II.
Specialization JSON
Structured · livespecialization:biomedical-informatics
Biomedical Informatics json
Inspect the normalized record payload exactly as the atlas UI reads it.
{
"id": "specialization:biomedical-informatics",
"_kind": "Specialization",
"_file": "domain/specializations/specializations-science.yaml",
"_cluster": "domain",
"attributes": {
"displayName": "Biomedical Informatics",
"parentDomainId": "domain:bioinformatics",
"description": "Integration of biomedical data sources — EHR records, genomic datasets,\nimaging studies, and clinical trial data — into analytical and decision-support\nsystems. Applies sequence analysis, natural language processing on clinical\ntext, and ML-driven phenotyping to enable precision medicine and translational\nresearch. Spans standards such as HL7 FHIR, OMOP CDM, and SNOMED CT while\nmaintaining HIPAA and GDPR compliance across data pipelines.\n"
},
"outgoingEdges": [
{
"from": "specialization:biomedical-informatics",
"to": "domain:bioinformatics",
"kind": "specializes"
}
],
"incomingEdges": [
{
"from": "domain:bioinformatics",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:precision-medicine",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:clinical-trials",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:genomics",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:neuroscience",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:biotech",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "domain:pharmaceuticals",
"to": "specialization:biomedical-informatics",
"kind": "contains"
},
{
"from": "skill-area:medical-agent",
"to": "specialization:biomedical-informatics",
"kind": "applies_to",
"attributes": {
"confidence": "secondary"
}
},
{
"from": "lib-agent:bioinformatics--bioinformatics-devops-engineer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--bioinformatics-project-planner",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--bioinformatics-qa-engineer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--clinical-genomics-specialist",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--crispr-screen-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--data-governance-officer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--long-read-specialist",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--metagenomics-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--microbiome-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--multi-omics-integrator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--ngs-experiment-designer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--oncology-genomics-specialist",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--pharmacogenomics-specialist",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--pipeline-validation-engineer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--proteomics-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--rare-disease-diagnostician",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--reproducibility-engineer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--rnaseq-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--single-cell-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--spatial-transcriptomics-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--structural-biology-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--structural-variant-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--variant-analyst",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-agent:bioinformatics--wgs-pipeline-operator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--16s-microbiome-analysis",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--clinical-variant-interpretation",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--crispr-screen-analysis",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--genomic-data-governance",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--long-read-analysis",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--molecular-docking",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--ms-proteomics-pipeline",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--multi-omics-integration",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--newborn-screening-genomics",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--pharmacogenomics-analysis",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--pipeline-validation",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--protein-structure-prediction",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--rare-disease-diagnostics",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--reproducible-research",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--rnaseq-differential-expression",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--scrnaseq-analysis",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--shotgun-metagenomics",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--spatial-transcriptomics",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--tumor-molecular-profiling",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-process:bioinformatics--wgs-analysis-pipeline",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--acmg-variant-classifier",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--alphafold-predictor",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--autodock-docking-engine",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--blast-sequence-search",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--bwa-aligner",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--cellranger-processor",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--clinvar-querier",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--deepvariant-caller",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--deseq2-differential-expression",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--fastqc-quality-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--fusion-gene-detector",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--ga4gh-standards-validator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--gatk-variant-caller",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--giab-benchmark-validator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--gsea-pathway-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--hipaa-compliance-validator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--hpo-phenotype-matcher",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--humann-functional-profiler",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--igv-genome-browser",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--kraken2-taxonomic-classifier",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--mageck-crispr-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--maxquant-processor",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--megahit-assembler",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--metaphlan-profiler",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--nextflow-pipeline-executor",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--perseus-statistical-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--pharmgkb-annotator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--phylogenetics-tree-builder",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--pymol-visualizer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--qiime2-microbiome-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--rdkit-chemoinformatics",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--salmon-quantifier",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--samtools-bam-processor",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--seurat-single-cell-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--singularity-container-manager",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--snakemake-workflow-manager",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--star-rnaseq-aligner",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--string-network-analyzer",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--structural-variant-detector",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--tmb-msi-calculator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--ucsc-genome-browser-querier",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
},
{
"from": "lib-skill:bioinformatics--vep-variant-annotator",
"to": "specialization:biomedical-informatics",
"kind": "lib_belongs_to_specialization",
"attributes": {
"weight": 1
}
}
]
}