gene expression Articles
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Gene Expression Visualisation
Mosaic is the data management and visualisation solution being used by the Cardiovascular Development Data Resource Center (CDDRC), working with multiple omics data types for a variety of model organisms as well as human. We recently put out a blog post on the CDDRC website highlighting how data visualisation in Mosaic was able to help researchers better understand trends in their data. This ...
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Increased expression of genes in a radioresistant cell strain: modulation of hnRNP E2, Hsp90 and SSBP2 genes in γ-irradiated Chinese hamster V79 cells
The methotrexate-resistant cell strain M5, derived from Chinese hamster lung fibroblast cell line V79, provides a good model to study differential gene expression in response to stress. Genes coding for human homologues of myosin phosphatase (AF458589), filamin-like protein (AAA92644), phosphate transporter 1 (AAH199441) and hnRNP E2 (NP_035172.1) were upregulated in M5 as determined by RAP-PCR. ...
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Gene Expression and Transcription Regulation
One of the main beliefs in biology today is that there is a relationship between genes that share common promoter motifs and their expression. It makes sense that if genes share common regulatory elements that they would be turned on and off under similar conditions – and thus would have similar microarray expression profiles. A recent Bioinformatics paper published in October 2009 ...
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A novel heme-regulatory motif mediates heme-dependent degradation of the circadian factor period 2
Although efforts have been made to identify circadian-controlled genes regulating cell cycle progression and cell death, little is known about the metabolic signals modulating circadian regulation of gene expression. We identify heme, an iron-containing prosthetic group, as a regulatory ligand controlling human Period-2 (hPer2) stability. Furthermore, we define a novel heme-regulatory motif ...
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Dermal exposure of Eisenia andrei earthworms: Effects of heavy metals on metallothionein and phytochelatin synthase gene expressions in coelomocytes
Parameters like total number of coelomocytes, riboflavin content in coelomocytes, expression of genes implied in metal homeostasis and detoxification mechanisms can be used as biomarkers in order to assess the impact of metals on Annelids. Defense biomarkers (detoxification gene expressions and coelomocyte parameters) were investigated in the ecotoxicologically important species Eisenia andrei ...
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What is high-throughput detection of gene expression
What Is High-Throughput Detection of Gene Expression? The high-throughput detection of gene expression relies on next generation sequencing technologies to assess the level of expression of all genes in the genome. These technologies have revolutionized transcriptomic research and we are now entering the ultra-high-throughput era of gene expression studies. In this article, we discuss the ...
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Innovative technology of engineering magnetic DNA nanoparticles for gene therapy
The present research study is a novel innovation materials technology to engineer magnetic DNA nanoparticles for gene therapy and to enhance the localisation and gene expression of a plasmid DNA via magnetic DNA nanoparticles. Spermine (Sm) was chemically introduced to the hydroxyl groups of dextran, a polysaccharide, to obtain cationised dextran (dextran-Sm). When Fe2+ solution was added to the ...
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Ecotoxicological evaluation of low‐concentration bisphenol A exposure on the soil nematode Caenorhabditis elegans and intrinsic mechanisms of stress response in vivo
As a representative species of nematodes, Caenorhabditis elegans is an attractive animal model for evaluating ecotoxicological effects and intrinsic mechanisms of stress response in vivo. To acquire a better knowledge of environmental effects of bisphenol A (BPA), ecotoxicological evaluations were conducted using C. elegans upon the physiological (growth, locomotion behaviors, and ...
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Regulation of p53 target gene expression by peptidylarginine deiminase 4
Histone Arg methylation has been correlated with transcriptional activation of p53 target genes. However, whether this modification is reversed to repress the expression of p53 target genes is unclear. Here, we report that peptidylarginine deiminase 4, a histone citrullination enzyme, is involved in the repression of p53 target genes. Inhibition or depletion of PAD4 elevated the expression of a ...
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Evaluation of melatonin for modulation of apoptosis-related genes in irradiated cervical spinal cord
This study examined the role of melatonin to reduce radiation-induced apoptosis in rat's cervical spinal cord. A number of rats were divided into four groups: (1) control group; (2) group that was treated with intraperitonial injection of melatonin; (3) group that got melatonin 30 min prior to cervical spinal cord gamma irradiation at a dose of 22 Gy; and (4) group that was given an ...
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Development of a molecular biomarker for detecting intersex after exposure of male medaka fish to synthetic estrogen
Although intersex of fish species has been widely reported in aquatic environments, there is no appropriate biomarker of the effects to assess the occurrence of intersex. In the present study, mRNA expression profiles of 14 genes, which are either involved in ovary development and maintenance or have relatively high mRNA transcription levels in ovarian gene expression profiles in fish species, ...
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Differential Gene Expression (DGE) Analysis in RNA Sequencing
What Are DEGs in Genetics? DEGs, or Differentially Expressed Genes, are genes whose expression levels show significant differences between two or more conditions or experimental groups. In genetics and genomics research, gene expression refers to the process by which information encoded in a gene's DNA sequence is converted into functional proteins or RNA molecules. When studying gene ...
By CD Genomics
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Prediction of maximum scour depth around piers with debris accumulation using EPR, MT, and GEP models
Pier scour phenomena in the presence of debris accumulation have attracted the attention of engineers to present a precise prediction of the local scour depth. Most experimental studies of pier scour depth with debris accumulation have been performed to find an accurate formula to predict the local scour depth. However, an empirical equation with appropriate capacity of validation is not ...
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Molecular identification and function of cis- and trans-acting determinants for peta transcript stability in chlamydomonas reinhardtii chloroplasts
In organelles, the posttranscriptional steps of gene expression are tightly controlled by nucleus-encoded factors, most often acting in a gene-specific manner. Despite the molecular identification of a growing number of factors, their mode of action remains largely unknown. In the green alga Chlamydomonas reinhardtii, expression of the chloroplast petA gene, which codes for cytochrome f, depends ...
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Assessing the mutagenic effect potential of pharmaceuticals and of their transformation products. Implications in the gene expression profiling
The selection and prioritization of pharmaceuticals and of their transformation products for evaluating effects on the environment and human health is a challenging task. Both compound‐ (e.g. mixture composition, concentrations) and biological‐ (e.g. relevant endpoint, biological organizational level) oriented approaches applied for tackling these issues often resemble a Lernaean hydra by ...
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Analysis of Differential Gene Expression (DGE) in RNA Sequencing
What are Differentially Expressed Genes (DEGs) in Genetics? Differentially Expressed Genes (DEGs) are genes that exhibit significant differences in expression levels between two or more conditions or experimental groups. In genetics and genomics research, gene expression refers to the process through which the information encoded in a gene's DNA sequence is transformed into functional proteins ...
By CD Genomics
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CD Genomics Perspective: Using RNA Sequencing Technology to Study Ecology
The massive growth of transcriptomics beyond clinical biology and into the fields of ecology and evolution has been fueled by RNA sequencing (RNA-seq). RNA-seq promised unprecedented sensitivity for sensing the expression differences among rare transcripts, splice variants, and microRNAs, then quickly surpassing microarrays as the high-throughput method for studying differential expression in ...
By CD Genomics
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Expression quantitative trait locus mapping of toxoplasma genes reveals multiple mechanisms for strain-specific differences in gene expression
Toxoplasma gondii is an intracellular parasite with a significant impact on human health, especially in cases where individuals are immunocompromised (e.g., due to human immunodeficiency virus/AIDS). In Europe and North America, only a few clonal genotypes appear to be responsible for the vast majority of Toxoplasma infections, and these clonotypes have been intensely studied to identify ...
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Effects of a natural toxin on life‐history and gene expression of Eisenia andrei
Earthworms perform key functions for a healthy soil ecosystem, such as bioturbation. The soil ecosystem can be challenged by natural toxins such as isothiocyanates (ITC), produced by many commercial crops. Therefore, the effects of 2‐phenylethyl ITC were investigated on the earthworm Eisenia andrei using an ecotoxicogenomics approach. Exposure to 2‐Phenylethyl ITC reduced both survival and ...
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Expression Genomics of Cervical Cancer: Molecular Classification and Prediction of Radiotherapy Response by DNA Microarray
Purpose The incidence and mortality rates of cervical cancer are declining in the United States; however, worldwide, cervical cancer is still one of the leading causes of death in women, second only to breast cancer. This disparity is at least partially explained by the absence of or comparatively ineffective screening programs in the developing world. Recent advances in expression genomics have ...
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