Genome-wide DNA methylation in suicide victims revealing impact on gene expression

Kouter, Katarina; Zupanc, Tomaž; Paska, Alja Videtič

doi:10.1016/j.jad.2019.04.077

Cited by 26 publications

(25 citation statements)

References 31 publications

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“…Additional gene expression analysis identified changes in two potentially regulatory genes, ZNF714 and NRIP3. Although our analysis was performed on a rather small sample size and on whole tissue, which is comprised of various cells, our results gave an important contribution revealing new potential candidate genes for suicidal behaviour (Kouter et al 2019).…”

Section: Suicidal Behaviour and Genome-wide Dna Methylation Studiesmentioning

confidence: 99%

Genome-Wide Dna Methylation Patterns in Suicide Victims: Identification of New Candidate Genes

Kouter

Zupanc²,

Paska³

2019

Psychiat Danub

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Suicide is a major global public health problem with significant impact on society. According to the World Health Organization, every year about 800.000 people commit suicide, while at the global level suicide accounts for 50 % of all violent deaths among men and for 71 % among women. Suicide is a complex phenomenon which cannot be attributed to a single causal factor, but to a combination of simultaneous effects of multiple factors which are expressed in the form of psychological, biological and sociological indicators. Analysis of epigenetic mechanisms (methylation of the DNA, modifications of histone proteins and (networks of) miRNA), which link the interaction between genes and the environment, could importantly contribute to better understanding of suicidal behaviour. Recent studies on suicidal behaviour and DNA methylation show differences in DNA methylation pattern, with numerous sites among suicide victims. Using next generation sequencing, genome-wide studies helped identify novel candidate genes while studies of already known candidate genes (such as glucocorticoid receptor and BDNF) gave us better insight into the interplay of genetics and epigenetics.Epigenetic studies importantly contribute to elucidation of new biomarkers for suicidal behaviour. However, present studies are very different in design and often performed on very small samples, and these limitations could be overcome with more careful study preparation.

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Section: Suicidal Behaviour and Genome-wide Dna Methylation Studiesmentioning

confidence: 99%

Genome-Wide Dna Methylation Patterns in Suicide Victims: Identification of New Candidate Genes

Kouter

Zupanc²,

Paska³

2019

Psychiat Danub

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“…In Slovenia, NGS methodology is already well established as its advances have been used in fields such as clinical neurology (dementia, 87 multiple sclerosis 88 ) paediatrics (metabolism of new-borns, 89 hearing loss 90 ), clinical oncology, 91 clinical microbiology (microbiota associated with preterm birth, 92 and age and gender 93 ), pharmacogenomics 94 and forensic medicine. 95 The use of genomic screening in preventive health is interesting, although it brings some concerns about its widespread implementation in routine clinical practice. 96,97 Current estimates predict that 3-5% of people present a medically actionable variant.…”

Section: National Genomes Sequencingmentioning

confidence: 99%

Sequencing of Nucleic Acids: from the First Human Genome to Next Generation Sequencing in COVID-19 Pandemic

Furlani

Kouter

Rozman

et al. 2021

ACSi

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Despite being around for more than 40 years, DNA sequencing is regarded as young technology in clinical medicine. As sequencing is becoming cheaper, faster and more accurate, it is rapidly being incorporated into clinical laboratories. In 2003, the completion of the first human genome opened the door to personalized medicine. Ever since it has been expected for genomics to widely impact clinical care and public health. However, many years can pass for genomic discoveries to reflect back and benefit the patients. DNA sequencing represents a less biased approach to diagnostics. It is not only a diagnostic tool, but can also influence clinical management and therapy. As new technologies rapidly emerge it is important for researchers and health professionals to have basic knowledge about the capabilities and drawbacks of the existing sequencing methods, and their use in clinical setting and research. This review provides an overview of nucleic acid sequencing technologies from historical perspective and later focuses on clinical utilization of sequencing. Some of the most promising areas are presented with selected examples from Slovenian researchers.

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“…There are multiple approaches to analyse DNA methylation on a genome-wide scale, including whole genome bisulphite sequencing and microarray and antibody-based approaches; these can again make it hard to directly compare studies[ 34 ]. The results defined a complex picture of the association of DNA methylation and suicidal behaviour, which included the involvement of differences in cognitive functions[ 35 ], cell cycle and cell-cell signalling[ 36 , 37 ], regulation of gene transcription and expression[ 38 ], glutamate signalling[ 39 ], cell structural integrity and nervous system regulation[ 40 ], and neurodevelopment and polyamine metabolism[ 41 ].…”

Section: Use Of -Omics In Research Into Suicidal Behaviourmentioning

confidence: 99%

‘Omics’ of suicidal behaviour: A path to personalised psychiatry

Kouter¹,

Paska²

2021

WJP

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Psychiatric disorders, including suicide, are complex disorders that are affected by many different risk factors. It has been estimated that genetic factors contribute up to 50% to suicide risk. As the candidate gene approach has not identified a gene or set of genes that can be defined as biomarkers for suicidal behaviour, much is expected from cutting edge technological approaches that can interrogate several hundred, or even millions, of biomarkers at a time. These include the ‘-omic’ approaches, such as genomics, transcriptomics, epigenomics, proteomics and metabolomics. Indeed, these have revealed new candidate biomarkers associated with suicidal behaviour. The most interesting of these have been implicated in inflammation and immune responses, which have been revealed through different study approaches, from genome-wide single nucleotide studies and the micro-RNA transcriptome, to the proteome and metabolome. However, the massive amounts of data that are generated by the ‘-omic’ technologies demand the use of powerful computational analysis, and also specifically trained personnel. In this regard, machine learning approaches are beginning to pave the way towards personalized psychiatry.

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Genome-wide DNA methylation in suicide victims revealing impact on gene expression

Cited by 26 publications

References 31 publications

Genome-Wide Dna Methylation Patterns in Suicide Victims: Identification of New Candidate Genes

Genome-Wide Dna Methylation Patterns in Suicide Victims: Identification of New Candidate Genes

Sequencing of Nucleic Acids: from the First Human Genome to Next Generation Sequencing in COVID-19 Pandemic

‘Omics’ of suicidal behaviour: A path to personalised psychiatry

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