Search results for the GEO ID: GSE27390  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM677339 | GPL570 |
|
RA patient 1 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 62
disease: rheumatoid arthritis
|
RA-1
|
| Sample_geo_accession | GSM677339
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677339/suppl/GSM677339.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677340 | GPL570 |
|
RA patient 2 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 41
disease: rheumatoid arthritis
|
RA-2
|
| Sample_geo_accession | GSM677340
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677340/suppl/GSM677340.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677341 | GPL570 |
|
RA patient 3 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 74
disease: rheumatoid arthritis
|
RA-3
|
| Sample_geo_accession | GSM677341
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677341/suppl/GSM677341.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677342 | GPL570 |
|
RA patient 4 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 74
disease: rheumatoid arthritis
|
RA-4
|
| Sample_geo_accession | GSM677342
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677342/suppl/GSM677342.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677343 | GPL570 |
|
RA patient 5 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 77
disease: rheumatoid arthritis
|
RA-5
|
| Sample_geo_accession | GSM677343
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677343/suppl/GSM677343.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677344 | GPL570 |
|
RA patient 6 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 54
disease: rheumatoid arthritis
|
RA-6
|
| Sample_geo_accession | GSM677344
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677344/suppl/GSM677344.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677345 | GPL570 |
|
RA patient 7 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 74
disease: rheumatoid arthritis
|
RA-7
|
| Sample_geo_accession | GSM677345
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677345/suppl/GSM677345.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677346 | GPL570 |
|
RA patient 8 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 65
disease: rheumatoid arthritis
|
RA-8
|
| Sample_geo_accession | GSM677346
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677346/suppl/GSM677346.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677347 | GPL570 |
|
RA patient 9 BMMC
|
bone marrow-derived mononuclear cells from RA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 73
disease: rheumatoid arthritis
|
RA-9
|
| Sample_geo_accession | GSM677347
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677347/suppl/GSM677347.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677348 | GPL570 |
|
OA patient 1 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 71
disease: osteoarthritis
|
OA-1
|
| Sample_geo_accession | GSM677348
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677348/suppl/GSM677348.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677349 | GPL570 |
|
OA patient 2 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 69
disease: osteoarthritis
|
OA-2
|
| Sample_geo_accession | GSM677349
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677349/suppl/GSM677349.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677350 | GPL570 |
|
OA patient 3 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 76
disease: osteoarthritis
|
OA-3
|
| Sample_geo_accession | GSM677350
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677350/suppl/GSM677350.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677351 | GPL570 |
|
OA patient 4 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 69
disease: osteoarthritis
|
OA-4
|
| Sample_geo_accession | GSM677351
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677351/suppl/GSM677351.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677352 | GPL570 |
|
OA patient 5 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 90
disease: osteoarthritis
|
OA-5
|
| Sample_geo_accession | GSM677352
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677352/suppl/GSM677352.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677353 | GPL570 |
|
OA patient 6 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 69
disease: osteoarthritis
|
OA-6
|
| Sample_geo_accession | GSM677353
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677353/suppl/GSM677353.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677354 | GPL570 |
|
OA patient 7 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 52
disease: osteoarthritis
|
OA-7
|
| Sample_geo_accession | GSM677354
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677354/suppl/GSM677354.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677355 | GPL570 |
|
OA patient 8 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 54
disease: osteoarthritis
|
OA-8
|
| Sample_geo_accession | GSM677355
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677355/suppl/GSM677355.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677356 | GPL570 |
|
OA patient 9 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 39
disease: osteoarthritis
|
OA-9
|
| Sample_geo_accession | GSM677356
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677356/suppl/GSM677356.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
GSM677357 | GPL570 |
|
OA patient 10 BMMC
|
bone marrow-derived mononuclear cells from OA patient
|
tissue: bone marrow
cell type: mononuclear cells
gender: female
age: 52
disease: osteoarthritis
|
OA-10
|
| Sample_geo_accession | GSM677357
| | Sample_status | Public on May 31 2011
| | Sample_submission_date | Feb 17 2011
| | Sample_last_update_date | Jun 01 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 | Patient bone marrow were collected and kept at 4C. All BMMC were isolated by using Ficoll-Paque Plus. Total RNA from BMMC was extracted by using the RNeasy Mini Kit (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | cDNA were synthesized from 3 ug total RNA according to the One-Cycle Target Labeling protocol, and biotinylated cRNA were prepared followed by fragmentation.
| | Sample_hyb_protocol | 15 ug of fragmented cRNA were hybridized for 16 hr at 45 on GeneChip Human Genome U133 Plus 2.0 Arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with GeneChip Operating Software 1.4 using Affymetrix default signal settings and global scaling as the normalization method. Only data with present or marginal detection calls were selected for further analysis.
| | Sample_data_processing |
| | Sample_data_processing | The false discovery rate was used to determine statistically significant differences in the mRNA expression levels between the RA and OA groups. The criterion for the statistical significance was q<0.001. Genes were identified as differentially expressed if their mean signal values were at least 50% different between the two groups.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Norihiro,,Nishimoto
| | Sample_contact_email | norichan@wakayama-med.ac.jp
| | Sample_contact_phone | +81-72-646-8039
| | Sample_contact_fax | +81-72-646-8140
| | Sample_contact_laboratory | Laboratory of Immune Regulation
| | Sample_contact_institute | Wakayama Medical University
| | Sample_contact_address | 7-7-20, Saito-Asagi
| | Sample_contact_city | Ibaraki
| | Sample_contact_state | Osaka
| | Sample_contact_zip/postal_code | 567-0085
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM677nnn/GSM677357/suppl/GSM677357.CEL.gz
| | Sample_series_id | GSE27390
| | Sample_data_row_count | 54675
| | |
|
| |
| |
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(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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