Search results for the GEO ID: GSE13736  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM345268 | GPL570 |
|
EC pos control
|
EC pos control
|
tissue: primary endothelial cells from umbilical cord
|
LJ0023
|
| Sample_geo_accession | GSM345268
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 28 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | infected
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345268/suppl/GSM345268.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345269 | GPL570 |
|
EC neg control
|
EC neg control
|
tissue: primary endothelial cells from umbilical cord
|
LJ0024
|
| Sample_geo_accession | GSM345269
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 28 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | uninfected
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345269/suppl/GSM345269.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345270 | GPL570 |
|
EC 399 (BIII)
|
HUVEC infected with S. aureus from blood of septic patient
|
tissue: primary endothelial cells from umbilical cord
|
LJ0025
|
| Sample_geo_accession | GSM345270
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345270/suppl/GSM345270.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345271 | GPL570 |
|
EC 744 (BV)
|
HUVEC infected with S. aureus from blood of septic patient
|
tissue: primary endothelial cells from umbilical cord
|
LJ0026
|
| Sample_geo_accession | GSM345271
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345271/suppl/GSM345271.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345272 | GPL570 |
|
EC 354 (BII)
|
HUVEC infected with S. aureus from blood of septic patient
|
tissue: primary endothelial cells from umbilical cord
|
LJ0027
|
| Sample_geo_accession | GSM345272
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345272/suppl/GSM345272.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345273 | GPL570 |
|
EC 41 (BI)
|
HUVEC infected with S. aureus from blood of septic patient
|
tissue: primary endothelial cells from umbilical cord
|
LJ0028
|
| Sample_geo_accession | GSM345273
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345273/suppl/GSM345273.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345274 | GPL570 |
|
EC 566 (BIV)
|
HUVEC infected with S. aureus from blood of septic patient
|
tissue: primary endothelial cells from umbilical cord
|
LJ0029
|
| Sample_geo_accession | GSM345274
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345274/suppl/GSM345274.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345275 | GPL570 |
|
EC ZB1100 (CI)
|
HUVEC infected with S. aureus from healthy nasal carrier
|
tissue: primary endothelial cells from umbilical cord
|
LJ0030
|
| Sample_geo_accession | GSM345275
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345275/suppl/GSM345275.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345276 | GPL570 |
|
EC ZB1105 (CII)
|
HUVEC infected with S. aureus from healthy nasal carrier
|
tissue: primary endothelial cells from umbilical cord
|
LJ0031
|
| Sample_geo_accession | GSM345276
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345276/suppl/GSM345276.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345277 | GPL570 |
|
EC ZB1160 (CIII)
|
HUVEC infected with S. aureus from healthy nasal carrier
|
tissue: primary endothelial cells from umbilical cord
|
LJ0032
|
| Sample_geo_accession | GSM345277
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345277/suppl/GSM345277.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
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GSM345278 | GPL570 |
|
EC ZB1164 (CIV)
|
HUVEC infected with S. aureus from healthy nasal carrier
|
tissue: primary endothelial cells from umbilical cord
|
LJ0033
|
| Sample_geo_accession | GSM345278
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345278/suppl/GSM345278.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
| | |
|
GSM345279 | GPL570 |
|
EC ZB1241 (CV)
|
HUVEC infected with S. aureus from healthy nasal carrier
|
tissue: primary endothelial cells from umbilical cord
|
LJ0034
|
| Sample_geo_accession | GSM345279
| | Sample_status | Public on Apr 01 2009
| | Sample_submission_date | Nov 25 2008
| | Sample_last_update_date | Nov 25 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Endothelial cells (ECs) were prepared from human umbilical cord veins by digestion with 0.5 mg ml-1 collagenase type I (Sigma, St. Louis, MO) for 15 min at 37 C as previously described, cells were used within 3 passages. S. aureus were harvested after overnight incubation at 37 ºC on blood agar plates and suspended to 0.5 McFarland in PBS (pH 7.4), corresponding to approximately 1 x 108 cfu ml-1. The infection of HUVEC with S. aureus was performed as previously described. After 4 h of incubation, supernatants were collected and 350 ul RLT-buffer (Qiagen GmbH, Hilden, Germany) was added to each well.
| | Sample_growth_protocol_ch1 | 37 degree, 5% CO2
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Rneasy
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at conditions recommended by the manufacturer. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Robert,,Geffers
| | Sample_contact_email | robert.geffers@helmholtz-hzi.de
| | Sample_contact_phone | +49 531-6181-3058
| | Sample_contact_laboratory | Array Facility
| | Sample_contact_department | Dep. Cell Biology
| | Sample_contact_institute | HCI - Helmholtz Centre for Infection Research
| | Sample_contact_address | Inhoffenstr. 7
| | Sample_contact_city | Braunschweig
| | Sample_contact_zip/postal_code | 38124
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM345nnn/GSM345279/suppl/GSM345279.CEL.gz
| | Sample_series_id | GSE13736
| | Sample_data_row_count | 54675
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