1092人的变异的整合性注释:用于癌症基因组学的应用
Ekta Khurana1,2, Yao Fu1, Vincenza Colonna3,4
1Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA.
概括
在个人基因组中识别有害的遗传变异是困难的. 这项研究使用多态模式来发现有害变异,包括非编码的变异,并开发一种工具 (FunSeq) 来识别癌症驱动因素.
科学领域:
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
- 分子生物学分子生物学
背景情况:
- 解释基因变异,特别是在非编码区域,在个人基因组学中是一个重大挑战.
- 了解遗传变异的功能影响对于诊断疾病和开发向疗法至关重要.
研究的目的:
- 开发一种方法来识别有害的遗传变异,包括非编码的,使用多态的模式.
- 创建一个计算工具 (FunSeq),用于预测癌症基因组中的非编码驱动突变.
主要方法:
- 在1092个人类基因组中的功能注释区域中分析多态模式.
- 对已识别的候选有害变异进行实验验证.
- 开发和应用FunSeq计算工具用于癌症基因组.
主要成果:
- 识别突变敏感区域 ("超敏感") 和破坏转录因子结合 ("动机破坏者") 的变异.
- 在高网络中心性地区的变体与有害影响之间的相关性.
- 成功应用FunSeq来识别癌症基因组中的候选非编码驱动因素.
结论:
- 功能区域中的多态模式可以有效地识别有害变异,包括非编码的变异.
- FunSeq工具有助于发现非编码驱动突变,促进癌症基因组学研究.
更多相关视频
相关概念视频
Genomics
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
Comparing Copy Number Variations and SNPs
Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Single Nucleotide Polymorphisms-SNPs
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
Genome Annotation and Assembly
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Cancer-Critical Genes II: Tumor Suppressor Genes
Genes usually encode proteins necessary for the proper functioning of a healthy cell. Mutations can often cause changes to the gene expression pattern, thereby altering the phenotype.
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
Cancer-Critical Genes II: Tumor Suppressor Genes
Genes usually encode proteins necessary for the proper functioning of a healthy cell. Mutations can often cause changes to the gene expression pattern, thereby altering the phenotype.
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...
When the function of certain critical genes, especially those involved in cell cycle regulation and cell growth signaling cascades, gets disrupted, it upsets the cell cycle progression. Such cells with unchecked cell cycles start proliferating uncontrollably and eventually develop into tumors.
Such genes that act...


