TOP TEN perturbations for 38980_at (Homo sapiens)
Organism: Homo sapiens
Gene: 38980_at
Selected probe(set): 212184_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array
Expression of 38980_at (212184_s_at) across 6674 perturbations tested by GENEVESTIGATOR:
brefeldin A study 1 (0.5ug/ml; HCT 116) / untreated HCT 116 cell sample
Relative Expression (log2-ratio):3.3320045Number of Samples:3 / 3
| Experimental | brefeldin A study 1 (0.5ug/ml; HCT 116) |
| Human colon carcinoma cell line HCT116 was treated with 0.5 ug/ml brefeldin-A for 24 hours in McCOYs 5A medium supplemented with 10% heat inactivated FBS. ATC code:--- | |
| Control | untreated HCT 116 cell sample |
| Human colon carcinoma cell line HCT116 was grown in McCOYs 5A medium supplemented with 10% heat inactivated FBS. |
brefeldin A study 1 (0.5ug/ml; p53HCT116) / untreated p53HCT116 cell sample
Relative Expression (log2-ratio):3.0415907Number of Samples:2 / 3
| Experimental | brefeldin A study 1 (0.5ug/ml; p53HCT116) |
| Derived human colon carcinoma cell line p53HCT116 with knockout gene for p53 was treated with 0.5 ug/ml brefeldin-A for 24 hours in McCOYs 5A medium supplemented with 10% heat inactivated FBS. ATC code:--- | |
| Control | untreated p53HCT116 cell sample |
| Derived human colon carcinoma cell line p53HCT116 with knockout gene for p53 was grown in McCOYs 5A medium supplemented with 10% heat inactivated FBS. |
vMyb overexpr. study 1 (adenovirus) / cMyb overexpr. study 2 (adenovirus)
Relative Expression (log2-ratio):-2.5210848Number of Samples:2 / 2
| Experimental | vMyb overexpr. study 1 (adenovirus) |
| Approximately 1x10^6 monocytes were infected with adenovirus expressing v-Myb and GFP for 16 hours, then total RNA was isolated. | |
| Control | cMyb overexpr. study 2 (adenovirus) |
| Approximately 1x10^6 monocytes were infected with adenovirus expressing c-Myb and GFP for 16 hours, then total RNA was isolated. |
vMyb overexpr. study 1 (adenovirus) / control virus infected monocyte sample
Relative Expression (log2-ratio):-2.5075264Number of Samples:2 / 2
| Experimental | vMyb overexpr. study 1 (adenovirus) |
| Approximately 1x10^6 monocytes were infected with adenovirus expressing v-Myb and GFP for 16 hours, then total RNA was isolated. | |
| Control | control virus infected monocyte sample |
| Approximately 1x10^6 monocytes were infected with control adenovirus expressing GFP for 16 hours, then total RNA was isolated. |
malignant fibrous histiocytoma study 1 (side population) / malignant fibrous histiocytoma study 1 (non-side population)
Relative Expression (log2-ratio):-2.2657642Number of Samples:6 / 6
| Experimental | malignant fibrous histiocytoma study 1 (side population) |
| Side population (SP) subset of malignant fibrous histiocytoma tumor cells (MFH). Cells were divided into the SP group based on ability to efflux Hoechst dye. Cells were treated either alone with 2.5 μg/mL of Hoechst 33342 dye or in combination with 50 μmol/L verapamil, an inhibitor of ABC transporters. Cells were counterstained with 1 μg/mL of propidium iodide (PI), and PI-positive nonviable cells were excluded. To detect for SP, cells were analyzed by using a dual wavelength analysis (blue, 424–444 nm; red, 675 nm) after excitation with 350 nm UV light. During flow cytometry analysis, negatively stained cells fall to the “side-population” subset. Malignant fibrous histiocytoma tumor tissue (also termed as undifferentiated pleomorphic sarcoma) was obtained at the time of the initial biopsy. Pathology was verified by an independent experienced musculoskeletal pathologist, and for the absence of staining for routine markers used to identify sarcoma subtypes. The samples were mechanically dissociated and then digested. | |
| Control | malignant fibrous histiocytoma study 1 (non-side population) |
| Non-side population (non-SP) subset of malignant fibrous histiocytoma tumor cells (MFH). Cells were divided into the non-SP group based on ability to incorporate Hoechst dye. Cells were treated either alone with 2.5 μg/mL of Hoechst 33342 dye or in combination with 50 μmol/L verapamil, an inhibitor of ABC transporters. Cells were counterstained with 1 μg/mL of propidium iodide (PI), and PI-positive nonviable cells were excluded. To detect for non-SP, cells were analyzed by using a dual wavelength analysis (blue, 424–444 nm; red, 675 nm) after excitation with 350 nm UV light. During flow cytometry analysis, positively stained cells fall to the “main-population (non-side)” subset. Malignant fibrous histiocytoma tumor tissue (also termed as undifferentiated pleomorphic sarcoma) was obtained at the time of the initial biopsy. Pathology was verified by an independent experienced musculoskeletal pathologist, and for the absence of staining for routine markers used to identify sarcoma subtypes. The samples were mechanically dissociated and then digested. |
brefeldin A study 1 (0.5ug/ml; HCT 116 DICER1(-/-)) / untreated HCT 116 DICER1(-/-) cell sample
Relative Expression (log2-ratio):2.233364Number of Samples:3 / 3
| Experimental | brefeldin A study 1 (0.5ug/ml; HCT 116 DICER1(-/-)) |
| Derived human colon carcinoma cell line HCT 116 DICER1(-/-) with knockout DICER gene in exon 5 was treated with 0.5 ug/ml brefeldin-A for 24 hours in McCOYs 5A medium supplemented with 10% heat inactivated FBS. ATC code:--- | |
| Control | untreated HCT 116 DICER1(-/-) cell sample |
| Derived human colon carcinoma cell line HCT 116 DICER1(-/-) with knockout DICER gene in exon 5 by was grown in McCOYs 5A medium supplemented with 10% heat inactivated FBS. |
tunicamycin study 2 (2ug/ml; HCT 116 DICER1(-/-)) / untreated HCT 116 DICER1(-/-) cell sample
Relative Expression (log2-ratio):2.0828514Number of Samples:3 / 3
| Experimental | tunicamycin study 2 (2ug/ml; HCT 116 DICER1(-/-)) |
| Derived human colon carcinoma cell line HCT 116 DICER1(-/-) with knockout DICER gene in exon 5 was treated with 2 ug/ml tunicamycin for 24 hours in McCOYs 5A medium supplemented with 10% heat inactivated FBS. ATC code:--- | |
| Control | untreated HCT 116 DICER1(-/-) cell sample |
| Derived human colon carcinoma cell line HCT 116 DICER1(-/-) with knockout DICER gene in exon 5 by was grown in McCOYs 5A medium supplemented with 10% heat inactivated FBS. |
bone cancer study 1 (PDX; chondroblastic osteosarcoma; primary) / bone cancer study 1 (PDX; myxoid chondrosarcoma; primary)
Relative Expression (log2-ratio):1.856636Number of Samples:2 / 2
| Experimental | bone cancer study 1 (PDX; chondroblastic osteosarcoma; primary) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary chondroblastic osteosarcoma of the bone (subcutaneously implanted). | |
| Control | bone cancer study 1 (PDX; myxoid chondrosarcoma; primary) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from patients with primary myxoid chondrosarcoma of the bone (subcutaneously implanted). |
LPS study 4 (shRNA cycT1) / cycT1 depletion study 2 (shRNA)
Relative Expression (log2-ratio):1.7660398Number of Samples:2 / 2
| Experimental | LPS study 4 (shRNA cycT1) |
| MONO-MAC-6 (MM6) cells were transduced with shRNA against cyclin T1 and then treated with 10 ng/ml lipopolysaccharide (LPS). ATC code:--- | |
| Control | cycT1 depletion study 2 (shRNA) |
| MONO-MAC-6 (MM6) cells were transduced with shRNA against cyclin T1 and then mock treated. |
formaldehyde study 8 (200µM) / untreated TK6 cell sample
Relative Expression (log2-ratio):-1.731204Number of Samples:3 / 15
| Experimental | formaldehyde study 8 (200µM) |
| TK6 cells treated with 200µM formaldehyde for 4h. ATC code:--- | |
| Control | untreated TK6 cell sample |
| Untreated TK6 cell line. Cells where left untreated for 4h before harvesting. |