Detecting Epistatic Interactions in Metagenome-Wide Association Studies by metaBOOST

نویسندگان

  • Mengmeng Wu
  • Rui Jiang
چکیده

MATERIAL AND METHODS We recall the definition of epistasis and extend it for metagenomic biomarkers and then we describe the overview of our method metaBOOST and provide detailed information about each step of metaBOOST. RESULTS We describe the data sources for both simulation studies and real metagenomic datasets. Then, we describe the procedure of simulation studies and provide results for it. After that, we conduct real datasets studies and report the results. CONCLUSIONS AND DISCUSSION Finally, we conclude our method and discuss some possible improvements for the future.

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

SNPHarvester: a filtering-based approach for detecting epistatic interactions in genome-wide association studies

MOTIVATION Hundreds of thousands of single nucleotide polymorphisms (SNPs) are available for genome-wide association (GWA) studies nowadays. The epistatic interactions of SNPs are believed to be very important in determining individual susceptibility to complex diseases. However, existing methods for SNP interaction discovery either suffer from high computation complexity or perform poorly when...

متن کامل

Detecting Epistasis in Genome-wide Association Studies with the Marginal EPIstasis Test

Epistasis, commonly defined as the interaction between multiple genes, is an important genetic component underlying phenotypic variation. Many statistical methods have been developed to model and identify epistatic interactions between genetic variants. However, because of the large combinatorial search space of interactions, most epistasis mapping methods face enormous computational challenges...

متن کامل

Addressing the Challenges of Detecting Epistasis in Genome-Wide Association Studies of Common Human Diseases Using Biological Expert Knowledge

Recent technological developments in the field of genetics have given rise to an abundance of research tools, such as genome-wide genotyping, that allow researchers to conduct genome-wide association studies (GWAS) for detecting genetic variants that confer increased or decreased susceptibility to disease. However, discovering epistatic, or gene-gene, interactions in high dimensional datasets i...

متن کامل

AntEpiSeeker2.0: extending epistasis detection to epistasis- associated pathway inference using ant colony optimization

Genome-wide association studies (GWAS) have become a standard method for finding genetic variations that contribute to common, complex diseases. Recently, it is suggested that these diseases may be caused by epistatic interactions of multiple genetic variations. Although tens of software tools have been developed for epistasis detection, few are able to infer pathway importance from the identif...

متن کامل

Predictive rule inference for epistatic interaction detection in genome-wide association studies

MOTIVATION Under the current era of genome-wide association study (GWAS), finding epistatic interactions in the large volume of SNP data is a challenging and unsolved issue. Few of previous studies could handle genome-wide data due to the difficulties in searching the combinatorially explosive search space and statistically evaluating high-order epistatic interactions given the limited number o...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره 2014  شماره 

صفحات  -

تاریخ انتشار 2014