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SnapFISH-IMPUTE: an imputation method for multiplexed DNA FISH data
Chromatin spatial organization plays a crucial role in gene regulation. Recently developed and prospering multiplexed DNA FISH technologies enable...
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Comparison of multiple imputation and other methods for the analysis of imputed genotypes
BackgroundAnalysis of imputed genotypes is an important and routine component of genome-wide association studies and the increasing size of...
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Multiple Imputation for Compositional Data (MICoDa) Adjusting for Covariates
In many applications, researchers are interested in multivariate outcomes that are compositional. However, for various reasons, including the method...
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Imputation strategies for genomic prediction using nanopore sequencing
BackgroundGenomic prediction describes the use of SNP genotypes to predict complex traits and has been widely applied in humans and agricultural...
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The hazards of genotype imputation when map** disease susceptibility variants
BackgroundThe cost-free increase in statistical power of using imputation to infer missing genotypes is undoubtedly appealing, but is it hazard-free?...
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Evaluating imputation methods for single-cell RNA-seq data
BackgroundSingle-cell RNA sequencing (scRNA-seq) enables the high-throughput profiling of gene expression at the single-cell level. However,...
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The ENCODE Imputation Challenge: a critical assessment of methods for cross-cell type imputation of epigenomic profiles
A promising alternative to comprehensively performing genomics experiments is to, instead, perform a subset of experiments and use computational...
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Methylome Imputation by Methylation Patterns
DNA methylation is studied extensively for its relations with several biological processes such as transcriptional regulation. While methylation...
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Accuracy of haplotype estimation and whole genome imputation affects complex trait analyses in complex biobanks
Sample recruitment for research consortia, biobanks, and personal genomics companies span years, necessitating genoty** in batches, using different...
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Reconstruction of private genomes through reference-based genotype imputation
BackgroundGenotype imputation is an essential step in genetic studies to improve data quality and statistical power. Public imputation servers are...
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scMTD: a statistical multidimensional imputation method for single-cell RNA-seq data leveraging transcriptome dynamic information
BackgroundSingle-cell RNA sequencing (scRNA-seq) provides a powerful tool to capture transcriptomes at single-cell resolution. However, dropout...
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Electronic medical records imputation by temporal Generative Adversarial Network
The loss of electronic medical records has seriously affected the practical application of biomedical data. Therefore, it is a meaningful research...
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MIRTH: Metabolite Imputation via Rank-Transformation and Harmonization
Out of the thousands of metabolites in a given specimen, most metabolomics experiments measure only hundreds, with poor overlap across experimental...
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Genoty** of SNPs in bread wheat at reduced cost from pooled experiments and imputation
Key messagePooling and imputation are computational methods that can be combined for achieving cost-effective and accurate high-density genoty** of...
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New imputation methodologies for genotype-by-environment data: an extensive study of properties of estimators
The site regression model (SREG) is utilized by plant breeders for analyzing multi-environment trials (MET) to examine the relationships among test...
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Development and validation of a horse reference panel for genotype imputation
BackgroundGenotype imputation is a cost-effective method to generate sequence-level genotypes for a large number of animals. Its application can...
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An efficient scRNA-seq dropout imputation method using graph attention network
BackgroundSingle-cell sequencing technology can address the amount of single-cell library data at the same time and display the heterogeneity of...
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Benchmarking imputation methods for network inference using a novel method of synthetic scRNA-seq data generation
BackgroundSingle cell RNA-sequencing (scRNA-seq) has very rapidly become the new workhorse of modern biology providing an unprecedented global view...
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A joint use of pooling and imputation for genoty** SNPs
BackgroundDespite continuing technological advances, the cost for large-scale genoty** of a high number of samples can be prohibitive. The purpose...
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An efficient ensemble method for missing value imputation in microarray gene expression data
BackgroundThe genomics data analysis has been widely used to study disease genes and drug targets. However, the existence of missing values in...
