Search results for the GEO ID: GSE10957  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM277617 | GPL96 |
|
A549 rho vitro 1
|
cultured cells
|
A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277617
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277617/suppl/GSM277617.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277618 | GPL96 |
|
A549 rho vitro 2
|
cultured cells
|
A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277618
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277618/suppl/GSM277618.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277619 | GPL96 |
|
A549 rho vitro 3
|
cultured cells
|
A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277619
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 rho zero cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277619/suppl/GSM277619.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277620 | GPL96 |
|
A549 WT vitro 1
|
cultured cells
|
A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277620
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277620/suppl/GSM277620.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277621 | GPL96 |
|
A549 WT vitro 2
|
cultured cells
|
A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277621
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277621/suppl/GSM277621.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277622 | GPL96 |
|
A549 WT vitro 3
|
cultured cells
|
A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277622
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_growth_protocol_ch1 | A549 cells cultured in RPMI 1640 medium supplemented with 20 mM HEPES, 2 mM L-glutamine, 10% heat inactivated fetal bovine serum (Hyclone) and antibiotics (200 U/mL penicillin and 200 μg/mL streptomycin).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | A549 or A549 rho zero human lung cancer cells (1 x 10^5 cells per T-25 flask in 7 mL complete RPMI 1640 medium) were seeded 8 days prior to RNA isolation. Each experiment was performed in triplicate. After incubation, all cultures were washed twice with HBSS supplemented with 0.5% BSA and total RNA was isolated using the RNA Stat-60 reagent (Tel-Test, Inc., Friendswood, TX).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277622/suppl/GSM277622.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277623 | GPL96 |
|
A549 rho vivo 1
|
xenograft A549 rho zero cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277623
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277623/suppl/GSM277623.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277624 | GPL96 |
|
A549 rho vivo 2
|
xenograft A549 rho zero cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277624
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277624/suppl/GSM277624.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277625 | GPL96 |
|
A549 rho vivo 3
|
xenograft A549 rho zero cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277625
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277625/suppl/GSM277625.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277626 | GPL96 |
|
A549 rho vivo 4
|
xenograft A549 rho zero cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277626
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277626/suppl/GSM277626.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277627 | GPL96 |
|
A549 WT vivo 1
|
xenograft A549 cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277627
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277627/suppl/GSM277627.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277628 | GPL96 |
|
A549 WT vivo 2
|
xenograft A549 cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277628
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277628/suppl/GSM277628.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277630 | GPL96 |
|
A549 WT vivo 3
|
xenograft A549 cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277630
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277630/suppl/GSM277630.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
GSM277631 | GPL96 |
|
A549 WT vivo 4
|
xenograft A549 cells
|
a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
|
See manuscript for additional details.
|
| Sample_geo_accession | GSM277631
| | Sample_status | Public on Apr 18 2008
| | Sample_submission_date | Mar 26 2008
| | Sample_last_update_date | Apr 12 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Darren Magda
| | Sample_treatment_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_growth_protocol_ch1 = Animal care was in accordance with NIH and institutional guidelines. For the A549 xenograft model, 1.7 million A549 cells were injected subcutaneously/intramuscularly into the right hind flank of 6 week old CD-1 nude mice that had been irradiated with 4 Gy of total body irradiation from a 137Cs radiation source one day prior to tumor implantation (Sirotnak, et al., 2000). For the A549 rho zero xenograft model, 1.5 million cells were used. Tumor and body weight measurements (6 or 7 mice per group) were performed three times per week once tumors became palpable. This occurred 41 versus 9 days post-implantation in (rho zero) and wildtype A549 xenograft models, respectively. Tumor volume was calculated using the equation V (mm3) | a × b2/2, where a is the largest diameter and b is the smallest diameter. No significant body weight loss was observed.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | To perform gene expression profiling, tumors (4 tumors per group) were harvested and snap frozen immediately on dry ice when the tumor size reached 500-800 mm3. Tumor tissue was dissected, homogenized in Trizol, and total RNA was isolated.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA samples were converted into biotin-labeled cRNA using standard protocols recommended by Affymetrix (Santa Clara, CA).
| | Sample_hyb_protocol | Microarrays were hybridized 12-16 hours at 45 C under standard conditions (Affymetrix).
| | Sample_scan_protocol | Microarrays were scanned under standard conditions (Affymetrix).
| | Sample_data_processing | RMA normalization using the ArrayAssist (Stratagene).
| | Sample_platform_id | GPL96
| | Sample_contact_name | Joseph,Gerard,Hacia
| | Sample_contact_email | hacia@hsc.usc.edu
| | Sample_contact_phone | 323-442-3030
| | Sample_contact_fax | 323-442-2764
| | Sample_contact_laboratory | Hacia Lab
| | Sample_contact_department | Biochemistry and Molecular Biology
| | Sample_contact_institute | University of Southern California
| | Sample_contact_address | 2250 Alcazar Street, IGM 240
| | Sample_contact_city | Los Angeles
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 90089
| | Sample_contact_country | USA
| | Sample_contact_web_link | www.usc.edu/pibbs/faculty/hacia_j.htm
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM277nnn/GSM277631/suppl/GSM277631.CEL.gz
| | Sample_series_id | GSE10957
| | Sample_data_row_count | 22283
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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