Genome U133 plus 2.0, was used. First-strand cDNAs were synthesized from 10 ug total RNAs with a T7-ptomoter-oligo(dT) primer. After second-strand synthesis, biotin-labeled cRNAs were transcribed from the T7 promoter. The quality of cRNAs was checked by gel electrophoresis with an Agilent 6000 Bioanalyzer (Agilent Technologies, Foster City, CA). The cRNAs were fragmented into sizes from 35 to 200 nucleotides, and labeled with streptavidin-PE. The fragmented cRNAs were mixed with control RNAs (bioB, bioC, bioD, and cre) and hybridized with the membrane.
| | Sample_hyb_protocol | Hybridization and washing of the arrays was done according to GeneChip Expression Analysis Technical Manual from Affymetrix.
| | Sample_scan_protocol | The arrays were scanned with GenePix 4000B (Molecular Devices, Sunnyvale, CA).
| | Sample_data_processing | The data were extracted with Affymetrix Microarray suite software (MAS).
| | Sample_platform_id | GPL570
| | Sample_contact_name | ChungWu,,Lin
| | Sample_contact_email | chungwulin@yahoo.com
| | Sample_contact_phone | +886-2-23123456-65454
| | Sample_contact_fax | +886-2-23598341
| | Sample_contact_laboratory | Tissue Bank
| | Sample_contact_department | pathology
| | Sample_contact_institute | National Taiwan University
| | Sample_contact_address | 2, Syujhou Rd
| | Sample_contact_city | Taipei
| | Sample_contact_state | Taiwan
| | Sample_contact_zip/postal_code | 100
| | Sample_contact_country | Taiwan
| | Sample_contact_web_link | http://www.mc.ntu.edu.tw/department/ntupath/main.php?Page=N2
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM311nnn/GSM311203/suppl/GSM311203.CEL.gz
| | Sample_series_id | GSE12427
| | Sample_data_row_count | 54675
| | |
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