{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2026:VJ7TOEZSFJ7WPGQSOHFTCJDYB2","short_pith_number":"pith:VJ7TOEZS","canonical_record":{"source":{"id":"2606.10080","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-06-08T18:54:31Z","cross_cats_sorted":["cs.AI","q-bio.QM"],"title_canon_sha256":"3d5d5fe75321be9b6df53c331612c8edf10605734929f010e8ad020215e2d5b0","abstract_canon_sha256":"18664f832b4cf952af3067c5ebbf270732d8f12151479787b96dfa0d9553fe67"},"schema_version":"1.0"},"canonical_sha256":"aa7f3713322a7f679a1271cb3124780ebdb6d02b841cdf6d30175bd4315bfc57","source":{"kind":"arxiv","id":"2606.10080","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2606.10080","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"arxiv_version","alias_value":"2606.10080v1","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2606.10080","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_12","alias_value":"VJ7TOEZSFJ7W","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_16","alias_value":"VJ7TOEZSFJ7WPGQS","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_8","alias_value":"VJ7TOEZS","created_at":"2026-06-10T00:08:48Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2026:VJ7TOEZSFJ7WPGQSOHFTCJDYB2","target":"record","payload":{"canonical_record":{"source":{"id":"2606.10080","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-06-08T18:54:31Z","cross_cats_sorted":["cs.AI","q-bio.QM"],"title_canon_sha256":"3d5d5fe75321be9b6df53c331612c8edf10605734929f010e8ad020215e2d5b0","abstract_canon_sha256":"18664f832b4cf952af3067c5ebbf270732d8f12151479787b96dfa0d9553fe67"},"schema_version":"1.0"},"canonical_sha256":"aa7f3713322a7f679a1271cb3124780ebdb6d02b841cdf6d30175bd4315bfc57","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-06-10T00:08:48.304653Z","signature_b64":"Be52f7wyUASoZ5OZD7hvk+I9XBzIiByMVQJjaSaQmIol2foxVOIAs71TMU4F2gfFbi/VJeWhHwAlIkec+7UEDQ==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"aa7f3713322a7f679a1271cb3124780ebdb6d02b841cdf6d30175bd4315bfc57","last_reissued_at":"2026-06-10T00:08:48.303773Z","signature_status":"signed_v1","first_computed_at":"2026-06-10T00:08:48.303773Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2606.10080","source_version":1,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-06-10T00:08:48Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"+5j2eOkBrsXPVxyTQYga5PwGc3+3v8ZerpHCOl7TLXbGlqVlzXSrexs4yEaIjs/f1qDjp6pkk+U7g0fP2TncDw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-03T09:31:01.730819Z"},"content_sha256":"76fc709a2729760015c121cdb066f53e47aa0d66a3aac93032d575393f509122","schema_version":"1.0","event_id":"sha256:76fc709a2729760015c121cdb066f53e47aa0d66a3aac93032d575393f509122"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2026:VJ7TOEZSFJ7WPGQSOHFTCJDYB2","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"VFUSE: Virulent Feature Understanding with Sparse autoEncoders","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":["cs.AI","q-bio.QM"],"primary_cat":"cs.LG","authors_text":"Matthew L. Olson, Michael Yu","submitted_at":"2026-06-08T18:54:31Z","abstract_excerpt":"Generative models have shown remarkable progress in a variety of domains such as protein design, but such power enables the opaque generation of hazardous proteins. In this work, we introduce VFUSE (Virulent Feature Understanding with Sparse autoEncoders), a mechanistic interpretability approach that trains SAEs on diffusion-transformer activations to audit protein models for hazard-aware features. We apply VFUSE to RoseTTAFold3 and RFDiffusion3, popular open-weight models for protein folding and synthesis. We find that for certain blocks, linear probes detect hazardous designs significantly b"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2606.10080","kind":"arxiv","version":1},"verdict":{"id":null,"model_set":{},"created_at":null,"strongest_claim":"","one_line_summary":"","pipeline_version":null,"weakest_assumption":"","pith_extraction_headline":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2606.10080/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"references":{"count":0,"sample":[],"resolved_work":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","internal_anchors":0},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"author_claims":{"count":0,"strong_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"builder_version":"pith-number-builder-2026-05-17-v1"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-06-10T00:08:48Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"8GqoIyliLlHnDrrJEn6LOOfCmVmhF+guI8PjPWaly/N0n5JKEuy4CPZTX1sz7pS9F+cRgFXxJIXHFlNh/fvKCw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-03T09:31:01.731187Z"},"content_sha256":"a9596444781839a0e0edcb57f8ba1be9e6665798d7ce6610b9d34d1da9b8b425","schema_version":"1.0","event_id":"sha256:a9596444781839a0e0edcb57f8ba1be9e6665798d7ce6610b9d34d1da9b8b425"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/bundle.json","state_url":"https://pith.science/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/bundle.json","status":"primary"}],"public_keys":[{"key_id":"pith-v1-2026-05","algorithm":"ed25519","format":"raw","public_key_b64":"stVStoiQhXFxp4s2pdzPNoqVNBMojDU/fJ2db5S3CbM=","public_key_hex":"b2d552b68890857171a78b36a5dccf368a953413288c353f7c9d9d6f94b709b3","fingerprint_sha256_b32_first128bits":"RVFV5Z2OI2J3ZUO7ERDEBCYNKS","fingerprint_sha256_hex":"8d4b5ee74e4693bcd1df2446408b0d54","rotates_at":null,"url":"https://pith.science/pith-signing-key.json","notes":"Pith uses this Ed25519 key to sign canonical record SHA-256 digests. Verify with: ed25519_verify(public_key, message=canonical_sha256_bytes, signature=base64decode(signature_b64))."}],"merge_version":"pith-open-graph-merge-v1","built_at":"2026-07-03T09:31:01Z","links":{"resolver":"https://pith.science/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2","bundle":"https://pith.science/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/bundle.json","state":"https://pith.science/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/state.json","well_known_bundle":"https://pith.science/.well-known/pith/VJ7TOEZSFJ7WPGQSOHFTCJDYB2/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2026:VJ7TOEZSFJ7WPGQSOHFTCJDYB2","merge_version":"pith-open-graph-merge-v1","event_count":2,"valid_event_count":2,"invalid_event_count":0,"equivocation_count":0,"current":{"canonical_record":{"metadata":{"abstract_canon_sha256":"18664f832b4cf952af3067c5ebbf270732d8f12151479787b96dfa0d9553fe67","cross_cats_sorted":["cs.AI","q-bio.QM"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-06-08T18:54:31Z","title_canon_sha256":"3d5d5fe75321be9b6df53c331612c8edf10605734929f010e8ad020215e2d5b0"},"schema_version":"1.0","source":{"id":"2606.10080","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2606.10080","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"arxiv_version","alias_value":"2606.10080v1","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2606.10080","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_12","alias_value":"VJ7TOEZSFJ7W","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_16","alias_value":"VJ7TOEZSFJ7WPGQS","created_at":"2026-06-10T00:08:48Z"},{"alias_kind":"pith_short_8","alias_value":"VJ7TOEZS","created_at":"2026-06-10T00:08:48Z"}],"graph_snapshots":[{"event_id":"sha256:a9596444781839a0e0edcb57f8ba1be9e6665798d7ce6610b9d34d1da9b8b425","target":"graph","created_at":"2026-06-10T00:08:48Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"graph_snapshot":{"author_claims":{"count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","strong_count":0},"builder_version":"pith-number-builder-2026-05-17-v1","claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"integrity":{"available":true,"clean":true,"detectors_run":[],"endpoint":"/pith/2606.10080/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Generative models have shown remarkable progress in a variety of domains such as protein design, but such power enables the opaque generation of hazardous proteins. In this work, we introduce VFUSE (Virulent Feature Understanding with Sparse autoEncoders), a mechanistic interpretability approach that trains SAEs on diffusion-transformer activations to audit protein models for hazard-aware features. We apply VFUSE to RoseTTAFold3 and RFDiffusion3, popular open-weight models for protein folding and synthesis. We find that for certain blocks, linear probes detect hazardous designs significantly b","authors_text":"Matthew L. Olson, Michael Yu","cross_cats":["cs.AI","q-bio.QM"],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-06-08T18:54:31Z","title":"VFUSE: Virulent Feature Understanding with Sparse autoEncoders"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2606.10080","kind":"arxiv","version":1},"verdict":{"created_at":null,"id":null,"model_set":{},"one_line_summary":"","pipeline_version":null,"pith_extraction_headline":"","strongest_claim":"","weakest_assumption":""}},"verdict_id":null}}],"author_attestations":[],"timestamp_anchors":[],"storage_attestations":[],"citation_signatures":[],"replication_records":[],"corrections":[],"mirror_hints":[],"record_created":{"event_id":"sha256:76fc709a2729760015c121cdb066f53e47aa0d66a3aac93032d575393f509122","target":"record","created_at":"2026-06-10T00:08:48Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"attestation_state":"computed","canonical_record":{"metadata":{"abstract_canon_sha256":"18664f832b4cf952af3067c5ebbf270732d8f12151479787b96dfa0d9553fe67","cross_cats_sorted":["cs.AI","q-bio.QM"],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"cs.LG","submitted_at":"2026-06-08T18:54:31Z","title_canon_sha256":"3d5d5fe75321be9b6df53c331612c8edf10605734929f010e8ad020215e2d5b0"},"schema_version":"1.0","source":{"id":"2606.10080","kind":"arxiv","version":1}},"canonical_sha256":"aa7f3713322a7f679a1271cb3124780ebdb6d02b841cdf6d30175bd4315bfc57","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"aa7f3713322a7f679a1271cb3124780ebdb6d02b841cdf6d30175bd4315bfc57","first_computed_at":"2026-06-10T00:08:48.303773Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-06-10T00:08:48.303773Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"Be52f7wyUASoZ5OZD7hvk+I9XBzIiByMVQJjaSaQmIol2foxVOIAs71TMU4F2gfFbi/VJeWhHwAlIkec+7UEDQ==","signature_status":"signed_v1","signed_at":"2026-06-10T00:08:48.304653Z","signed_message":"canonical_sha256_bytes"},"source_id":"2606.10080","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:76fc709a2729760015c121cdb066f53e47aa0d66a3aac93032d575393f509122","sha256:a9596444781839a0e0edcb57f8ba1be9e6665798d7ce6610b9d34d1da9b8b425"],"state_sha256":"1a49c869e5023a8b644bcfcad162b5e637dae526acb42fee4cd8de7aaedbfd5a"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"JtPMG39xpbJkxagJRo8DcmToKJ5IHzFImAb92CoiGX844rkWJF5GrPYRytWDkGMCninLwR8XAAQ0mVrJ5WGZDw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-03T09:31:01.733156Z","bundle_sha256":"cb08c61da2987da9b6417ab2b3addecf11beda0eaa1cdd2689e90f0e5865f33a"}}