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All Outputs (17)

Mass spectrometry reveals the presence of specific set of epigenetic DNA modifications in the Norway spruce genome (2019)
Journal Article
Yakovlev, I. A., Gackowski, D., Abakir, A., Viejo, M., Ruzov, A., Olinski, R., …Krutovsky, K. V. (2019). Mass spectrometry reveals the presence of specific set of epigenetic DNA modifications in the Norway spruce genome. Scientific Reports, 9, Article 19314. https://doi.org/10.1038/s41598-019-55826-z

5-Methylcytosine (5mC) is an epigenetic modification involved in regulation of gene expression in metazoans and plants. Iron-(II)/α-ketoglutarate-dependent dioxygenases can oxidize 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-c... Read More about Mass spectrometry reveals the presence of specific set of epigenetic DNA modifications in the Norway spruce genome.

N6-methyladenosine regulates the stability of RNA:DNA hybrids in human cells (2019)
Journal Article
Abakir, A., Giles, T. C., Cristini, A., Foster, J. M., Dai, N., Starczak, M., …Ruzov, A. (2020). N6-methyladenosine regulates the stability of RNA:DNA hybrids in human cells. Nature Genetics, 52(1), 48-55. https://doi.org/10.1038/s41588-019-0549-x

© 2019, The Author(s), under exclusive licence to Springer Nature America, Inc. R-loops are nucleic acid structures formed by an RNA:DNA hybrid and unpaired single-stranded DNA that represent a source of genomic instability in mammalian cells1–4. Her... Read More about N6-methyladenosine regulates the stability of RNA:DNA hybrids in human cells.

Molecular mechanisms governing the stem cell's fate in brain cancer: factors of stemness and quiescence (2018)
Journal Article
Gulaia, V., Vadim, K., Nikita, S., Eduardas, C., Rybtsov, S., Ruzov, A., & Kagansky, A. (2018). Molecular mechanisms governing the stem cell's fate in brain cancer: factors of stemness and quiescence. Frontiers in Cellular Neuroscience, 12, Article 388. https://doi.org/10.3389/fncel.2018.00388

Cellular quiescence is a reversible, non-cycling state controlled by epigenetic, transcriptional and niche-associated molecular factors. Quiescence is a condition where molecular signaling pathways maintain the poised cell-cycle state whilst enabling... Read More about Molecular mechanisms governing the stem cell's fate in brain cancer: factors of stemness and quiescence.

Wilms' Tumor protein 1 and enzymatic oxidation of 5-methylcytosine in brain tumors: potential perspectives (2018)
Journal Article
Ramsawhook, A., Ruzov, A., & Coyle, B. (2018). Wilms' Tumor protein 1 and enzymatic oxidation of 5-methylcytosine in brain tumors: potential perspectives. Frontiers in Cell and Developmental Biology, 6, https://doi.org/10.3389/fcell.2018.00026

The patterns of 5-methylcytosine (5mC) and its oxidized derivatives, 5-hydroxymethylcytosine, 5-formylcytosine, and 5-carboxylcytosine (5caC) are reportedly altered in a range of cancers. Likewise, Wilms’ Tumor protein 1 (WT1), a transcription factor... Read More about Wilms' Tumor protein 1 and enzymatic oxidation of 5-methylcytosine in brain tumors: potential perspectives.

Developmental functions of the dynamic DNA methylome and hydroxymethylome in the mouse and zebrafish: similarities and differences (2018)
Journal Article
Jessop, P., Ruzov, A., & Gering, M. (2018). Developmental functions of the dynamic DNA methylome and hydroxymethylome in the mouse and zebrafish: similarities and differences. Frontiers in Cell and Developmental Biology, 6, Article 27. https://doi.org/10.3389/fcell.2018.00027

5-methylcytosine (5mC) is the best understood DNA modification and is generally believed to be associated with repression of gene expression. Over the last decade, sequentially oxidized forms of 5mC (oxi-mCs) have been discovered within the genomes o... Read More about Developmental functions of the dynamic DNA methylome and hydroxymethylome in the mouse and zebrafish: similarities and differences.

Immunostaining for DNA modifications: computational analysis of confocal images (2017)
Journal Article
Ramsawhook, A., Lewis, L. C., Eleftheriou, M., Abakir, A., Durczak, P. M., Markus, R., …Ruzov, A. (2017). Immunostaining for DNA modifications: computational analysis of confocal images. Journal of Visualized Experiments, Article e56318. https://doi.org/10.3791/56318

For several decades, 5-methylcytosine (5mC) has been thought to be the only DNA modification with a functional significance in metazoans. The discovery of enzymatic oxidation of 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carb... Read More about Immunostaining for DNA modifications: computational analysis of confocal images.

Dynamics of 5-carboxylcytosine during hepatic differentiation: potential general role for active demethylation by DNA repair in lineage specification (2017)
Journal Article
Lewis, L. C., Lo, P. C. K., Foster, J. M., Dai, N., Correa, I. R., Durczak, P. M., …Ruzov, A. (in press). Dynamics of 5-carboxylcytosine during hepatic differentiation: potential general role for active demethylation by DNA repair in lineage specification. Epigenetics, 12(4), https://doi.org/10.1080/15592294.2017.1292189

Patterns of DNA methylation (5-methylcytosine, 5mC) are rearranged during differentiation contributing to the regulation of cell type-specific gene expression. TET proteins oxidise 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-c... Read More about Dynamics of 5-carboxylcytosine during hepatic differentiation: potential general role for active demethylation by DNA repair in lineage specification.

Medulloblastoma and ependymoma cells display levels of 5-carboxylcytosine and elevated TET1 expression (2017)
Journal Article
Ramsawhook, A., Lewis, L., Coyle, B., & Ruzov, A. (2017). Medulloblastoma and ependymoma cells display levels of 5-carboxylcytosine and elevated TET1 expression. Clinical Epigenetics, 9(18), https://doi.org/10.1186/s13148-016-0306-2

Background Alteration of DNA methylation (5-methylcytosine, 5mC) patterns represents one of the causes of tumorigenesis and cancer progression. Tet proteins can oxidize 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine and 5-carboxylcytosine (... Read More about Medulloblastoma and ependymoma cells display levels of 5-carboxylcytosine and elevated TET1 expression.

Detection of modified forms of cytosine using sensitive immunohistochemistry (2016)
Journal Article
Abakir, A., Wheldon, L. M., Johnson, A. D., Laurent, P., & Ruzov, A. (in press). Detection of modified forms of cytosine using sensitive immunohistochemistry. Journal of Visualized Experiments, 114(e54416), https://doi.org/10.3791/54416

Methylation of cytosine bases (5-methylcytosine, 5mC) occurring in vertebrate genomes is usually associated with transcriptional silencing. 5-hydroxylmethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC) are the recently discov... Read More about Detection of modified forms of cytosine using sensitive immunohistochemistry.

Transient Accumulation of 5-Carboxylcytosine Indicates Involvement of Active Demethylation in Lineage Specification of Neural Stem Cells (2014)
Journal Article
Wheldon, L. M., Abakir, A., Ferjentsik, Z., Dudnakova, T., Strohbuecker, S., Christie, D., …Ruzov, A. (2014). Transient Accumulation of 5-Carboxylcytosine Indicates Involvement of Active Demethylation in Lineage Specification of Neural Stem Cells. Cell Reports, 7(5), 1353-1361. https://doi.org/10.1016/j.celrep.2014.05.003

5-Methylcytosine (5mC) is an epigenetic modification involved in regulation of gene activity during differentiation. Tet dioxygenases oxidize 5mC to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC). Both 5fC and 5... Read More about Transient Accumulation of 5-Carboxylcytosine Indicates Involvement of Active Demethylation in Lineage Specification of Neural Stem Cells.

5-Carboxylcytosine is localized to euchromatic regions in the nuclei of follicular cells in axolotl ovary (2012)
Journal Article
Alioui, A., Wheldon, L. M., Abakir, A., Ferjentsik, Z., Johnson, A. D., & Ruzov, A. (2012). 5-Carboxylcytosine is localized to euchromatic regions in the nuclei of follicular cells in axolotl ovary. Nucleus, 3(6), https://doi.org/10.4161/nucl.22799

5-Methylcytosine (5-mC) is an epigenetic modification associated with gene repression. Recent studies demonstrated that 5-mC can be enzymatically oxidised into 5-hydroxymethylcytosine and further into 5-formylcytosine (5-fC) and 5-carboxylcytsine (5-... Read More about 5-Carboxylcytosine is localized to euchromatic regions in the nuclei of follicular cells in axolotl ovary.

5-hydroxymethyl-cytosine enrichment of non-committed cells is not a universal feature of vertebrate development (2012)
Journal Article
Almeida, R. D., Loose, M., Sottile, V., Matsa, E., Denning, C., Young, L., …Ruzov, A. (2012). 5-hydroxymethyl-cytosine enrichment of non-committed cells is not a universal feature of vertebrate development. Epigenetics, 7(4), https://doi.org/10.4161/epi.19375

5-hydroxymethyl-cytosine (5-hmc) is a cytosine modification that is relatively abundant in mammalian pre-implantation embryos and embryonic stem cells (Esc) derived from mammalian blastocysts. Recent observations imply that both 5-hmc and Tet1/2/... Read More about 5-hydroxymethyl-cytosine enrichment of non-committed cells is not a universal feature of vertebrate development.

Semi-quantitative immunohistochemical detection of 5-hydroxymethyl-cytosine reveals conservation of its tissue distribution between amphibians and mammals (2012)
Journal Article
Almeida, R. D., Sottile, V., Loose, M., De Sousa, P. A., Johnson, A. D., & Ruzov, A. (2012). Semi-quantitative immunohistochemical detection of 5-hydroxymethyl-cytosine reveals conservation of its tissue distribution between amphibians and mammals. Epigenetics, 7(2), https://doi.org/10.4161/epi.7.2.18949

5-Hydroxymethyl-cytosine (5-hmC) is a form of modified cytosine, which has recently attracted a considerable attention due to its potential role in transcriptional regulation. According to several reports 5-hydroxymethyl-cytosine distribution is tiss... Read More about Semi-quantitative immunohistochemical detection of 5-hydroxymethyl-cytosine reveals conservation of its tissue distribution between amphibians and mammals.