AIMC Journal:
Nucleic acids research
Showing 201 to 210 of 228 articles
Human Disease Ontology 2018 update: classification, content and workflow expansion.
Nucleic acids research
Jan 8, 2019
The Human Disease Ontology (DO) (http://www.disease-ontology.org), database has undergone significant expansion in the past three years. The DO disease classification includes specific formal semantic rules to express meaningful disease models and ha...
PreMedKB: an integrated precision medicine knowledgebase for interpreting relationships between diseases, genes, variants and drugs.
Nucleic acids research
Jan 8, 2019
One important aspect of precision medicine aims to deliver the right medicine to the right patient at the right dose at the right time based on the unique 'omics' features of each individual patient, thus maximizing drug efficacy and minimizing adver...
Building a livestock genetic and genomic information knowledgebase through integrative developments of Animal QTLdb and CorrDB.
Nucleic acids research
Jan 8, 2019
Successful development of biological databases requires accommodation of the burgeoning amounts of data from high-throughput genomics pipelines. As the volume of curated data in Animal QTLdb (https://www.animalgenome.org/QTLdb) increases exponentiall...
The Gene Ontology Resource: 20 years and still GOing strong.
Nucleic acids research
Jan 8, 2019
The Gene Ontology resource (GO; http://geneontology.org) provides structured, computable knowledge regarding the functions of genes and gene products. Founded in 1998, GO has become widely adopted in the life sciences, and its contents are under cont...
UniProt: a worldwide hub of protein knowledge.
Nucleic acids research
Jan 8, 2019
The UniProt Knowledgebase is a collection of sequences and annotations for over 120 million proteins across all branches of life. Detailed annotations extracted from the literature by expert curators have been collected for over half a million of the...
Victors: a web-based knowledge base of virulence factors in human and animal pathogens.
Nucleic acids research
Jan 8, 2019
Virulence factors (VFs) are molecules that allow microbial pathogens to overcome host defense mechanisms and cause disease in a host. It is critical to study VFs for better understanding microbial pathogenesis and host defense mechanisms. Victors (ht...
EWAS Atlas: a curated knowledgebase of epigenome-wide association studies.
Nucleic acids research
Jan 8, 2019
Epigenome-Wide Association Study (EWAS) has become increasingly significant in identifying the associations between epigenetic variations and different biological traits. In this study, we develop EWAS Atlas (http://bigd.big.ac.cn/ewas), a curated kn...
Hercules: a profile HMM-based hybrid error correction algorithm for long reads.
Nucleic acids research
Nov 30, 2018
Choosing whether to use second or third generation sequencing platforms can lead to trade-offs between accuracy and read length. Several types of studies require long and accurate reads. In such cases researchers often combine both technologies and t...
A deep recurrent neural network discovers complex biological rules to decipher RNA protein-coding potential.
Nucleic acids research
Sep 19, 2018
The current deluge of newly identified RNA transcripts presents a singular opportunity for improved assessment of coding potential, a cornerstone of genome annotation, and for machine-driven discovery of biological knowledge. While traditional, featu...
ComplexContact: a web server for inter-protein contact prediction using deep learning.
Nucleic acids research
Jul 2, 2018
ComplexContact (http://raptorx2.uchicago.edu/ComplexContact/) is a web server for sequence-based interfacial residue-residue contact prediction of a putative protein complex. Interfacial residue-residue contacts are critical for understanding how pro...
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