Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Characterization of Gene Expression in liver cell

ABSTRACT: The Human Agilent 60-mer, oligonucleotide microarray consists of a total of probes covering 41,096 genes of human. Through a validation study, total RNA isolated from liver cells were used for comparison of gene expression profiles via microarray examination. A list of significantly differentially expressed genes was generated; 267 genes were up-regulated genes, and 65 genes were down-regulated genes. The Agilent microarray platform is based upon the hybridization of a single labeled sample (derived from RNA), followed by one-channel detection. The intensity of the hybridization signal is used to determine target concentration. In order to validate the technical quality of each probe in our arrays, we carried out 6 independent hybridizations on samples. To examine the gene expression profiles between rice root and shoot development, total RNA extracted from cell lines were processed on the Agilent microarray following the standard protocol using five arrays for each tissue type. Raw expression data from 6 microarrays were normalized and Pearson's correlation coefficients were calculated for the data sets of hybridization signal intensities. Oxaliplatin-resistant MHCC97H liver cell line treated with Oxaliplatin or control.

ORGANISM(S): Homo sapiens

SUBMITTER: Yang Bu

PROVIDER: E-GEOD-51951 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Maintenance of stemness in oxaliplatin-resistant hepatocellular carcinoma is associated with increased autocrine of IGF1.

Bu Yang Y Jia Qing-An QA Ren Zheng-Gang ZG Zhang Ju-Bo JB Jiang Xue-Mei XM Liang Lei L Xue Tong-Chun TC Zhang Quan-Bao QB Wang Yan-Hong YH Zhang Lan L Xie Xiao-Ying XY Tang Zhao-You ZY

PloS one 20140314 3

<h4>Background</h4>Evidence suggests that many types of cancers are composed of different cell types, including cancer stem cells (CSCs). We have previously shown that the chemotherapeutic agent oxaliplatin induced epithelial-mesenchymal transition, which is thought to be an important mechanism for generating CSCs. In the present study, we investigate whether oxaliplatin-treated cancer tissues possess characteristics of CSCs, and explore oxaliplatin resistance in these tissues.<h4>Methods</h4>He ...[more]

PMID: 24632571

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Project description:Intracellular parasites reprogram the host functions for their survival and reproduction. Conversely, the infected host attempts to defend the microbial insult. The extent and relevance of parasite-mediated host response in vivo remains poorly studied. We utilized Eimeria falciformis, an obligate intracellular parasite completing its entire life cycle in the mouse intestinal epithelium, to identify and validate the host determinants of the parasite infection. The most prominent mouse genes induced during the onset of asexual (24 hrs) and sexual (144 hrs) parasite cycle include IFNg-regulated factors, e.g., immunity-related GTPases IRGA6/B6/D/M2/M3, guanylate-binding proteins GBP2/3/5/8, chemokines CxCL9-11 and several enzymes of the kynurenine pathway including indoleamine 2,3-dioxygenase 1 (IDO1). These results indicated a multifarious innate defense (tryptophan catabolism, IRG, GBP, chemokines signaling) mounted by epithelial cells, and a consequential adaptive immune response (chemokines-cytokines signaling, lymphocyte recruitment). A notable increase in the inflammation- and immunity-associated transcripts correlated with the severity of infection and influx of B-cells, T-cells and macrophages to the parasitized tissue. Indeed, parasite growth was enhanced in the animals inhibited for CxCr3, a major chemokine receptor on immune cells. Interestingly, despite a prominent induction, the mouse IRGB6 failed to recognize and disrupt the parasitophorous vacuole in the parasite cultures, implying an immune evasion by E. falciformis. Likewise, the oocyst output was impaired in IFNg-R-/- and IDO1-/- mice, which signifies a subversion of IFNg-signaling by the parasite to promote its growth. In brief, the Eimeria-rodent model shows contrasting roles of IFNg-signaling for parasite development, identifies a retinue of potential host determinants, and epitomizes its efficacy for in vivo parasite-host interaction studies. Microarray experiments were performed as dual-color hybridizations on Agilent mouse whole genome catalog 44K arrays. To compensate for dye-specific effects, a dye-reversal color-swap was applied.

Dataset Information

Characterization of Gene Expression in liver cell

Publications

Maintenance of stemness in oxaliplatin-resistant hepatocellular carcinoma is associated with increased autocrine of IGF1.

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