Search results for the GEO ID: GSE45016  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1095876 | GPL570 |
|
Normal prostate
|
clinical normal prostatic epithelial cells
|
tissue: normal prostate (NP) epithelial cells
|
Normal prostatic epithelial cells that were microdissected from normal prostate tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095876
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095876/suppl/GSM1095876_Normal_prostate.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095877 | GPL570 |
|
High-grade PC1
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T4N0M1
gleason score: GS 9
psa level: PSA 5477ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095877
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095877/suppl/GSM1095877_High-grade_PC1.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095878 | GPL570 |
|
High-grade PC2
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T4N1M1
gleason score: GS 9
psa level: PSA 4427ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095878
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095878/suppl/GSM1095878_High-grade_PC2.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095879 | GPL570 |
|
High-grade PC3
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T2bN1M1
gleason score: GS 9
psa level: PSA1900ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095879
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095879/suppl/GSM1095879_High-grade_PC3.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095880 | GPL570 |
|
High-grade PC4
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T3aN0M1
gleason score: GS 9
psa level: PSA 630ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095880
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095880/suppl/GSM1095880_High-grade_PC4.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095881 | GPL570 |
|
High-grade PC5
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T3bN0M1
gleason score: GS 9
psa level: PSA 334ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095881
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095881/suppl/GSM1095881_High-grade_PC5.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095882 | GPL570 |
|
High-grade PC6
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T4N1M1
gleason score: GS 9
psa level: PSA 311ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095882
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095882/suppl/GSM1095882_High-grade_PC6.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095883 | GPL570 |
|
High-grade PC7
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T3bN1M1
gleason score: GS 8
psa level: PSA 1000ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095883
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095883/suppl/GSM1095883_High-grade_PC7.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095884 | GPL570 |
|
High-grade PC8
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T3bN0M0
gleason score: GS 9
psa level: PSA 275ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095884
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095884/suppl/GSM1095884_High-grade_PC8.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
| | |
|
GSM1095885 | GPL570 |
|
High-grade PC9
|
clinical prostate cancer cells
|
tissue: prostate cancer cells
clinical stage: clinical T3aN0M0
gleason score: GS 9
psa level: PSA 80ng/ml
|
High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
|
| Sample_geo_accession | GSM1095885
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095885/suppl/GSM1095885_High-grade_PC9.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
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GSM1095886 | GPL570 |
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High-grade PC10
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clinical prostate cancer cells
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tissue: prostate cancer cells
clinical stage: clinical T3aN1M0
gleason score: GS 8
psa level: PSA 234ng/ml
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High-grade prostate cancer cells that were microdissected from prostate cancer tissue, procured by needle biopsy.
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| Sample_geo_accession | GSM1095886
| | Sample_status | Public on Mar 12 2013
| | Sample_submission_date | Mar 11 2013
| | Sample_last_update_date | Mar 12 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 | 100,00-200,000 tumor cells or normal cells were isolated selectively using the EZ cut system with a pulsed ultraviolet narrow beam-focus laser in accordance with the manufacturer’s protocols. RNA for microarray analysis was isolated with TRIzol reagent (Life Technologies, Rockville, MD, USA) and purified with the RNeasy MiniElute kit (QIAGEN, Valencia, CA) according to the manufacturer’s instructions. RNA quality was assessed with an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ng total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5).
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome U133 Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450 (GeneChip Expression Analysis Technical Manual, 701021 Rev. 5)
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GCS3000 scanner.
| | Sample_data_processing | The scanned images were analyzed using the GeneChip operating software version 1.4 (Affymetrix 690036) with Microarray Suite version 5.0 (MAS 5.0). Affymetrix default analysis settings and global scaling was used as normalization method. The trimmed mean target intensity of each array was set to 500. Differentially expressed genes were extracted using DNA microarray viewer (Kurabo, osaka, Japan)
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kenji,,Tamura
| | Sample_contact_email | tamurak@kochi-u.ac.jp
| | Sample_contact_department | Urology
| | Sample_contact_institute | Kochi University
| | Sample_contact_address | Kohasu, Oko-cho
| | Sample_contact_city | Nankoku
| | Sample_contact_state | Kochi
| | Sample_contact_zip/postal_code | 783-8505
| | Sample_contact_country | Japan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1095nnn/GSM1095886/suppl/GSM1095886_High-grade_PC10.CEL.gz
| | Sample_series_id | GSE45016
| | Sample_data_row_count | 54675
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