Search results for the GEO ID: GSE2125  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM38345 | GPL570 |
|
01.Koth_24_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38345
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38345/suppl/GSM38345.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38346 | GPL570 |
|
02.Koth_25_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38346
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38346/suppl/GSM38346.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38347 | GPL570 |
|
03.Koth_29_HS.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38347
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38347/suppl/GSM38347.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38348 | GPL570 |
|
04.Koth_61_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38348
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38348/suppl/GSM38348.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38349 | GPL570 |
|
05.Koth_26_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38349
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38349/suppl/GSM38349.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38350 | GPL570 |
|
06.Koth_27_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38350
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38350/suppl/GSM38350.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38351 | GPL570 |
|
07.Koth_40_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38351
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38351/suppl/GSM38351.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38352 | GPL570 |
|
09.Koth_59_HS.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38352
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38352/suppl/GSM38352.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38353 | GPL570 |
|
08.Koth_43_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38353
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38353/suppl/GSM38353.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38354 | GPL570 |
|
10.Koth_60_HS.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38354
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38354/suppl/GSM38354.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38355 | GPL570 |
|
11.Woodruff_20_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38355
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38355/suppl/GSM38355.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38356 | GPL570 |
|
12.Woodruff_22_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38356
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38356/suppl/GSM38356.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38357 | GPL570 |
|
13.Woodruff_32_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38357
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38357/suppl/GSM38357.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38358 | GPL570 |
|
14.Woodruff_33_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38358
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38358/suppl/GSM38358.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38359 | GPL570 |
|
15.Woodruff_51_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38359
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38359/suppl/GSM38359.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38360 | GPL570 |
|
16.Woodruff_56_HS.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38360
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38360/suppl/GSM38360.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38361 | GPL570 |
|
18.Woodruff_8sA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38361
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38361/suppl/GSM38361.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38362 | GPL570 |
|
17.Woodruff_57_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38362
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38362/suppl/GSM38362.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38363 | GPL570 |
|
19.Woodruff_13saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38363
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38363/suppl/GSM38363.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38364 | GPL570 |
|
20.Woodruff_18saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38364
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38364/suppl/GSM38364.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38365 | GPL570 |
|
21.Woodruff_25saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38365
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38365/suppl/GSM38365.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38366 | GPL570 |
|
23.Woodruff_50_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38366
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38366/suppl/GSM38366.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38367 | GPL570 |
|
24.Woodruff_46_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38367
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38367/suppl/GSM38367.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38368 | GPL570 |
|
25.Woodruff_38_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38368
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38368/suppl/GSM38368.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38369 | GPL570 |
|
26.Woodruff_47_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38369
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38369/suppl/GSM38369.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38370 | GPL570 |
|
27.Woodruff_4saA1_SCAN1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38370
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38370/suppl/GSM38370.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38371 | GPL570 |
|
29.Woodruff_44_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38371
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38371/suppl/GSM38371.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38372 | GPL570 |
|
30.Woodruff_16saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38372
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38372/suppl/GSM38372.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38373 | GPL570 |
|
33.Woodruff_64_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38373
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38373/suppl/GSM38373.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38374 | GPL570 |
|
32.Woodruff_48_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38374
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38374/suppl/GSM38374.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38375 | GPL570 |
|
34.Woodruff_5saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38375
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38375/suppl/GSM38375.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38376 | GPL570 |
|
36.Woodruff_54_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38376
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38376/suppl/GSM38376.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38377 | GPL570 |
|
37.Woodruff_36_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38377
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38377/suppl/GSM38377.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38378 | GPL570 |
|
38.Woodruff_6saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38378
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38378/suppl/GSM38378.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38379 | GPL570 |
|
39.Woodruff_15saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38379
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38379/suppl/GSM38379.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38380 | GPL570 |
|
40.Woodruff_52_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38380
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38380/suppl/GSM38380.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38381 | GPL570 |
|
41.Woodruff_9saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38381
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38381/suppl/GSM38381.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38382 | GPL570 |
|
43.Woodruff_45_C.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38382
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38382/suppl/GSM38382.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38383 | GPL570 |
|
44.Woodruff_2saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38383
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38383/suppl/GSM38383.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38384 | GPL570 |
|
45.Woodruff_55_HS.CEL
|
isolated alveolar macrophages
|
status: Smoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38384
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38384/suppl/GSM38384.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38385 | GPL570 |
|
47.Woodruff_62_N.CEL
|
isolated alveolar macrophages
|
status: Nonsmoker
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38385
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38385/suppl/GSM38385.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38386 | GPL570 |
|
48.Woodruff_3saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38386
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38386/suppl/GSM38386.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38387 | GPL570 |
|
49.Woodruff_11saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38387
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38387/suppl/GSM38387.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38388 | GPL570 |
|
50.Woodruff_19saA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38388
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38388/suppl/GSM38388.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
GSM38389 | GPL570 |
|
51.Woodruff_20asA1.CEL
|
isolated alveolar macrophages
|
status: Asthmatic
|
Total RNA from freshly isolated macrophages
|
| Sample_geo_accession | GSM38389
| | Sample_status | Public on Oct 04 2005
| | Sample_submission_date | Jan 04 2005
| | Sample_last_update_date | May 22 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA was extracted from mouse and human alveolar macrophages and DNase-treated using the RNeasy RNA extraction kit (Qiagen). RNA concentration and quality were assessed using the Bioanalyzer 2100 (Agilent Technologies, Palo Alto, CA).
| | Sample_label_protocol_ch1 | Labeling was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard labeling protocol for this chip type (www.affymetrix.com)
| | Sample_hyb_protocol | Samples were hybridized to Affymetrix Human Genome U133 Plus 2.0 GeneChips. RNA was ampli?ed by performing two rounds of in vitro transcription (Ambion Message Amp aRNA kit no. 1750).
| | Sample_scan_protocol | Scanning was performed at the UCSF core facility (cat.ucsf.edu) as per Affymetrix's standard scanning protocol for this chip type (www.affymetrix.com)
| | Sample_data_processing | Bioconductor was used for quality control (affyPLM) and preprocessing (RMA).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Michael,E.,Salazar
| | Sample_contact_phone | (415) 514-4371
| | Sample_contact_laboratory | Functional Genomics Core Laboratories
| | Sample_contact_department |
| | Sample_contact_institute | University of California, San Francisco
| | Sample_contact_address | 1550 Fourth Street, RM 545
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94158
| | Sample_contact_country | USA
| | Sample_contact_web_link | arrays.ucsf.edu
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM38nnn/GSM38389/suppl/GSM38389.CEL.gz
| | Sample_series_id | GSE2125
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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