TOP TEN perturbations for 39617_at (Homo sapiens)
Organism: Homo sapiens
Gene: 39617_at
Selected probe(set): 225575_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array
Expression of 39617_at (225575_at) across 6674 perturbations tested by GENEVESTIGATOR:
connective/soft tissue cancer study 1 (PDX; connective and soft tissue, leiomyosarcoma, NOS; metastatic) / connective/soft tissue cancer study 1 (PDX; connective and soft tissue, clear cell sarcoma, NOS; metastatic)
Relative Expression (log2-ratio):4.390665Number of Samples:2 / 2
| Experimental | connective/soft tissue cancer study 1 (PDX; connective and soft tissue, leiomyosarcoma, NOS; metastatic) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from a metastasis of patients with primary connective and soft tissue, leiomyosarcoma, NOS of the soft tissue (subcutaneously implanted). Metastatic site of patient tumor sample is not reported. | |
| Control | connective/soft tissue cancer study 1 (PDX; connective and soft tissue, clear cell sarcoma, NOS; metastatic) |
| Patient-derived xenograft (PDX) samples generated in female athymic nude mice from a metastasis of patients with primary connective and soft tissue, clear cell sarcoma, NOS of the soft tissue (subcutaneously implanted). Metastatic site of patient tumor sample is not reported. |
stem cell differentiation study 47 (BMP-2; TGFb; IBMX; 7d) / stem cell differentiation study 47 (0d)
Relative Expression (log2-ratio):3.99576Number of Samples:3 / 6
| Experimental | stem cell differentiation study 47 (BMP-2; TGFb; IBMX; 7d) |
| Bone marrow-derived mesenchymal stem cell line (MSC) differentiated for 7 days in the presence of bone morphogenetic protein 2 (BMP-2, 50ng/ml), transforming growth factor beta (TGFb, 5 ng/ml) and 3-isobutyl-1-methylxanthine (IBMX, 250 μM). Cells were propagated for not more than five passages in mesenchymal stem cell growth medium, at 37 °C and in a humidified atmosphere containing 7.5 % CO2. MSCs were incubated for 24 hours in proliferation medium (PM, high glucose DMEM, 10 % FBS, 100 U/ml penicillin, and 100 μg/ml streptomycin). Subsequently PMCs were differentiated for 7 days in differentiation medium (consisting of PM with 10EXP(-6)M dexamethasone, 10 μg/ml insulin, 10EXP(-7) M rosiglitazone, 50 ng/ml BMP-2, 5 ng/ml TGFb, 250 μM IBMX), and harvested. Samples are biological replicates. Normal bone marrow was obtained from 3 healthy donors (5F0138, 6F4085, 7F3458). | |
| Control | stem cell differentiation study 47 (0d) |
| Undifferentiated bone marrow-derived mesenchymal stem cell line (MSC) without any treatment. Cells were propagated for not more than five passages in mesenchymal stem cell growth medium, at 37 °C and in a humidified atmosphere containing 7.5 % CO2. MSCs were incubated for 24 hours in proliferation medium (high glucose DMEM, 10 % FBS, 100 U/ml penicillin, and 100 μg/ml streptomycin) and harvested. Samples are biological replicates. Normal bone marrow was obtained from 3 healthy donors (5F0138, 6F4085, 7F3458). |
bladder cancer study 1 / normal bladder tissue
Relative Expression (log2-ratio):-3.9096746Number of Samples:3 / 3
| Experimental | bladder cancer study 1 |
| Low grade superficial tumor samples. | |
| Control | normal bladder tissue |
| Normal bladder tissue. |
HCC study 20 (CDX; Hep-G2; orthotopic) / HCC study 20 (PDX; orthotopic)
Relative Expression (log2-ratio):3.868722Number of Samples:5 / 11
| Experimental | HCC study 20 (CDX; Hep-G2; orthotopic) |
| Tumor tissue biopsy samples from Hep-G2 cell line-derived xenograft (CDX) orthotopically generated in SCID mice by injecting hepatocellular carcinoma cells directly into liver parenchyma. In order to establish orthotopic model, the left lobe of liver was exposed through midline abdominal incision and cells were injected directly into liver parenchyma of mice. The mice were euthanized after two weeks. | |
| Control | HCC study 20 (PDX; orthotopic) |
| Tumor tissue biopsy samples from patient-derived xenograft (PDX) sample orthotopically generated in SCID mice by injecting hepatocellular carcinoma cells directly into liver parenchyma. Donor tumor tissue was obtained intraoperatively during liver resection from three patients. All three patients had hepatocellular carcinoma confirmed by histology. In order to establish orthotopic model, the left lobe of liver was exposed through midline abdominal incision and cells were injected directly into liver parenchyma of mice. The mice were euthanized after two weeks. |
HCV-related HCC study 1 / adjacent HCV-related liver tissue (LC)
Relative Expression (log2-ratio):-3.8389492Number of Samples:5 / 4
| Experimental | HCV-related HCC study 1 |
| Hepatitis C infection related human hepatocellular carcinoma sample. | |
| Control | adjacent HCV-related liver tissue (LC) |
| Histologically normal adjacent liver tissue of a patient with Hepatitis C infection related hepatocellular carcinoma. Patient with liver cirrhosis. |
ovarian tumor study 16 / normal ovarian surface epithelial cell sample
Relative Expression (log2-ratio):-3.7174654Number of Samples:3 / 5
| Experimental | ovarian tumor study 16 |
| Human epithelial tumor cell samples from the ovary of patients with papillary serous carcinoma. Samples were derived by laser capture microdissection (LCM). | |
| Control | normal ovarian surface epithelial cell sample |
| Human epithelial cell samples from histopathological normal and non-cancerous ovary tissue. |
skin squamous cell carcinoma study 6 / normal skin tissue
Relative Expression (log2-ratio):-3.5359325Number of Samples:4 / 64
| Experimental | skin squamous cell carcinoma study 6 |
| Primary tumor tissue from the skin of patients with squamous cell carcinoma (SCC). | |
| Control | normal skin tissue |
| Normal skin samples from healthy donors. |
stem cell differentiation study 47 (BMP-2; IBMX; 1d) / stem cell differentiation study 47 (BMP-2; TGFb; 1d)
Relative Expression (log2-ratio):3.53436Number of Samples:3 / 3
| Experimental | stem cell differentiation study 47 (BMP-2; IBMX; 1d) |
| Bone marrow-derived mesenchymal stem cell line (MSC) differentiated for 24 hours in the presence of bone morphogenetic protein 2 (BMP-2, 50ng/ml) and 3-isobutyl-1-methylxanthine (IBMX, 250 μM). Cells were propagated for not more than five passages in mesenchymal stem cell growth medium, at 37 °C and in a humidified atmosphere containing 7.5 % CO2. MSCs were incubated for 24 hours in proliferation medium (PM, high glucose DMEM, 10 % FBS, 100 U/ml penicillin, and 100 μg/ml streptomycin). Subsequently PMCs were differentiated for 1 day in differentiation medium (consisting of PM with 10EXP(-6)M dexamethasone, 10 μg/ml insulin, 10EXP(-7) M rosiglitazone, 50 ng/ml BMP-2, 250 μM IBMX), and harvested. Samples are biological replicates. Normal bone marrow was obtained from 3 healthy donors (5F0138, 6F4085, 7F3458). | |
| Control | stem cell differentiation study 47 (BMP-2; TGFb; 1d) |
| Bone marrow-derived mesenchymal stem cell line (MSC) differentiated for 24 hours in the presence of bone morphogenetic protein 2 (BMP-2, 50ng/ml) and transforming growth factor beta (TGFb, 5 ng/ml). Cells were propagated for not more than five passages in mesenchymal stem cell growth medium, at 37 °C and in a humidified atmosphere containing 7.5 % CO2. MSCs were incubated for 24 hours in proliferation medium (PM, high glucose DMEM, 10 % FBS, 100 U/ml penicillin, and 100 μg/ml streptomycin). Subsequently PMCs were differentiated for 24 hours in differentiation medium (consisting of PM with 10EXP(-6)M dexamethasone, 10 μg/ml insulin, 10EXP(-7) M rosiglitazone, 50 ng/ml BMP-2, 5 ng/ml TGFb), and harvested. Samples are biological replicates. Normal bone marrow was obtained from 3 healthy donors (5F0138, 6F4085, 7F3458). |
colorectal adenoma study 7 (colonic mucosa) / normal colon mucosa sample
Relative Expression (log2-ratio):-3.5315247Number of Samples:5 / 5
| Experimental | colorectal adenoma study 7 (colonic mucosa) |
| Colonic mucosa samples obtained by laser capture microdissection (LCM) from patients with colorectal adenoma. | |
| Control | normal colon mucosa sample |
| Histopathological normal colon mucosa sample obtained by laser capture microdissection (LCM) from the distant normal colon of patients with colorectal cancer. |
HCC study 27 (young; training) / normal liver tissue (young; training)
Relative Expression (log2-ratio):-3.5045567Number of Samples:16 / 15
| Experimental | HCC study 27 (young; training) |
| Primary tumor tissue samples obtained from the liver of young patients (≤ 40 years old) with hepatocellular carcinoma assigned to a training cohort. | |
| Control | normal liver tissue (young; training) |
| Normal liver tissue samples obtained from young patients (≤ 40 years old) with hepatocellular carcinoma (HCC) assigned to a training cohort. |