J. Dudley

Publications58
h-index22
Citations34,270
Highly Influential Citations6,783
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MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0.
We announce the release of the fourth version of MEGA software, which expands on the existing facilities for editing DNA sequence data from autosequencers, mining Web-databases, performing automatic… Expand
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MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences
TLDR
The Molecular Evolutionary Genetics Analysis (MEGA) software is a desktop application designed for comparative analysis of homologous gene sequences with a special emphasis on inferring evolutionary relationships and patterns of DNA and protein evolution. Expand
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TimeTree: a public knowledge-base of divergence times among organisms
TLDR
We present time estimates from molecular data in a hierarchical structure, corresponding to the tree of life, to maximize their utility. Expand
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Exploiting drug-disease relationships for computational drug repositioning
TLDR
In this review, we show that computational methods for drug repositioning can be classified in two axes: drug based, where discovery initiates from the chemical perspective, or disease based. Expand
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Deep learning for healthcare: review, opportunities and challenges
TLDR
Gaining knowledge and actionable insights from complex, high-dimensional and heterogeneous biomedical data remains a key challenge. Expand
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Network-Based Elucidation of Human Disease Similarities Reveals Common Functional Modules Enriched for Pluripotent Drug Targets
TLDR
We present the first quantitative framework to compare and contrast diseases by an integrated analysis of disease-related mRNA expression data and the human protein interaction network. Expand
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Mutations in tetratricopeptide repeat domain 7A result in a severe form of very early onset inflammatory bowel disease.
BACKGROUND & AIMS Very early onset inflammatory bowel diseases (VEOIBD), including infant disorders, are a diverse group of diseases found in children younger than 6 years of age. They have been… Expand
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Automated cell type discovery and classification through knowledge transfer
TLDR
We present a new algorithm called Automated Cell‐type Discovery and Classification (ACDC) that fully automates the classification of canonical cell populations and highlights novel cell types in mass cytometry data. Expand
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A Quick Guide for Developing Effective Bioinformatics Programming Skills
TLDR
Bioinformatics programming skills are becoming a necessity across many facets of biology and medicine, owed in part to the continuing explosion of biological data aggregation and the complexity and scale of questions now being addressed through modern bioinformatrics. Expand
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Translational bioinformatics in the era of real-time biomedical, health care and wellness data streams
TLDR
In this article, we discuss various health‐monitoring devices, their ability to capture the unique state of health represented in a patient and their application in individualized diagnostics, prognosis, clinical or wellness intervention. Expand
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