Attribution & Licenses
Open-source components and AI model providers used by Surface 2.
| Component | Use | Provider | License | Link | Attribution |
|---|---|---|---|---|---|
| AlphaFold DB Precomputed models retrieved as Reference Evidence, never new inference. The model version comes from the database's own prediction record; this product pins none. Coordinate and predicted-aligned-error files are retrieved by our servers too, so your browser never contacts EMBL-EBI for them. | Server retrieval | EMBL-EBI | CC BY 4.0 | alphafold.ebi.ac.uk | Jumper et al., Nature 2021 |
| AlphaMissense Per-substitution research predictions published with AlphaFold DB entries. Source classes are displayed verbatim and are not clinical interpretations. | Server retrieval | Google DeepMind / EMBL-EBI | CC BY 4.0 | alphafold.ebi.ac.uk | Cheng et al., Science 2023 |
| InterPro Integrated domains and families retain their distinct Pfam, CDD, PROSITE and other member-database signatures. Coordinates are UniProt canonical, 1-based and inclusive. | Server retrieval | EMBL-EBI | CC0 (InterPro data) | www.ebi.ac.uk/interpro/ | Paysan-Lafosse et al., NAR 2025 |
| STRING Functional protein associations from the versioned STRING API. The displayed combined score is association confidence, not affinity or binding strength; every evidence-channel score and STRING's identifier mapping is retained. | Server retrieval | STRING Consortium | CC BY 4.0 | string-db.org/ | Szklarczyk et al., NAR 2025 |
| Reactome Curated pathway participation mapped from exact UniProt accessions. Every row carries the Reactome release, species and disease-pathway flag; participation is not presented as disease causation. | Server retrieval | Reactome Consortium | CC0 | reactome.org/ | Gillespie et al., NAR 2022 |
| Human Protein Atlas Selected gene-specific RNA tissue nTPM values and classification. Antibody/IHC reliability is shown separately and does not rate the RNA values. | Server retrieval | Human Protein Atlas | CC BY 4.0 for HPA-owned content; embedded third-party datasets may differ | www.proteinatlas.org/ | Human Protein Atlas |
| GTEx Tissue median TPM retrieved under v10/GENCODE v39. No controlled-access files are retrieved; these values are not compared numerically with HPA nTPM. | Server retrieval | GTEx Consortium | Open summary expression; raw genotype and donor-level data controlled-access | gtexportal.org/ | GTEx Analysis v10 |
| Gene Expression Omnibus Searches human GEO Series metadata for the exact mapped gene symbol. Results are study mentions, not gene expression measurements. | Server retrieval | NCBI | NCBI government records public; submitted-study rights may differ | www.ncbi.nlm.nih.gov/geo/ | NCBI GEO |
| Expression Atlas The target panel links to Atlas search by UniProt accession. No in-app numeric retrieval is claimed because a current stable per-gene API contract was not verified. | Outbound link | EMBL-EBI | Open portal; individual experiment terms may differ | www.ebi.ac.uk/gxa/ | EMBL-EBI Expression Atlas |
| ClinicalTrials.gov A bounded, paginated registry search for dossier clinical context. Every study keeps its recruitment status and results-posted flag; registration is not presented as evidence that an intervention worked. This does not search WHO ICTRP or other registries. | Server retrieval | U.S. National Library of Medicine | Public domain (study records) | clinicaltrials.gov/ | ClinicalTrials.gov API v2 |
| FDA FAERS (openFDA) Exact uppercase reported medicinal-product-name searches only. Voluntary reports are incomplete and may be duplicated; report counts are not incidence, risk, causality or a basis for comparing drugs. The current openFDA source update date and our retrieval date are separate. | Server retrieval | U.S. Food and Drug Administration | FDA-origin public-domain/CC0 data; third-party material may differ | open.fda.gov/apis/drug/event/ | FDA openFDA drug adverse-event endpoint |
| ClinPGx (formerly PharmGKB) A cited CFTR–ivacaftor annotation can be opened on ClinPGx. No annotation content is retrieved into this product or included in exports while commercial display/redistribution permission remains unresolved. | Outbound link | ClinPGx / PharmGKB | CC BY-SA 4.0 plus explicit no-sale/no-resale condition; paid in-app use needs written clarification | www.clinpgx.org/ | ClinPGx |
| Ensembl VEP GRCh38 single-nucleotide consequences are retrieved by exact coordinate. Transcript-specific consequences and HGVS values remain distinct; they are not clinical interpretations. | Server retrieval | EMBL-EBI / Ensembl | Ensembl data unrestricted; third-party annotations may differ | www.ensembl.org/ | Ensembl Variant Effect Predictor |
| ClinVar The VCV aggregate, review status and individual SCV classifications are displayed with source version and retrieval date. A contested interpretation is shown as contested; it is not an application verdict. | Server retrieval | NCBI | Public record; submitters retain their individual assertions | www.ncbi.nlm.nih.gov/clinvar/ | ClinVar / NCBI |
| gnomAD The gnomad_r4 GraphQL dataset is queried on GRCh38. Genome and exome allele counts, denominators and frequencies are kept separate. Absence in this dataset is not negative clinical evidence. | Server retrieval | Broad Institute | Public summary data; see gnomAD policies | gnomad.broadinstitute.org/ | Genome Aggregation Database |
| dbSNP The RefSNP JSON record is retrieved by exact rs identifier. Active, merged and withdrawn states and assembly placements are displayed. dbSNP does not supply a clinical interpretation here. | Server retrieval | NCBI | Public record | www.ncbi.nlm.nih.gov/snp/ | NCBI dbSNP |
| RCSB PDB Entry metadata, SIFTS chain-to-UniProt mappings, similarity search and structure files all run on our servers. Experimental temperature factors are kept distinct from computed-model pLDDT. An entry that was made obsolete is reported with the identifier that replaced it, rather than as missing. | Server retrieval | RCSB | CC0 | rcsb.org | Berman et al., NAR 2000 |
| ChEMBL Measured activities, retrieved on our servers and reported with the endpoint, relation and units the source gives. The ChEMBL release each value came from is recorded, because ChEMBL restandardises values between releases. | Server retrieval | EMBL-EBI | CC BY-SA 3.0 | www.ebi.ac.uk/chembl | Zdrazil et al., NAR 2024 |
| PubMed Search results and quoted abstract openings, retrieved on our servers under a contact identity NCBI can see. The product does not synthesise findings from them. | Server retrieval | NCBI | Public domain (records) | pubmed.ncbi.nlm.nih.gov | — |
| Crossref Citation metadata by DOI, including any correction or retraction issued against a work. A retracted citation is labelled as retracted wherever it appears. | Server retrieval | Crossref | Metadata freely available | www.crossref.org | — |
| PubChem The Run wizard can check a ligand name or CID before submission without rewriting the submitted CCD code or case-sensitive SMILES. Both the stereochemical and the connectivity-only structures are kept, since they are different molecules, and only the stereochemical SMILES is presented as the compound structure. Depictions of PubChem compounds are labelled images your browser loads from PubChem; ChEMBL molecules are depicted by ChEMBL, because a ChEMBL identifier is not a PubChem CID. | Server retrieval | NIH / NCBI | Public domain (records) | pubchem.ncbi.nlm.nih.gov | Kim et al., NAR 2023 |
| ESMFold Listed for completeness. Surface 2 does not call it and produces no ESMFold structures. | Not integrated | Meta AI | MIT | esmatlas.com | Lin et al., Science 2023 |
| Open Targets Client code exists and is unreachable. No product surface uses it. | Not integrated | Open Targets | CC0 | platform.opentargets.org | Ochoa et al., NAR 2023 |
| Mol* Viewer | Bundled | PDBe / RCSB | MIT | molstar.org | Sehnal et al., NAR 2021 |
| Inter Font | Bundled | Rasmus Andersson | SIL OFL | rsms.me/inter | — |
| JetBrains Mono | Bundled | JetBrains | SIL OFL | jetbrains.com/mono | — |
| React | Bundled | Meta | MIT | react.dev | — |
| Ensembl Plants Exact stable gene ID lookup on the unified Ensembl REST service. Species, taxon, assembly and division are checked against genome metadata; data_release_id is displayed as a provider metadata ID, not mislabelled as the public Plants website release number. | Server retrieval | EMBL-EBI / Ensembl Genomes | Project-generated Ensembl data unrestricted; embedded third-party annotations may differ | plants.ensembl.org/ | Ensembl Genomes and the exact gene/data-release record |
| Gramene Co-developed with Ensembl Plants, but its separately documented gene/pathway APIs did not pass a current live probe. No Gramene content is retrieved or presented as Ensembl Plants data. | Outbound link | Gramene | Data-specific terms; Plant Reactome content is CC BY 3.0 | gramene.org/ | Gramene |
| Animal QTLdb The official site was under maintenance and a documented API endpoint timed out in the 2026-09-23 check. No trait/QTL records are imported; a QTL association would not establish a causal gene. | Outbound link | Animal Genome / Animal QTLdb | CC BY 4.0 with release-specific citation | www.animalgenome.org/QTLdb/ | Animal QTLdb |
| WOAH WAHIS Official Member-reported animal-disease portal. Exceptional alerts, six-monthly monitoring and annual reports have different cadence; reporting gaps are not zero events. No supported public read API was verified. | Outbound link | World Organisation for Animal Health | Public analysis described by WOAH; commercial republication terms not established | wahis.woah.org/ | WOAH WAHIS |
| FAO global EMPRES-i+ Global public portal, not a live app feed. It includes WAHIS-origin events, so those feeds cannot be counted as independent signals. No event data are imported while extraction contract and paid-product reuse rights are unverified. | Outbound link | Food and Agriculture Organization of the United Nations | Database default CC BY 4.0, with explicit commercial-promotion and third-party-rights restrictions | data.apps.fao.org/empres-i/ | FAO global EMPRES-i+ |
Surface 2 is a research platform, not a model provider. We do not host, train, redistribute, or modify any AI model weights.
Server retrieval means our servers call the source, identifying themselves with a contact address. Browser retrieval means your browser calls it directly. Bundled means the code ships with the application and makes no call. Not integrated means exactly that: the entry is listed so this page stays a complete inventory, and the product does not use it.