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Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

15.8K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
15.8K
Comparing Copy Number Variations and SNPs02:26

Comparing Copy Number Variations and SNPs

18.8K
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%...
18.8K
Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

18.5K
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,...
18.5K
Classification of Titrimetric Analysis Based on Reaction Types01:01

Classification of Titrimetric Analysis Based on Reaction Types

1.8K
Titrimetric analysis in solution chemistry involves measuring the volume of solutions and is often called volumetric analysis. The standard solution of known concentration in the burette is called the titrant, whereas the solution of unknown concentration in the flask is called the analyte, or titrand. Titrimetric analyses can be classified into four types based on the reactions between the titrant and analyte.
Titrations between an acid and a base lead to neutralization reactions that form...
1.8K
Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches01:23

Types of Biopharmaceutical Studies: Controlled and Non-Controlled Approaches

475
Biopharmaceutical studies constitute a vital field aiming to enhance drug delivery methods and refine therapeutic approaches, drawing upon diverse interdisciplinary knowledge. In research methodologies, the choice between controlled and non-controlled studies significantly influences the study's reliability and accuracy.
Non-controlled studies, commonly employed for initial exploration, lack a control group, rendering them susceptible to biases and external influences. In contrast,...
475
Types of RNA01:23

Types of RNA

73.0K
Overview
Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in the regulation of gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA...
73.0K

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Related Experiment Video

Updated: Feb 9, 2026

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information
05:01

A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information

Published on: July 1, 2020

3.8K

Imputation-Based HLA Typing with SNPs in GWAS Studies.

Xiuwen Zheng1

  • 1Department of Biostatistics, University of Washington, Seattle, WA, USA. zhengx@u.washington.edu.

Methods in Molecular Biology (Clifton, N.J.)
|June 3, 2018
PubMed
Summary

This study introduces HIBAG, a method using SNP data to impute human leukocyte antigen (HLA) alleles. This allows for cost-free HLA typing on existing genome-wide association study datasets.

Area of Science:

  • Immunogenetics
  • Genomic Data Analysis
  • Computational Biology

Background:

  • Human Leukocyte Antigen (HLA) typing is crucial for immune system studies.
  • Genome-Wide Association Studies (GWAS) generate dense Single Nucleotide Polymorphism (SNP) data.
  • Existing SNP datasets from GWAS can be leveraged for HLA typing.

Purpose of the Study:

  • To describe the HIBAG (imputation with attribute bagging) workflow for HLA typing.
  • To enable HLA class I and II genotype imputation using SNP data.
  • To demonstrate genotype imputation and classifier training with a public dataset.

Main Methods:

  • Utilizes SNP genotypes and the extended haplotype structure within the Major Histocompatibility Complex (MHC).
  • Employs an imputation method with attribute bagging (HIBAG).
Keywords:
GWASHIBAGHLAImputationMHCSNP

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  • Applies two-field resolution for HLA class I and II genotype prediction.
  • Main Results:

    • Successfully imputes HLA class I and II genotypes from SNP data.
    • Demonstrates genotype imputation using pre-fit classifiers for GWAS.
    • Illustrates model training for creating new HLA imputation classifiers.

    Conclusions:

    • SNP-based imputation offers a cost-effective approach for HLA typing on existing GWAS data.
    • HIBAG provides a robust method for predicting classical HLA alleles.
    • The described workflow facilitates HLA analyses in large-scale genetic studies.