DNA Methylation Analysis of the Gene <i>CDKN2B</i> in <i>Gallus gallus</i> (Chicken)

Gryzińska, Magdalena; Andraszek, Katarzyna; Jocek, G.

doi:10.3409/fb61_3-4.165

Cited by 13 publications

(9 citation statements)

References 29 publications

(34 reference statements)

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“…Methylation-specific PCR (MSP) and sequencing of amplified DNA fragments following the use of sodium bisulfite and PCR (BSP) are considered to be among the most effective techniques for detecting methylated genes [23]. Both methods exploit cytosine deamination (conversion into uracil) in single-stranded DNA [24,25]. Moreover, both methods are highly sensitive -analysis requires about 200 pg of genomic DNA, which corresponds to about 100 cells [26].…”

Section: Discussionmentioning

confidence: 99%

In silico analysis of methylation of the selected genes using computer programs based on various analytical techniques

Gryzińska

Jakubczak

Stryjecki

et al. 2015

Biocybernetics and Biomedical Engineering

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Section: Discussionmentioning

confidence: 99%

In silico analysis of methylation of the selected genes using computer programs based on various analytical techniques

Gryzińska

Jakubczak

Stryjecki

et al. 2015

Biocybernetics and Biomedical Engineering

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“…If the user selects primers with predicted CpG islands as a destination region, they should follow a set of rules reflecting the number and size of CpG islands found (GRYZINSKA & al. [20]; LI & DAHIYA [24]).…”

Section: Design Of Primersmentioning

confidence: 98%

“…The most commonly used method is MS-PCR (GRYZINSKA & al. [20]). The MSP (methylation-specific PCR) reaction was first described in 1996 by HERMAN & al.…”

Section: Design Of Primersmentioning

confidence: 99%

Comparison of programs to design primers for Methylation-Specific PCR

Gryzińska¹,

Rechulicz²,

Batkowska³

et al. 2019

Rom Biotechnol Lett.

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Three computer programs for designing alternative primers for MS-PCR were tested using both default and user-defined settings. The three primer design programs used in the study were MethPrimer, Primo MSP 3.4 and Methyl Primer Express Software v1.0. In each program, a DNA sequence is entered as the starting material. Then the program searches the sequence for potential CpG islands. Next, the primers are selected around the potential CpG islands designated by the user. The results of the primer selection are delivered through a web browser as text and a graphic preview. The programs use different algorithms, which results in the detection of different numbers and lengths of CpG islands. MethPrimer was the easiest to use and the most effective. Methyl Primer Express was also effective, but this is a program for at least moderately advanced users. An advantage of Methyl Primer Express and Primo MSP is their ability to analyse an entire genome without splitting it into fragments. MethPrimer has been used with its default settings in cancer research and in research on transgenic animals. Methyl Primer Express software has been widely used in basic research, as well as in research on the regulation of gene expression and in cancer research. MethPrimer and Methyl Primer Express can be recommended for research on honey bees.

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“…More precisely, IBD may be caused by interactions between the host and the environment, which involve intestinal microflora, the immune system, and genetic determinants. Research has shown that the structure of the host organism and specific environmental factors, such as cigarette smoking, drug use, breastfeeding and diet, enter into interactions via epigenetic mechanisms, or more precisely DNA methylation (6,24).…”

Section: Other Risk Factors For Tumour Development In Ibdmentioning

confidence: 99%

Non-specific inflammatory bowel disease and the risk of tumour growth

Dudzińska¹,

Gryzińska²,

Ognik³

et al. 2018

Medycyna Weterynaryjna

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Inflammatory bowel disease (IBD), which mainly includes ulcerative colitis (UC) and Crohn’s disease (Lesniowski-Crohn’s, ChL-C, CD), is a chronic and recurrent inflammatory condition of the gastrointestinal tract with multifactorial causes. Both types of IBD are characterized by chronic inflammation with periods of remission and exacerbation. An increasing number of studies have recently shown that chronic inflammation plays an important role in the carcinogenesis of colorectal cancer (CRC), generating suitable microenvironments for the formation and progression of the disease. The main factors are chronic inflammation and the scope and duration of the disease. The pro-inflammatory interleukins IL-13, IL-8 and TNF-α play an important role in tumorigenesis. It is further emphasized that reactive oxygen species (ROS) and reactive nitrogen species produced by inflammatory cells may interact with key genes involved in carcinogenic pathways such as TP53. Carcinogenesis in IBD involves proteins determined by the genes DLG5, OCTN and NOD2. Immunosuppressive drugs such as thiopurines and methotrexate may play a role in extra-intestinal tumour development by impairing the immune system and surveillance of tumour cells or by inducing DNA damage. Recognition of neoplastic changes associated with IBD is difficult due to the heterogeneity of the endoscopic image and variation in the diagnosis depending on the observer. Therefore surveillance of IBD patients by a multidisciplinary team is essential for early detection of the neoplastic process.

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DNA Methylation Analysis of the Gene CDKN2B in Gallus gallus (Chicken)

Cited by 13 publications

References 29 publications

In silico analysis of methylation of the selected genes using computer programs based on various analytical techniques

In silico analysis of methylation of the selected genes using computer programs based on various analytical techniques

Comparison of programs to design primers for Methylation-Specific PCR

Non-specific inflammatory bowel disease and the risk of tumour growth

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