About BioWeaver

Small, open tools for exploring genes, comparing species and inspecting the evidence behind a result.

BioWeaver brings together data from the Alliance of Genome Resources 9.1.0, the Disease Ontology, Gene Ontology, ClinVar, gnomAD, UniProt, the International Mouse Phenotyping Consortium, Mouse Genome Informatics, NCBI Gene and FlyBase. Each tool answers a focused research question and makes its sources visible.

Free to use, no account needed. Unresolved and Unseen use human data from ClinVar, gnomAD and UniProt, without a model organism database.

Choose a tool

Loom

Search genes, follow orthologs across species, and explore disease associations, phenotypes and functional annotations. Compare curated evidence with associations inferred through orthology.

Data: Alliance gene, orthology, disease and phenotype records; Disease Ontology and Gene Ontology; gnomAD constraint; IMPC and MGI mouse evidence.

Evidence Map

Compare disease evidence across model species. See which associations have curated support and which come from orthology inference.

Data: Alliance gene–disease annotations and Disease Ontology relationships.

Unresolved

Explore genes with uncertain variant classifications alongside their tolerance of loss of function. Constraint and interpretability are shown separately, without assuming that one predicts the other.

Data: ClinVar gene-summary counts and gnomAD constraint.

Unseen

Inspect gaps in reviewed human protein records: protein-level evidence, function descriptions and Gene Ontology annotations. A missing annotation describes the source record, not everything known about the protein.

Data: reviewed UniProtKB/Swiss-Prot entries and gnomAD constraint.

Evidence audit

Bring a human gene list together across constraint, clinical variant counts, reviewed proteins, disease provenance and mouse models. Preserve duplicate inputs, ambiguous matches and source-specific missing values in your exports.

Data: Alliance, ClinVar, gnomAD, UniProt, IMPC and MGI.

Orthology workbench

Translate gene lists between species, inspect supporting methods, retain alternative mappings and export your selections. The workbench uses Alliance's stringent, DIOPT-derived integration; it does not generate independent orthology predictions.

Data: Alliance gene identifiers and stringent orthology, including named prediction methods and curator contributions.

Evidence Trail

Trace gene–disease annotations to the donors explicitly named by Alliance, with their evidence and references. Negative annotations remain separately visible.

Data: Alliance disease annotation records and gene identifiers.

Cross-species Comparator

Choose ortholog candidates and compare their disease, GO and phenotype evidence. Annotation coverage is shown without turning it into a model-organism ranking.

Data: Alliance; original GO annotation files; gnomAD 4.1.1 MANE constraint; NCBI human gene metadata; FlyBase FB2026_03 functional complementation.

Where the data come from

Alliance of Genome Resources: Gene identities, cross-species orthology, disease associations and phenotype annotations. BioWeaver currently uses release 9.1.0 and retains distinctions between curated and inferred evidence.
Disease Ontology: Standard disease identifiers, names and relationships for browsing disease evidence.
Gene Ontology: Terms describing molecular function, biological processes and cellular components. An annotation's evidence matters as well as its term.
ClinVar: Submitted variant classifications and gene-level counts, including uncertain and conflicting classifications. Gene-summary counts are not interpretations for an individual.
gnomAD: Human variation constraint metrics, including LOEUF and pLI. The Comparator uses 4.1.1; older tools retain 4.0. Values and thresholds should not be mixed across releases. Transcript selection and quality flags remain part of the evidence.
UniProt: Reviewed human protein entries with protein-existence evidence, function descriptions and Gene Ontology annotations.
International Mouse Phenotyping Consortium (IMPC): Mouse knockout viability and production status. Conflicting viability calls are retained rather than collapsed into a single conclusion.
Mouse Genome Informatics (MGI): Mouse gene and allele records, including reported null/knockout alleles. Missing IMPC evidence does not imply that nobody has made a knockout.
DIOPT and contributing orthology sources: Alliance's orthology integration brings together prediction methods and curator evidence. The workbench preserves their names and support counts; those counts are not probabilities.
NCBI Gene: Human gene types, descriptions, symbols and source modification dates, joined through unique NCBI Gene identifiers.
FlyBase: Functional complementation records from FB2026_03, retaining the foreign-gene identifiers and references. These experiments provide context, not a claim of complete functional equivalence.

Reading and reusing the evidence

Missing, unavailable, ambiguous and filtered records mean different things. No matched record is not proof that nobody has studied a gene. Curated associations and orthology-inferred associations are kept distinct, and evidence is not reduced to a single importance score.

Sources update on their own schedules. Consult each tool's source notes and snapshot metadata for the version behind a result. The evidence audit and orthology workbench include source fingerprints in session downloads; a build date does not replace an unknown source date.

Gene lists submitted to the evidence audit and orthology workbench are processed in your browser. Source databases retain their own attribution and reuse requirements. See the source and reuse notes, and cite the original data providers when using their records.