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"id": 78,
"uri": "http://edamontology.org/topic_0219",
"label": "Data submission, annotation and curation",
"synonyms": [
"Database curation",
"Data curation",
"Data provenance"
],
"description": "Deposition and curation of database accessions, including annotation, typically with terms from a controlled vocabulary."
},
{
"id": 73,
"uri": "http://edamontology.org/topic_0204",
"label": "Gene regulation",
"synonyms": [
"Regulatory genomics"
],
"description": "The regulation of gene expression."
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{
"id": 27,
"uri": "http://edamontology.org/topic_0203",
"label": "Gene expression",
"synonyms": [
"DNA chips",
"DNA microarrays",
"Gene translation",
"Transcription",
"Expression",
"Gene expression profiling",
"Codon usage",
"Gene transcription"
],
"description": "The analysis of levels and patterns of synthesis of gene products (proteins and functional RNA) including interpretation in functional terms of gene expression data."
},
{
"id": 93,
"uri": "http://edamontology.org/topic_0199",
"label": "Genetic variation",
"synonyms": [
"DNA variation",
"Somatic mutations",
"Genomic variation",
"Mutation",
"Polymorphism"
],
"description": "Stable, naturally occuring mutations in a nucleotide sequence including alleles, naturally occurring mutations such as single base nucleotide substitutions, deletions and insertions, RFLPs and other polymorphisms."
},
{
"id": 22,
"uri": "http://edamontology.org/topic_0196",
"label": "Sequence assembly",
"synonyms": [
"Assembly"
],
"description": "The assembly of fragments of a DNA sequence to reconstruct the original sequence."
},
{
"id": 68,
"uri": "http://edamontology.org/topic_0194",
"label": "Phylogenomics",
"synonyms": null,
"description": "The integrated study of evolutionary relationships and whole genome data, for example, in the analysis of species trees, horizontal gene transfer and evolutionary reconstruction."
},
{
"id": 31,
"uri": "http://edamontology.org/topic_0176",
"label": "Molecular dynamics",
"synonyms": [
"Protein dynamics"
],
"description": "The study and simulation of molecular (typically protein) conformation using a computational model of physical forces and computer simulation."
},
{
"id": 115,
"uri": "http://edamontology.org/topic_0166",
"label": "Protein structural motifs and surfaces",
"synonyms": [
"Protein surfaces",
"Protein structural features",
"Protein 3D motifs",
"Structural motifs",
"Protein structural motifs"
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"description": "Structural features or common 3D motifs within protein structures, including the surface of a protein structure, such as biological interfaces with other molecules."
},
{
"id": 35,
"uri": "http://edamontology.org/topic_0160",
"label": "Sequence sites, features and motifs",
"synonyms": [
"Sequence profiles",
"Sequence sites",
"Sequence motifs",
"HMMs",
"Functional sites",
"Sequence features"
],
"description": "The archival, detection, prediction and analysis of positional features such as functional and other key sites, in molecular sequences and the conserved patterns (motifs, profiles etc.) that may be used to describe them."
},
{
"id": 41,
"uri": "http://edamontology.org/topic_0157",
"label": "Sequence composition, complexity and repeats",
"synonyms": [
"Protein sequence repeats",
"Sequence complexity",
"Low complexity sequences",
"Nucleic acid repeats",
"Repeat sequences",
"Sequence composition",
"Sequence repeats",
"Protein repeats"
],
"description": "The archival, processing and analysis of the basic character composition of molecular sequences, for example character or word frequency, ambiguity, complexity, particularly regions of low complexity, and repeats or the repetitive nature of molecular sequences."
},
{
"id": 20,
"uri": "http://edamontology.org/topic_0154",
"label": "Small molecules",
"synonyms": [
"Peptides and amino acids",
"Toxins and targets",
"Drugs and target structures",
"Drug targets",
"Peptides",
"Drug structures",
"Metabolite structures",
"Amino acids",
"Toxins",
"Targets",
"Chemical structures",
"Target structures"
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"description": "Small molecules of biological significance, typically archival, curation, processing and analysis of structural information."
},
{
"id": 24,
"uri": "http://edamontology.org/topic_0128",
"label": "Protein interactions",
"synonyms": [
"Protein interaction networks",
"Protein-ligand interactions",
"Protein-nucleic acid interactions",
"Protein-DNA interactions",
"Protein-DNA interaction",
"Protein interaction map",
"Protein-RNA interaction",
"Protein-RNA interactions",
"Protein interactome",
"Protein-protein interactions"
],
"description": "Protein-protein, protein-DNA/RNA and protein-ligand interactions, including analysis of known interactions and prediction of putative interactions."
},
{
"id": 111,
"uri": "http://edamontology.org/topic_0121",
"label": "Proteomics",
"synonyms": [
"Peptide identification",
"Quantitative proteomics",
"MS-based targeted proteomics",
"Targeted proteomics",
"Metaproteomics",
"MS-based untargeted proteomics",
"Discovery proteomics",
"Top-down proteomics",
"Protein and peptide identification",
"Bottom-up proteomics"
],
"description": "Protein and peptide identification, especially in the study of whole proteomes of organisms."
},
{
"id": 117,
"uri": "http://edamontology.org/topic_0114",
"label": "Gene structure",
"synonyms": [
"Fusion genes",
"Gene features"
],
"description": "Gene structure, regions which make an RNA product and features such as promoters, coding regions, gene fusion, splice sites etc."
},
{
"id": 12,
"uri": "http://edamontology.org/topic_0102",
"label": "Mapping",
"synonyms": [
"Linkage",
"Synteny",
"Genetic linkage",
"Linkage mapping"
],
"description": "The mapping of complete (typically nucleotide) sequences. Mapping (in the sense of short read alignment, or more generally, just alignment) has application in RNA-Seq analysis (mapping of transcriptomics reads), variant discovery (e.g. mapping of exome capture), and re-sequencing (mapping of WGS reads)."
},
{
"id": 118,
"uri": "http://edamontology.org/topic_0099",
"label": "RNA",
"synonyms": [
"Small RNA"
],
"description": "RNA sequences and structures."
},
{
"id": 39,
"uri": "http://edamontology.org/topic_0097",
"label": "Nucleic acid structure analysis",
"synonyms": [
"DNA structure",
"Nucleic acid structure",
"Nucleic acid denaturation",
"DNA melting",
"RNA structure alignment",
"RNA structure",
"Nucleic acid thermodynamics",
"RNA alignment"
],
"description": "The archival, curation, processing and analysis of nucleic acid structural information, such as whole structures, structural features and alignments, and associated annotation."
},
{
"id": 18,
"uri": "http://edamontology.org/topic_0092",
"label": "Data visualisation",
"synonyms": [
"Data rendering"
],
"description": "Rendering (drawing on a computer screen) or visualisation of molecular sequences, structures or other biomolecular data."
},
{
"id": 88,
"uri": "http://edamontology.org/topic_0091",
"label": "Bioinformatics",
"synonyms": null,
"description": "The archival, curation, processing and analysis of complex biological data."
},
{
"id": 55,
"uri": "http://edamontology.org/topic_0089",
"label": "Ontology and terminology",
"synonyms": [
"Upper ontology",
"Terminology",
"Ontology",
"Ontologies",
"Ontology relations",
"Applied ontology"
],
"description": "The conceptualisation, categorisation and nomenclature (naming) of entities or phenomena within biology or bioinformatics. This includes formal ontologies, controlled vocabularies, structured glossary, symbols and terminology or other related resource."
}
]
}