GEO DataSets

(Submitter supplied) Chronic exposure to aflatoxin B1 (AFB1) has, in certain regions in the world, been strongly associated with the development of hepatocellular carcinoma (HCC). AFB1 is a very potent hepatotoxic and carcinogenic mycotoxin which is frequently reported as a food contaminant. Epigenetic modifications provoked by environmental exposures, such as AFB1, may create a so called persistent "epigenetic memory" or "footprint". more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL18402

6 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Non-coding RNA profiling by array; Methylation profiling by genome tiling array

Platforms:

GPL18402 GPL16284 GPL17996

18 Samples

Download data: CEL, PAIR, TXT

(Submitter supplied) Chronic exposure to aflatoxin B1 (AFB1) has, in certain regions in the world, been strongly associated with the development of hepatocellular carcinoma (HCC). AFB1 is a very potent hepatotoxic and carcinogenic mycotoxin which is frequently reported as a food contaminant. Epigenetic modifications provoked by environmental exposures, such as AFB1, may create a so called persistent "epigenetic memory" or "footprint". more...

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL16284

6 Samples

Download data: PAIR, TXT

(Submitter supplied) Chronic exposure to aflatoxin B1 (AFB1) has, in certain regions in the world, been strongly associated with the development of hepatocellular carcinoma (HCC). AFB1 is a very potent hepatotoxic and carcinogenic mycotoxin which is frequently reported as a food contaminant. Epigenetic modifications provoked by environmental exposures, such as AFB1, may create a so called persistent "epigenetic memory" or "footprint". more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17996

6 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array; Non-coding RNA profiling by array; Expression profiling by array

Platforms:

GPL16284 GPL17996 GPL18402

31 Samples

Download data: CEL, PAIR, TXT

(Submitter supplied) The study investigated differential gene expression, microRNA expression and DNA methylation changes in a pool of primary human hepatocyte RNA and DNA following 5 days of repetitive exposure to a low or moderate dose of aflatoxin B1 or DMSO. Three biological replicates per compound/solvent. In total 9 arrays.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL16284

9 Samples

Download data: PAIR, TXT

(Submitter supplied) The study investigated differential gene expression, microRNA expression and DNA methylation changes in a pool of primary human hepatocyte RNA and DNA following 5 days of repetitive exposure to a low or moderate dose of aflatoxin B1 or DMSO. Three biological replicates per compound/solvent.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL18402

12 Samples

Download data: TXT

(Submitter supplied) The study investigated differential gene expression, microRNA expression and DNA methylation changes in a pool of primary human hepatocyte RNA and DNA following 5 days of repetitive exposure to a low (LD) or moderate (MD) dose of aflatoxin B1 or DMSO. Three biological replicates per compound/solvent.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17996

10 Samples

Download data: CEL

(Submitter supplied) Applied de novo assembly, both protein coding and non-coding RNAs were profiled in AFB1 induced HCC and AFB1 resistant liver sample. Compared with normal liver, the perturbation on transcriptome was revealed in multiple aspects, implying the potential mechanism of toxic resistance.

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14844

3 Samples

Download data: TXT

(Submitter supplied) Twenty-eight days after the initial seeding, the terminally differentiated HepaRG cells were treated with 2 µM benzo[a]pyrene (B[a]P) and benzo[e]pyrene (B[e]P) for 72 hours. Following the treatment, the cells were harvested by mild trypsinization, washed in phosphate-buffered saline, and immediately frozen at −80°C for subsequent analyses. Gene expression profiles in the HepaRG cells treated with B[a]P and B[e]P were investigated using Agilent whole genome 8x60K human microarrays according to the manufacturer’s instructions.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL20844

9 Samples

Download data: TXT

(Submitter supplied) Hepatocellular carcinoma (HCC) is one of the most common malignant tumors worldwide and its occurrence is associated with a number of environmental factors including ingestion of the dietary contaminant aflatoxin B1 (AFB1). While etiology of the disease is relatively well defined, the molecular mechanisms of tumorigenesis are poorly understood. In this study, we examined, for the first time, gene expression of AFB1-induced HCC by microarray in the rainbow trout (Oncorhynchus mykiss) tumor model. more...

Organism:

Oncorhynchus mykiss

Type:

Expression profiling by array

Platform:

GPL2096

12 Samples

Download data

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Rattus norvegicus; Mus musculus; Homo sapiens

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL18609 GPL18615

120 Samples

Download data: CEL, GPR, TXT

(Submitter supplied) The study investigated differential gene expression in primary mouse hepatocyte mRNA following 24 and 48 hours of exposure to aflatoxin B1, cisplatin, benzo(a)pyrene, 2,3,7,8-tetrachloordibenzo-p-dioxine, cyclosporin A or Wy-14,643 or their responsive solvent. Three (four for Wy-14,643) biological replicates per compound/solvent.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL18615

60 Samples

Download data: CEL

(Submitter supplied) The study investigated differential miRNA changes in primary mouse hepatocyte following 24 and 48 hours of exposure to aflatoxin B1, cisplatin, benzo(a)pyrene, 2,3,7,8-tetrachloordibenzo-p-dioxine, cyclosporin A or Wy-14,643 or their responsive solvent. Three (four for Wy-14,643) biological replicates per compound/solvent.

Organism:

Rattus norvegicus; Mus musculus; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL18609

60 Samples

Download data: GPR, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by array; Methylation profiling by genome tiling array

Platforms:

GPL15761 GPL1261

33 Samples

Download data: CEL, PAIR

(Submitter supplied) Epigenetic modifications, such as DNA methylation, play an important role in carcinogenesis. In a recent NTP study, chronic exposure of B6C3F1/N mice to Ginkgo biloba extract (GBE) resulted in a high incidence of hepatocellular carcinomas (HCC). Genome-wide promoter methylation profiling on GBE-exposed HCC (2000 mg/kg group), spontaneous HCC (vehicle-control group) and age-matched vehicle control liver was performed to identify differentially methylated genes in GBE-exposed HCC and spontaneous HCC. more...

Organism:

Mus musculus

Type:

Methylation profiling by genome tiling array

Platform:

GPL15761

15 Samples

Download data: PAIR

(Submitter supplied) In a recent NTP study, chronic exposure of B6C3F1/N mice to Ginkgo biloba extract (GBE) resulted in a high incidence of hepatocellular carcinomas (HCC). Genome-wide promoter methylation profiling and Expression profiling on GBE-exposed HCC (2000 mg/kg group), spontaneous HCC (vehicle-control group) and age-matched vehicle control liver was performed to identify differentially methylated genes and differentially expressed genes in GBE-exposed HCC and spontaneous HCC. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

18 Samples

Download data: CEL

(Submitter supplied) Infinium 450k data from three HCV-infection patients. Ten cirrhotic nodules were isolated from each patient for genome-wide DNA methylation analysis. One case had an incedental tumor that was also processed.

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL13534

31 Samples

Download data: IDAT, TXT

(Submitter supplied) We profiled DNA copy numbers, DNA methylation, and mRNA expression levels in the same HCC patients. To identify genes which transcriptional expression levels are regulated by genomic and/or epigenetic deregulation, we defined the copy number-correlated and methylation-correlated genes with their corresponding gene expression levels across the samples as genic and epigenetic deregulators, respectively.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6947

94 Samples

Download data: TXT

(Submitter supplied) Multiple carcinogenesis is one of the major characteristics of human hepatocellular carcinoma (HCC). The history of multiple tumors, i.e., whether they are derived from a common precancerous or cancerous ancestor or individually from hepatocytes, is a major issue. Multiple HCC is clinically classified into intratumor metastasis (IM) and multicentric carcinogenesis (MC). Molecular markers differentiating IM and MC are of interest to clinical practitioners because clinical diagnosis of IM and MC often leads to different therapies. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by array

Platform:

GPL5477

20 Samples

Download data: TXT