AIMC Topic: Molecular Sequence Annotation
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Bioinformatics and machine learning methodologies to identify the effects of central nervous system disorders on glioblastoma progression.
Briefings in bioinformatics
Sep 2, 2021
Glioblastoma (GBM) is a common malignant brain tumor which often presents as a comorbidity with central nervous system (CNS) disorders. Both CNS disorders and GBM cells release glutamate and show an abnormality, but differ in cellular behavior. So, t...
Gene Expression Regulation, Neoplastic
Signal Transduction
Neoplasm Proteins
Glioblastoma
Brain Neoplasms
Gene Expression Profiling
Gene Regulatory Networks
Computational Biology
Molecular Sequence Annotation
Gene Ontology
Humans
Atlases as Topic
Machine Learning
Glutamic Acid
Datasets as Topic
Central Nervous System
Proportional Hazards Models
Kaplan-Meier Estimate
Integrating multi-network topology for gene function prediction using deep neural networks.
Briefings in bioinformatics
Mar 22, 2021
MOTIVATION: The emergence of abundant biological networks, which benefit from the development of advanced high-throughput techniques, contributes to describing and modeling complex internal interactions among biological entities such as genes and pro...
Predicting regulatory variants using a dense epigenomic mapped CNN model elucidated the molecular basis of trait-tissue associations.
Nucleic acids research
Jan 11, 2021
Assessing the causal tissues of human complex diseases is important for the prioritization of trait-associated genetic variants. Yet, the biological underpinnings of trait-associated variants are extremely difficult to infer due to statistical noise ...
Linkage Disequilibrium
Genetic Diseases, Inborn
Chromatin Immunoprecipitation
Histone Code
Deep Learning
Datasets as Topic
Genome-Wide Association Study
Organ Specificity
Polymorphism, Single Nucleotide
Molecular Sequence Annotation
Models, Genetic
Epigenomics
Binding Sites
Transcription Factors
Causality
Epigenome
Humans
The Gene Ontology resource: enriching a GOld mine.
Nucleic acids research
Jan 8, 2021
The Gene Ontology Consortium (GOC) provides the most comprehensive resource currently available for computable knowledge regarding the functions of genes and gene products. Here, we report the advances of the consortium over the past two years. The n...
UniProt: the universal protein knowledgebase in 2021.
Nucleic acids research
Jan 8, 2021
The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set of protein sequences annotated with functional information. In this article, we describe significant updates that we have made over ...
FireProtDB: database of manually curated protein stability data.
Nucleic acids research
Jan 8, 2021
The majority of naturally occurring proteins have evolved to function under mild conditions inside the living organisms. One of the critical obstacles for the use of proteins in biotechnological applications is their insufficient stability at elevate...
SilencerDB: a comprehensive database of silencers.
Nucleic acids research
Jan 8, 2021
Gene regulatory elements, including promoters, enhancers, silencers, etc., control transcriptional programs in a spatiotemporal manner. Though these elements are known to be able to induce either positive or negative transcriptional control, the comm...
Network Building with the Cytoscape BioGateway App Explained in Five Use Cases.
Current protocols in bioinformatics
Dec 1, 2020
The BioGateway App is a plugin for the Cytoscape network editor, allowing users to interactively build biological networks by querying the Biogateway Resource Description Framework (RDF) triple store. BioGateway contains information from several cura...
UniRule: a unified rule resource for automatic annotation in the UniProt Knowledgebase.
Bioinformatics (Oxford, England)
Nov 1, 2020
MOTIVATION: The number of protein records in the UniProt Knowledgebase (UniProtKB: https://www.uniprot.org) continues to grow rapidly as a result of genome sequencing and the prediction of protein-coding genes. Providing functional annotation for the...
Study on the differentially expressed genes and signaling pathways in dermatomyositis using integrated bioinformatics method.
Medicine
Aug 21, 2020
Dermatomyositis is a common connective tissue disease. The occurrence and development of dermatomyositis is a result of multiple factors, but its exact pathogenesis has not been fully elucidated. Here, we used biological information method to explore...
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