AIMC Topic: Molecular Sequence Annotation

Clear Filters Showing 51 to 60 of 260 articles

DDBJ Data Analysis Challenge: a machine learning competition to predict Arabidopsis chromatin feature annotations from DNA sequences.

Genes & genetic systems Mar 26, 2020
Recently, the prospect of applying machine learning tools for automating the process of annotation analysis of large-scale sequences from next-generation sequencers has raised the interest of researchers. However, finding research collaborators with ...
Japan High-Throughput Nucleotide Sequencing Molecular Sequence Annotation Crowdsourcing Machine Learning Data Analysis Computational Biology Databases, Nucleic Acid Chromatin Genome, Plant Arabidopsis
View on PubMed DOI

Genome-wide inference of the Camponotus floridanus protein-protein interaction network using homologous mapping and interacting domain profile pairs.

Scientific reports Feb 11, 2020
Apart from some model organisms, the interactome of most organisms is largely unidentified. High-throughput experimental techniques to determine protein-protein interactions (PPIs) are resource intensive and highly susceptible to noise. Computational...
Gene Regulatory Networks Genome, Insect Proteome Animals Insect Proteins Gene Ontology Protein Interaction Maps Ants Protein Interaction Domains and Motifs Molecular Sequence Annotation
View on PubMed DOI

Combined Use of Three Machine Learning Modeling Methods to Develop a Ten-Gene Signature for the Diagnosis of Ventilator-Associated Pneumonia.

Medical science monitor : international medical journal of experimental and clinical research Feb 7, 2020
BACKGROUND This study aimed to use three modeling methods, logistic regression analysis, random forest analysis, and fully-connected neural network analysis, to develop a diagnostic gene signature for the diagnosis of ventilator-associated pneumonia ...
Algorithms Gene Expression Profiling Protein Interaction Maps Humans Machine Learning Genome, Human Molecular Sequence Annotation Gene Ontology Pneumonia, Ventilator-Associated Databases, Genetic Area Under Curve Gene Expression Regulation
View on PubMed DOI

Discovery and annotation of novel microRNAs in the porcine genome by using a semi-supervised transductive learning approach.

Genomics Dec 6, 2019
Despite the broad variety of available microRNA (miRNA) prediction tools, their application to the discovery and annotation of novel miRNA genes in domestic species is still limited. In this study we designed a comprehensive pipeline (eMIRNA) for miR...
Sequence Homology, Nucleic Acid Genetic Loci Molecular Sequence Annotation Sus scrofa RNA Precursors Nucleotide Motifs Genome Liver MicroRNAs Muscle, Skeletal Transcriptome RNA-Seq Genomics Algorithms Machine Learning Animals
View on PubMed DOI

Identifying pseudoenzymes using functional annotation: pitfalls of common practice.

The FEBS journal Dec 5, 2019
Pseudoenzymes are proteins that are evolutionary related to enzymes but lack relevant catalytic activity. They are usually evolved from enzymatic ancestors that have lost their catalytic activities. The loss of catalytic function is one extreme among...
Knowledge Bases Molecular Sequence Annotation Enzymes Humans Proteins
View on PubMed DOI

Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing.

Cells Nov 26, 2019
Defects in pre-mRNA splicing are frequently a cause of Mendelian disease. Despite the advent of next-generation sequencing, allowing a deeper insight into a patient's variant landscape, the ability to characterize variants causing splicing defects ha...
Humans RNA Precursors Computational Biology Machine Learning Genetic Variation Molecular Sequence Annotation RNA Splicing Models, Biological Genomics Genetic Predisposition to Disease
View on PubMed DOI

Learning a functional grammar of protein domains using natural language word embedding techniques.

Proteins Nov 25, 2019
In this paper, using Word2vec, a widely-used natural language processing method, we demonstrate that protein domains may have a learnable implicit semantic "meaning" in the context of their functional contributions to the multi-domain proteins in whi...
Datasets as Topic Semantics Molecular Sequence Annotation Gene Ontology Databases, Protein Humans Natural Language Processing Proteins Protein Domains
View on PubMed DOI

Artificial intelligence in clinical and genomic diagnostics.

Genome medicine Nov 19, 2019
Artificial intelligence (AI) is the development of computer systems that are able to perform tasks that normally require human intelligence. Advances in AI software and hardware, especially deep learning algorithms and the graphics processing units (...
Phenotype Molecular Diagnostic Techniques Neural Networks, Computer Molecular Sequence Annotation Genetic Association Studies Humans Deep Learning Genomics Computational Biology Genetics, Medical Artificial Intelligence Algorithms
View on PubMed DOI

Machine learning for discovering missing or wrong protein function annotations : A comparison using updated benchmark datasets.

BMC bioinformatics Sep 23, 2019
BACKGROUND: A massive amount of proteomic data is generated on a daily basis, nonetheless annotating all sequences is costly and often unfeasible. As a countermeasure, machine learning methods have been used to automatically annotate new protein func...
Gene Ontology Eukaryota Proteomics Cluster Analysis Molecular Sequence Annotation Humans Machine Learning
View on PubMed DOI

Advances in gene ontology utilization improve statistical power of annotation enrichment.

PloS one Aug 15, 2019
Gene-annotation enrichment is a common method for utilizing ontology-based annotations in gene and gene-product centric knowledgebases. Effective utilization of these annotations requires inferring semantic linkages by tracing paths through edges in ...
Knowledge Bases Horses Molecular Sequence Annotation Gene Ontology Animals Computational Biology Humans Databases, Genetic Female Breast Neoplasms
View on PubMed DOI
Popular Topics
Recent Journals