Search results for the GEO ID: GSE14882 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM371014 | GPL96 |
|
Melas_patient_1
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 1
sex: male
age at blood withdrawal: 22 years
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 78%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371014
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371014/suppl/GSM371014.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371015 | GPL96 |
|
Melas_patient_2
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 2
sex: male
age at blood withdrawal: 33
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 41%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371015
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371015/suppl/GSM371015.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371016 | GPL96 |
|
Melas_patient_3
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 3
sex: male
age at blood withdrawal: 37
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 38%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371016
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371016/suppl/GSM371016.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371017 | GPL96 |
|
Melas_patient_4
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 4
sex: male
age at blood withdrawal: 43
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 29%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371017
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371017/suppl/GSM371017.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371018 | GPL96 |
|
Melas_patient_5
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 5
sex: male
age at blood withdrawal: 52
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 16%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371018
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371018/suppl/GSM371018.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371019 | GPL96 |
|
Melas_patient_6
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 6
sex: female
age at blood withdrawal: 50
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 13%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371019
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371019/suppl/GSM371019.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371020 | GPL96 |
|
Melas_patient_7
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 7
sex: female
age at blood withdrawal: 35
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 20%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371020
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371020/suppl/GSM371020.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371021 | GPL96 |
|
Melas_patient_8
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 8
sex: female
age at blood withdrawal: 47
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 16%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371021
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371021/suppl/GSM371021.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371022 | GPL96 |
|
Melas_patient_9
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 9
sex: female
age at blood withdrawal: 63
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 14%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371022
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371022/suppl/GSM371022.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371023 | GPL96 |
|
Melas_patient_10
|
Human blood from Melas patient
|
tissue: whole blood
patient identifier: 10
sex: male
age at blood withdrawal: 59
mtdna: positive for A3243G Melas mutation
a3243g level of heteroplasmy: 7%
|
Whole blood sample from A3243G positive MELAS patient.
|
Sample_geo_accession | GSM371023
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 13 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371023/suppl/GSM371023.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371952 | GPL96 |
|
Control_Patient_1
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched control pool for MELAS patient 1
|
Sample_geo_accession | GSM371952
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371952/suppl/GSM371952.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371953 | GPL96 |
|
Control_Patient_2,3,4
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched healthy control pool for MELAS patient 2,3,4
|
Sample_geo_accession | GSM371953
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371953/suppl/GSM371953.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371956 | GPL96 |
|
Control_Patient_5
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched healthy control pool for MELAS patient 5
|
Sample_geo_accession | GSM371956
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371956/suppl/GSM371956.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371957 | GPL96 |
|
Control_Patient_9
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched healthy control pool for MELAS patient 9
|
Sample_geo_accession | GSM371957
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371957/suppl/GSM371957.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371959 | GPL96 |
|
Control_Patient_6,7,8
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched healthy control pool for MELAS patient 6,7,8
|
Sample_geo_accession | GSM371959
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371959/suppl/GSM371959.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
GSM371962 | GPL96 |
|
Control_Patient_10
|
Human blood from healthy individuals
|
tissue: whole blood
|
Pool of whole blood samples from two healthy control individuals. Age- and sex-matched healthy control pool for MELAS patient 10
|
Sample_geo_accession | GSM371962
| Sample_status | Public on Jan 24 2011
| Sample_submission_date | Feb 18 2009
| Sample_last_update_date | Jan 24 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Whole blood samples (7.5ml) were directly collected into PAXgene Blood RNA Tubes of the PAXgene Blood RNA System (Qiagen, Hilden, Germany) to stabilize RNA for gene expression profiling. Blood samples were incubated at room temperature in their PAXgene Blood RNA tubes for at least 2h to ensure complete cell lysis.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was isolated with the PAXgene Blood RNA kit combined with the RNase-free DNase set (both from Qiagen, Hilden, Germany). RNA samples were concentrated with the RNeasy MinElute Cleanup Kit (Qiagen) prior to globin-mRNA depletion using the GLOBINClear Kit from Ambion (Austin, TX).
| Sample_label_ch1 | Biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA was prepared from 3 microgramm of globin-depleted RNA using the GeneChip Expression 3`-Amplification reagents (Affymetrix, Santa Clara, CA).
| Sample_hyb_protocol | Following fragmentation, samples of each patients two age- and sex-specific controls were pooled in equal amounts (5 microgramm each). 10 microgramm of cRNA were hybridized to the Affymetrix HG-U133A chip according to the protocols provided by the manufacturer.
| Sample_scan_protocol | GeneChips were scanned on an Affymetrix GeneChip Scanner 3000.
| Sample_data_processing | Chip intensity data were retrieved in cel-files and further proceeded with RMA-Express (www.rmaexpress.bmbolstad.com). Results were exported in log2-scale. In order to reduce inter-experimental variation, all chips scanned on the same day were put into a group. The chips were fitted to a common reference profile by using the median polish procedure. For further analysis, the matched control-chips were subtracted from the individual patient-chips, resulting in age- and sex-corrected profiles.
| Sample_platform_id | GPL96
| Sample_contact_name | Susanne ,,Mende
| Sample_contact_email | smende@gwdg.de
| Sample_contact_phone | +4917661262270
| Sample_contact_department | Neurology
| Sample_contact_institute | University Clinic Dresden
| Sample_contact_address | Fetscherstrasse 74
| Sample_contact_city | Dresden
| Sample_contact_zip/postal_code | 01307
| Sample_contact_country | Germany
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM371nnn/GSM371962/suppl/GSM371962.CEL.gz
| Sample_series_id | GSE14882
| Sample_data_row_count | 22215
| |
|
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
|
Select GSMs and click on "Add groups" |
Enter the group name here: |
|
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