Search results for the GEO ID: GSE22225  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM553488 | GPL570 |
|
Patient 5, Average Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Female, 18 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Female
age: 18 Years
disease progression: Average Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553488
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553488/suppl/GSM553488_leb1_1.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553488/suppl/GSM553488_leb1_1_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553489 | GPL570 |
|
Patient 6, Average Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Male, 10 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Male
age: 10 Years
disease progression: Average Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553489
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553489/suppl/GSM553489_leb1_2.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553489/suppl/GSM553489_leb1_2_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553490 | GPL570 |
|
Patient 7, Average Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Female, 9 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Female
age: 9 Years
disease progression: Average Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553490
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553490/suppl/GSM553490_leb1_3.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553490/suppl/GSM553490_leb1_3_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553491 | GPL570 |
|
Patient 8, Average Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Male, 12 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Male
age: 12 Years
disease progression: Average Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553491
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553491/suppl/GSM553491_leb1_16.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553491/suppl/GSM553491_leb1_16_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553492 | GPL570 |
|
Patient 1, Rapid Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Female, 12 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Female
age: 12 Years
disease progression: Rapid Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553492
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553492/suppl/GSM553492_leb1_5.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553492/suppl/GSM553492_leb1_5_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553493 | GPL570 |
|
Patient 2, Rapid Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Female, 12 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Female
age: 12 Years
disease progression: Rapid Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553493
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553493/suppl/GSM553493_leb1_6.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553493/suppl/GSM553493_leb1_6_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553494 | GPL570 |
|
Patient 3, Slow Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Male, 28 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Male
age: 28 Years
disease progression: Slow Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553494
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553494/suppl/GSM553494_leb1_7.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553494/suppl/GSM553494_leb1_7_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553495 | GPL570 |
|
Patient 4, Slow Clinical Course
|
human lymphocytes from CLN3 patients
|
sample type: CLN3 1kb Deletion (c.462-677del), Male, 29 Years
disease state: CLN3
genoytpe: CLN3 1kb Deletion (c.462-677del)
gender: Male
age: 29 Years
disease progression: Slow Clinical Course
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553495
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553495/suppl/GSM553495_leb1_8.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553495/suppl/GSM553495_leb1_8_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553496 | GPL570 |
|
Control, Female, 18 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Female, 18 Years
disease state: healthy
genoytpe: control
gender: Female
age: 18 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553496
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553496/suppl/GSM553496_leb1_9.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553496/suppl/GSM553496_leb1_9_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553497 | GPL570 |
|
Control, Male, 10 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Male, 10 Years
disease state: healthy
genoytpe: control
gender: Male
age: 10 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553497
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553497/suppl/GSM553497_leb1_10.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553497/suppl/GSM553497_leb1_10_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553498 | GPL570 |
|
Control, Female, 10 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Female, 10 Years
disease state: healthy
genoytpe: control
gender: Female
age: 10 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553498
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553498/suppl/GSM553498_leb1_11.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553498/suppl/GSM553498_leb1_11_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553499 | GPL570 |
|
Control, Female, 12 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Female, 12 Years
disease state: healthy
genoytpe: control
gender: Female
age: 12 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553499
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553499/suppl/GSM553499_leb1_12.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553499/suppl/GSM553499_leb1_12_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553500 | GPL570 |
|
Control, Male, 27 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Male, 27 Years
disease state: healthy
genoytpe: control
gender: Male
age: 27 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553500
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553500/suppl/GSM553500_leb1_13.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553500/suppl/GSM553500_leb1_13_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553501 | GPL570 |
|
Control, Male, 29 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Male, 29 Years
disease state: healthy
genoytpe: control
gender: Male
age: 29 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553501
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553501/suppl/GSM553501_leb1_14.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553501/suppl/GSM553501_leb1_14_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
GSM553502 | GPL570 |
|
Control, Male, 13 Years
|
human lymphocytes from healthy control patient
|
sample type: healthy, Male, 13 Years
disease state: healthy
genoytpe: control
gender: Male
age: 13 Years
cell type: lymphocyte
|
Gene Expression Data from lymphocytes
|
| Sample_geo_accession | GSM553502
| | Sample_status | Public on Jun 08 2011
| | Sample_submission_date | Jun 08 2010
| | Sample_last_update_date | Jun 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Lymphocytes were prepared from fresh patient blood samples by Ficoll-gradient centrifugation
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | extraction of total RNA was performed according to the manufacturer's instructions (RNeasy® Micro Kit, Qiagen, Hilden, Germany)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | 100 ng total RNA were used for first strand cDNA-synthesis (Two-Cycle Target Labeling Kit; Affymetrix) according to the GeneChip Expression Analysis Technical Manual. Synthesis of biotin-labeled cRNA was carried out using the IVT Labeling Kit (Affymetrix) and cleaned up (Sample Cleanup Module, Affymetrix)
| | Sample_hyb_protocol | 15 µg of fragmented cRNA were incubated with the chip in 200 µl of hybridization solution in Hybridization Oven 640 (Affymetrix) at 45°C for 16 hours. GeneChips were then washed and stained using the Affymetrix Fluidics Station 450 according to the GeneChip Expression Analysis Technical Manual.
| | Sample_scan_protocol | Microarrays were scanned with the Affymetrix GeneChip Scanner 7G
| | Sample_data_processing | the signals were processed using the GeneChip expression analysis algorithm (version 2, Affymetrix). To compare samples and experiments, the trimmed mean signal of each array was scaled to a target intensity of 200.
| | Sample_data_processing | Absolute and comparison analyses were performed with Affymetrix MAS (version 5.0, Affymetrix) software using default parameters.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Thomas,,Streichert
| | Sample_contact_department | Institute For Clinical Chemistry / Central Laboratories
| | Sample_contact_institute | University Medical Center Hamburg-Eppendorf
| | Sample_contact_address | Martinistr. 52, Campus Forschung N27, 2. OG
| | Sample_contact_city | Hamburg
| | Sample_contact_zip/postal_code | D-20246
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553502/suppl/GSM553502_leb1_15.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553502/suppl/GSM553502_leb1_15_s200.CHP.gz
| | Sample_series_id | GSE22225
| | Sample_data_row_count | 54675
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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