Search results for the GEO ID: GSE6233  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM143687 | GPL570 |
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genes expression in esophageal squamous carcinoma cells, biological rep1
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homo sapiens_esophageal squamous carcinoma cell line EC109
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GENE EXPRESSION: Ezrin high-expressed
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expression genes data from ec109 cells tranfected with blank vector
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| Sample_geo_accession | GSM143687
| | Sample_status | Public on Nov 09 2006
| | Sample_submission_date | Nov 06 2006
| | Sample_last_update_date | Feb 08 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The mammalian expression vector, pSUPER.neo.circular (OligoEngine), was used for expression of siRNA in EC109 cells. Briefly, two primer pairs were synthesized, one pair encoding nucleotides 274–292 (TCCACTATGTGGATAATAA) followed by a 9 base ‘‘loop’’ (TTCAAGAGA) and the inverted repeat (PSE1), and the second encoding nucleotides 265–283 (ACTTTGGCCTCCACTATGT) again followed by the loop and inverted repeat (PSE2). And pSUPER.neo vector of nonspecific siRNA was taken as negative control (PSC). The primer pairs were annealed and inserted into the BglII and HindIII sites of pSUPER.neo and transformed into JM109 competent cells (Promega). Positive clones were verified and transfected into EC109 cells using FuGENE 6 transfection reagent (Roche) according to the manufacturer’s instructions. G418 (400 ?g/ml, Calbiochem) was added into the culture medium after 24 h. Stable G418-resistant clones were obtained in 7–9 days. The expanded cells were then used for studies.
| | Sample_growth_protocol_ch1 | cell lines were maintained in 199 medium (Invitrogen) containing 10% fetal calf serum (FCS)at 5% CO2 at 37°C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Enmin,,Li
| | Sample_contact_email | nmli@stu.edu.cn
| | Sample_contact_phone | 86-754-8900847
| | Sample_contact_fax | 86-754-8900247
| | Sample_contact_institute | Shantou university, medical college
| | Sample_contact_address | 22 Xinling Road
| | Sample_contact_city | shantou
| | Sample_contact_state | guangdong
| | Sample_contact_zip/postal_code | 515041
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM143nnn/GSM143687/suppl/GSM143687.CEL.gz
| | Sample_series_id | GSE6233
| | Sample_data_row_count | 54675
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GSM143688 | GPL570 |
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genes expression in ezrin- knockdown esophageal squamous carcinoma cells, biological rep1
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homo sapiens_esophageal squamous carcinoma cell line EC109
|
GENE EXPRESSION: Ezrin high-expressed
|
expression genes data from ec109 cells tranfected with blank vector
|
| Sample_geo_accession | GSM143688
| | Sample_status | Public on Nov 09 2006
| | Sample_submission_date | Nov 06 2006
| | Sample_last_update_date | Aug 07 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | The mammalian expression vector, pSUPER.neo.circular (OligoEngine), was used for expression of siRNA in EC109 cells. Briefly, two primer pairs were synthesized, one pair encoding nucleotides 274?92 (TCCACTATGTGGATAATAA) followed by a 9 base ‘‘loop’’ (TTCAAGAGA) and the inverted repeat (PSE1), and the second encoding nucleotides 265?83 (ACTTTGGCCTCCACTATGT) again followed by the loop and inverted repeat (PSE2). And pSUPER.neo vector of nonspecific siRNA was taken as negative control (PSC). The primer pairs were annealed and inserted into the BglII and HindIII sites of pSUPER.neo and transformed into JM109 competent cells (Promega). Positive clones were verified and transfected into EC109 cells using FuGENE 6 transfection reagent (Roche) according to the manufacturer’s instructions. G418 (400 ?g/ml, Calbiochem) was added into the culture medium after 24 h. Stable G418-resistant clones were obtained in 7? days. The expanded cells were then used for studies.
| | Sample_growth_protocol_ch1 | cell lines were maintained in 199 medium (Invitrogen) containing 10% fetal calf serum (FCS)at 5% CO2 at 37°C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Enmin,,Li
| | Sample_contact_email | nmli@stu.edu.cn
| | Sample_contact_phone | 86-754-8900847
| | Sample_contact_fax | 86-754-8900247
| | Sample_contact_institute | Shantou university, medical college
| | Sample_contact_address | 22 Xinling Road
| | Sample_contact_city | shantou
| | Sample_contact_state | guangdong
| | Sample_contact_zip/postal_code | 515041
| | Sample_contact_country | China
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM143nnn/GSM143688/suppl/GSM143688.CEL.gz
| | Sample_series_id | GSE6233
| | Sample_data_row_count | 54675
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