BioPhi on the platform

Scoring humanness tells you a candidate is too murine; the next thing you need is a sequence that fixes it without breaking the CDRs. BioPhi does both — it scores humanness with the OASis metric and then humanizes the sequence, either with the Sapiens deep-learning model or by classic CDR grafting, and the Sapiens path can hold binding residues fixed while it rewrites the rest. It is the humanize-and-score workhorse of the antibody engineering cluster.

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What BioPhi does

BioPhi is one backend behind three separate tools, one per mode — which tool you call is what selects the mode; it isn't a parameter you set. biophi_humanness scores a VH/VL pair against the OASis database, reports an OASis percentile, classifies the antibody as human, humanized, chimeric, or murine, and breaks the humanness down per CDR and per framework region. biophi_humanize uses the Sapiens deep-learning model to rewrite the sequence toward a target humanness, returning the humanized VH/VL and the mutations it made, and can hold known binding residues fixed while it does. biophi_graft humanizes by classic CDR grafting.

Citations

Prihoda D, Maamary J, Waight A, Juan V, Fayadat-Dilman L, Svozil D, Bitton DA. BioPhi: A platform for antibody design, humanization, and humanness evaluation based on natural antibody repertoires and deep learning. mAbs. 2022;14(1):2020203. doi: 10.1080/19420862.2021.2020203

When to reach for it

• Humanization — you have a murine or chimeric candidate and need a humanized sequence.
• OASis humanness assessment — you want the OASis percentile and human/humanized/chimeric/murine classification.
• Immunogenicity reduction — you want to lower predicted immunogenicity while keeping the CDRs intact.

Reach for Humatch instead when you only need a fast humanness score and don't need the sequence rewritten. The two are complementary: Humatch and BioPhi are frequently run together for a two-metric humanness read. BioPhi chains forward into admet_ai_predict and diffdock_dock, and pairs with anarci_number and antibody_developability.

How it fits the workflow

BioPhi is the act-on-it step after scoring. A typical arc is anarci_number → biophi_humanize → antibody_developability: number the sequence, humanize it, then confirm the humanized candidate is still manufacturable. Because humanization can shift charge and aggregation, following BioPhi with a developability check is the standard guardrail.

How it runs

BioPhi runs as an asynchronous CPU job on Modal compute. You submit a VH (and optionally VL) sequence, the platform tracks and polls the job, and a result card lands on the canvas when it finishes — typically in tens of seconds to a couple of minutes.

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