G3 (Bethesda, Md.)
May 2, 2023
While several statistical machine learning methods have been developed and studied for assessing the genomic prediction (GP) accuracy of unobserved phenotypes in plant breeding research, few methods have linked genomics and phenomics (imaging). Deep ...
Omics : a journal of integrative biology
Apr 1, 2023
Omics data are multidimensional, heterogeneous, and high throughput. Robust computational methods and machine learning (ML)-based models offer new prospects to accelerate the data-to-knowledge trajectory. Deep learning (DL) is a powerful subset of ML...
Briefings in bioinformatics
Mar 19, 2023
Identifying the function of DNA sequences accurately is an essential and challenging task in the genomic field. Until now, deep learning has been widely used in the functional analysis of DNA sequences, including DeepSEA, DanQ, DeepATT and TBiNet. Ho...
Briefings in bioinformatics
Mar 19, 2023
Discovering pre-microRNAs (miRNAs) is the core of miRNA discovery. Using traditional sequence/structural features, many tools have been published to discover miRNAs. However, in practical applications like genomic annotations, their actual performanc...
Bioinformatics (Oxford, England)
Mar 1, 2023
MOTIVATION: Efficient tapping into genomic information from a single microscopic image of an intact DNA molecule is an outstanding challenge and its solution will open new frontiers in molecular diagnostics. Here, a new computational method for optic...
Biochemical Society transactions
Feb 27, 2023
Trypanosomatids are protozoan parasites that cause human and animal neglected diseases. Despite global efforts, effective treatments are still much needed. Phenotypic screens have provided several chemical leads for drug discovery, but the mechanism ...
Briefings in bioinformatics
Jan 19, 2023
Quantifying an individual's risk for common diseases is an important goal of precision health. The polygenic risk score (PRS), which aggregates multiple risk alleles of candidate diseases, has emerged as a standard approach for identifying high-risk ...
Nucleic acids research
Jan 6, 2023
The National Genomics Data Center (NGDC), part of the China National Center for Bioinformation (CNCB), provides a family of database resources to support global academic and industrial communities. With the explosive accumulation of multi-omics data ...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2023
DNA accessibility has been a powerful tool in locating active regulatory elements in a cell type, but dissecting the combinatorial logic within these regulatory elements has been a continued challenge in the field. Deep learning models have been show...
Singapore medical journal
Jan 1, 2023
Advancements in high-throughput sequencing have yielded vast amounts of genomic data, which are studied using genome-wide association study (GWAS)/phenome-wide association study (PheWAS) methods to identify associations between the genotype and pheno...