TOP TEN perturbations for NM_000106 (Homo sapiens)

Organism: Homo sapiens
Gene: NM_000106
Selected probe(set): 207498_s_at
Platform: Affymetrix Human Genome U133 Plus 2.0 Array

Expression of NM_000106 (207498_s_at) across 5339 perturbations tested by GENEVESTIGATOR:

HCC study 18 (very advanced) / dysplastic liver nodule study 1

Relative Expression (log2-ratio):-3.0239277
Number of Samples:3 / 17
Experimental HCC study 18 (very advanced)
Tumor tissue samples obtained from liver of patients with very advanced hepatocellular carcinoma (HCC) undergoing resection or liver transplantation. Very advanced HCC cases included moderately to poorly differentiated tumors with macrovascular invasion or diffuse liver involvement. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.
Control dysplastic liver nodule study 1
Dysplastic nodule tissue samples obtained from liver of HCV infected patients undergoing resection or liver transplantation. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.

HCC study 18 (very advanced) / normal liver tissue

Relative Expression (log2-ratio):-2.4966326
Number of Samples:3 / 10
Experimental HCC study 18 (very advanced)
Tumor tissue samples obtained from liver of patients with very advanced hepatocellular carcinoma (HCC) undergoing resection or liver transplantation. Very advanced HCC cases included moderately to poorly differentiated tumors with macrovascular invasion or diffuse liver involvement. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.
Control normal liver tissue
Normal liver tissue samples obtained from the healthy livers of patients undergoing resection for hepatic hemangioma, focal nodular hyperplasia, adenoma/cystadenoma, neuroendocrine tumor, and living donor liver transplantation.

HCC study 18 (very advanced) / HCC study 18 (very early)

Relative Expression (log2-ratio):-2.3928509
Number of Samples:3 / 5
Experimental HCC study 18 (very advanced)
Tumor tissue samples obtained from liver of patients with very advanced hepatocellular carcinoma (HCC) undergoing resection or liver transplantation. Very advanced HCC cases included moderately to poorly differentiated tumors with macrovascular invasion or diffuse liver involvement. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.
Control HCC study 18 (very early)
Tumor tissue samples obtained from liver of patients with very early hepatocellular carcinoma (HCC) undergoing resection or liver transplantation. Very early HCC cases included well-differentiated tumors measuring ?2 cm in diameter with no vascular invasion/satellites (size range: 8-20 mm). Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.

HCC study 3 (area A) / HCC study 3 (area D)

Relative Expression (log2-ratio):-2.1319666
Number of Samples:13 / 19
Experimental HCC study 3 (area A)
Liver tissue biopsy sample from patients with HBV-associated HCC (hepatocellular carcinoma) after orthotopic liver transplantation (OLT) or partial hepatectomy. Tumorous sample was taken from the center of the tumor (area A). Patients were positive for hepatitis B surface antigen, antibody to hepatitis B core antigen and antibody to hepatitis B antigen and received antiviral treatment with nucleos(t)ide analogues prior to surgery.
Control HCC study 3 (area D)
Liver tissue biopsy sample from patients with HBV-associated HCC (hepatocellular carcinoma) after orthotopic liver transplantation (OLT) or partial hepatectomy. Non-tumorous sample was taken in an area 2-3 cm away from the tumor (area D). Patients were positive for hepatitis B surface antigen, antibody to hepatitis B core antigen and antibody to hepatitis B antigen and received antiviral treatment with nucleos(t)ide analogues prior to surgery.

HIF-1a/HIF-2a depletion study 1 (hypoxia; HK2) / HIF-1a/HIF-2a depletion study 1 (normoxia; AB81)

Relative Expression (log2-ratio):-2.1267748
Number of Samples:3 / 3
Experimental HIF-1a/HIF-2a depletion study 1 (hypoxia; HK2)
Proximal tubule epithelial cell line HK-2 with shRNA-mediated stable knock-down of HIF-1a and HIF-2a (Hypoxia-inducible factor 1-alpha and Hypoxia-inducible factor 2-alpha) 24 hours after treatment with hypoxia (20% O2). HK-2 cells were cultured in DMEM/F-12 supplemented with 10% fetal calf serum (FCS), 1% ITS, hydrocortisone, and antibiotics. The cells were incubated at 37 ?C.
Control HIF-1a/HIF-2a depletion study 1 (normoxia; AB81)
Human podocyte cells AB81 with shRNA-mediated stable knock-down of HIF-1a and HIF-2a (Hypoxia-inducible factor 1-alpha and Hypoxia-inducible factor 2-alpha) 24 hours after treatment with normoxia (20% O2). Conditionally immortalized human podocytes AB81 were cultured under permissive conditions (33 ?C) in RPMI-1640 supplemented with 10% FBS, antibiotics, and 1% ITS. Differentiation was induced by thermoshift to 37 ?C in 6-well plates.

Crohn's disease study 13 (inflamed) / normal ileum epithelial cell sample

Relative Expression (log2-ratio):-2.0361881
Number of Samples:3 / 3
Experimental Crohn's disease study 13 (inflamed)
Ileal epithelial cells from macroscopically inflamed gut areas derived from patients with established Crohn's disease. Cells were obtained from microdissected epithelial fractions of surgically derived ileum specimens. Histopathological examination of ileum specimens displayed active lesions like erosions/ulcerations or crypt abscesses/cryptitis, and showed increased mononuclear infiltrates.
Control normal ileum epithelial cell sample
Ileal epithelial cells derived from microdissected epithelial fractions of normal ileum tissue. Tissue was obtained during surgery from patients with tubulovillous adenoma of the colon, adenocarcinoma of the colon, or from patients with pancreatic cancer.

HCC study 18 (very advanced) / hepatitis C study 10

Relative Expression (log2-ratio):-2.0196905
Number of Samples:3 / 13
Experimental HCC study 18 (very advanced)
Tumor tissue samples obtained from liver of patients with very advanced hepatocellular carcinoma (HCC) undergoing resection or liver transplantation. Very advanced HCC cases included moderately to poorly differentiated tumors with macrovascular invasion or diffuse liver involvement. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.
Control hepatitis C study 10
Cirrhotic tissue samples obtained from liver of HCV infected patients undergoing resection or liver transplantation. Ten out of 13 samples were obtained from patients with hepatocellular carcinoma. Patients positive for HBV markers, with history of alcohol consumption, nonalcoholic steatohepatitis, hemochromatosis, other chronic liver diseases or prior locoregional treatment were excluded.

HCC study 9 (HBV; HCV) / normal liver tissue

Relative Expression (log2-ratio):-1.923769
Number of Samples:2 / 10
Experimental HCC study 9 (HBV; HCV)
Liver tissue biopsy sample from patients with Hepatitis B and C infection related hepatocellular carcinoma (HCC) after resection.
Control normal liver tissue
Normal, non-tumor liver tissue.

Crohn's disease study 13 (non-inflamed) / normal ileum epithelial cell sample

Relative Expression (log2-ratio):-1.8861523
Number of Samples:3 / 3
Experimental Crohn's disease study 13 (non-inflamed)
Ileal epithelial cells from macroscopically non-inflamed gut areas derived from patients with established Crohn's disease. Cells were obtained from microdissected epithelial fractions of surgically derived ileum specimens. Histopathological examination of ileum specimens displayed active lesions like erosions/ulcerations or crypt abscesses/cryptitis, and showed increased mononuclear infiltrates.
Control normal ileum epithelial cell sample
Ileal epithelial cells derived from microdissected epithelial fractions of normal ileum tissue. Tissue was obtained during surgery from patients with tubulovillous adenoma of the colon, adenocarcinoma of the colon, or from patients with pancreatic cancer.

HCC study 3 (area A) / HCC study 3 (area C)

Relative Expression (log2-ratio):-1.8685236
Number of Samples:13 / 24
Experimental HCC study 3 (area A)
Liver tissue biopsy sample from patients with HBV-associated HCC (hepatocellular carcinoma) after orthotopic liver transplantation (OLT) or partial hepatectomy. Tumorous sample was taken from the center of the tumor (area A). Patients were positive for hepatitis B surface antigen, antibody to hepatitis B core antigen and antibody to hepatitis B antigen and received antiviral treatment with nucleos(t)ide analogues prior to surgery.
Control HCC study 3 (area C)
Liver tissue biopsy sample from patients with HBV-associated HCC (hepatocellular carcinoma) after orthotopic liver transplantation (OLT) or partial hepatectomy. Non-tumorous sample was taken from the perilesional area of the tumor (area C). Patients were positive for hepatitis B surface antigen, antibody to hepatitis B core antigen and antibody to hepatitis B antigen and received antiviral treatment with nucleos(t)ide analogues prior to surgery.