AIMC Topic: Genetic Variation

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Opportunities and challenges for the computational interpretation of rare variation in clinically important genes.

American journal of human genetics
Genome sequencing is enabling precision medicine-tailoring treatment to the unique constellation of variants in an individual's genome. The impact of recurrent pathogenic variants is often understood, however there is a long tail of rare genetic vari...

A machine-learning approach to map landscape connectivity in with genetic and environmental data.

Proceedings of the National Academy of Sciences of the United States of America
Mapping landscape connectivity is important for controlling invasive species and disease vectors. Current landscape genetics methods are often constrained by the subjectivity of creating resistance surfaces and the difficulty of working with interact...

CHDGKB: a knowledgebase for systematic understanding of genetic variations associated with non-syndromic congenital heart disease.

Database : the journal of biological databases and curation
Congenital heart disease (CHD) is one of the most common birth defects, with complex genetic and environmental etiologies. The reports of genetic variation associated with CHD have increased dramatically in recent years due to the revolutionary devel...

Machine-learned analysis of the association of next-generation sequencing-based genotypes with persistent pain after breast cancer surgery.

Pain
Cancer and its surgical treatment are among the most important triggering events for persistent pain, but additional factors need to be present for the clinical manifestation, such as variants in pain-relevant genes. In a cohort of 140 women undergoi...

GOF/LOF knowledge inference with tensor decomposition in support of high order link discovery for gene, mutation and disease.

Mathematical biosciences and engineering : MBE
For discovery of new usage of drugs, the function type of their target genes plays an important role, and the hypothesis of "Antagonist-GOF" and "Agonist-LOF" has laid a solid foundation for supporting drug repurposing. In this research, an active ge...

Deep repeat resolution-the assembly of the Drosophila Histone Complex.

Nucleic acids research
Though the advent of long-read sequencing technologies has led to a leap in contiguity of de novo genome assemblies, current reference genomes of higher organisms still do not provide unbroken sequences of complete chromosomes. Despite reads in exces...

Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources.

Nucleic acids research
The Human Phenotype Ontology (HPO)-a standardized vocabulary of phenotypic abnormalities associated with 7000+ diseases-is used by thousands of researchers, clinicians, informaticians and electronic health record systems around the world. Its detaile...

PreMedKB: an integrated precision medicine knowledgebase for interpreting relationships between diseases, genes, variants and drugs.

Nucleic acids research
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...

An enhanced workflow for variant interpretation in UniProtKB/Swiss-Prot improves consistency and reuse in ClinVar.

Database : the journal of biological databases and curation
Personalized genomic medicine depends on integrated analyses that combine genetic and phenotypic data from individual patients with reference knowledge of the functional and clinical significance of sequence variants. Sources of this reference knowle...