TOXPO: TOXicogenomics knowledgebase for inferring toxicity based on POlymorphism

Jo, Yunju; Koh, In Song; Bae, Hyunsu; Hong, Min; Shin, Monica; Kim, Yang Seok

doi:10.1007/s13206-010-4202-0

Cited by 3 publications

(1 citation statement)

References 18 publications

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“…For example, many variants have been found to exhibit interactions with environments of one sort or another in the context of disease susceptibility [53]. However, more specific interactions involving drugs or chemicals have received a great deal of recent attention and have led to databases cataloging evidence for such interactions, such as the ToxPO database [54] and, importantly, the Pharmacogenetics Knowledge Base or ‘PharmGKB’ [55]. Many studies and databases providing context-specific functional annotations of genetic variants are not necessarily population-based, but may leverage specific laboratory or model-organism based functional assays [56].…”

Section: Types Of Annotationmentioning

confidence: 99%

Annotating individual human genomes

et al. 2011

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Advances in DNA sequencing technologies have made it possible to rapidly, accurately and affordably sequence entire individual human genomes. As impressive as this ability seems, however, it will not likely to amount to much if one cannot extract meaningful information from individual sequence data. Annotating variations within individual genomes and providing information about their biological or phenotypic impact will thus be crucially important in moving individual sequencing projects forward, especially in the context of the clinical use of sequence information. In this paper we consider the various ways in which one might annotate individual sequence variations and point out limitations in the available methods for doing so. It is arguable that, in the foreseeable future, DNA sequencing of individual genomes will become routine for clinical, research, forensic, and personal purposes. We therefore also consider directions and areas for further research in annotating genomic variants.

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Section: Types Of Annotationmentioning

confidence: 99%

Annotating individual human genomes

et al. 2011

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Approaches and perspectives to toxicogenetics and toxicogenomics

Rodriguez¹

2015

Rev. Fac. Med.

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Toxicology is one of the scientific disciplines that has most evolved in recent years due to scientific and technological advances that have created a deeper understanding of the genetic and molecular basis for appreciative variability in toxic response from one person to another. The application of this knowledge in toxicology is known as toxicogenetics and toxicogenomics. The latter is the discipline that studies the genomic response of organisms exposed to chemical agents, including drugs, environmental pollutants, food additives, and other commonly used chemical products. The use of emerging omic technologies, such as genomics, transcriptomics, proteomics, metabolomics and bioinformatics techniques, permits the analysis of many variants of genes simultaneously in an organism exposed to toxic agents in order to search for genes susceptible to damage, to detect patterns and mechanisms of toxicity, and determine specific profiles of gene expression that give origin to biomarkers of exposure and risk. This constitutes predictive toxicology.

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Moleküler Toksikoloji ve “Omik” Teknolojileri

Kasurka

2019

Nevşehir Bilim Ve Teknoloji Dergisi

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Toksikoloji, bir organizmada kimyasal, fiziksel veya biyolojik ajanlara maruziyetin sebep olduğu fenotipik değişiklikleri araştırır. Moleküler toksikoloji ise çeşitli malzemelerin, ilaçların, kimyasal maddelerin, toksinlerin ve benzeri maddelerin fonksiyonel mekanizmalarının anlaşılması için moleküler ve hücresel biyolojinin, hücresel ve biyokimyasal seviyelerde kullanıldığı araştırmaları kapsamaktadır. 1980'lerde moleküler biyoloji araçlarının geliştirilmesine paralel olarak, toksikoloji dahil olmak üzere biyolojik bilimlerde bir dönüşüm başlamıştır. Aynı zamanlarda yayınlanan, "Toksikoloji molekülere kaymaktadır" başlıklı bir makale, toksikolojinin yaşanan çağdaki gelişmelere uyum sağlamakta olduğunu göstermektedir. Bu gelişmelerin ardından toksikologlar, zehirli bir maddenin DNA'nın yapısı, fonksiyonu ve (hedef) gen ekspresyonu üzerindeki etkilerini araştırabilir, toksik cevabı düzenleyen genleri klonlayabilir ve "omik" teknolojilerden (genomik, proteomik, metabolomik, interaktomik), epigenetikten, sistem biyolojisinden, hesaplamalı bilimlerden ve in vitro biyolojiden elde edilen bilgileri harmanlayabilir hale gelmiştir. Günümüzde kullanılmakta olan 100.000'e yakın kimyasal madde mevcuttur ve bunların sadece küçük bir kısmının toksikolojik değerlendirmesi yapılmış durumdadır. Dolayısıyla, bilim adamları bu maddeleri tespit etmek ve etkilerini belirlemek için alternatif yaklaşımlara ihtiyaç duymaktadırlar. Sonuç olarak toksikoloji, kendisini hızla daha bütünsel bir bilimsel disipline dönüştürmektedir. Bu derlemenin amacı, teknolojik gelişmeler ışığında toksikolojik çalışmalara genel bir bakış sunmaktır.

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TOXPO: TOXicogenomics knowledgebase for inferring toxicity based on POlymorphism

Cited by 3 publications

References 18 publications

Annotating individual human genomes

Annotating individual human genomes

Approaches and perspectives to toxicogenetics and toxicogenomics

Moleküler Toksikoloji ve “Omik” Teknolojileri

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