{"as_of":"2026-08-10T17:49:00Z","caps":{"database_statements":6,"inbound":100,"outbound":100},"context_digest":"sha256:3b48d5a7fa9218bc80f519a0fc9e660a5d9af21356b92ecbe5798e3facec2d55","coverage":[{"denominator":53,"lane":"reference_resolution","note":"Typed states for the displayed outbound observations.","records_observed":53,"source":"paper_references, paper_reference_links","source_observed_at":"2026-08-01T15:54:12.959884Z","state":"measured"},{"denominator":53,"lane":"standing_notices","note":"One-hop event checks from named stored sources.","records_observed":53,"source":"scholarly_work_events, retraction_status_cache","source_observed_at":"2026-08-10T06:31:04.303077+00:00","state":"measured"},{"denominator":0,"lane":"inbound_itemization","note":"Pith citing papers itemized under the disclosed page cap.","records_observed":0,"source":"paper_references, paper_reference_links","source_observed_at":null,"state":"measured"},{"denominator":1,"lane":"external_citation_measurements","note":"A source-named dated measurement, never combined with another source.","records_observed":0,"source":"cited_works","source_observed_at":null,"state":"measured"}],"external_citation_measurements":[],"inbound":[],"links":{"evidence":"/evidence","html":"/paper/2607.18144/citation-record","integrity":"/paper/2607.18144/integrity","json":"/paper/2607.18144/citation-record.json","paper":"/paper/2607.18144"},"outbound":[{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.133503Z","title":"Pocket2Mol: Efficient molecular sampling based on 3D protein pockets","venue":null,"work_id":null,"year":2022},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":1,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.133503Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:5adb7baa620eab9c939c66c31f56e5bb7ab5ab0399a0eff0ec4cdb5973db1631","observation_id":"0007c43a-5b88-430c-9272-95a23471b9bb","resolution":{"observed_at":"2026-08-01T15:54:06.133503Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.231745Z","title":"3D equivariant diffusion for target-aware molecule generation and affinity prediction","venue":null,"work_id":null,"year":2023},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":2,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.231745Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:c497402ee0189db6d0e76d27db43329583d5f6138605c6749c6fdd003844e0b2","observation_id":"8881c6ca-eb0b-42ce-b79e-d36fb1ae8eab","resolution":{"observed_at":"2026-08-01T15:54:06.231745Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.339475Z","title":"Blundell, Pietro Lio, Max Welling, Michael Bronstein, and Bruno Correia","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":3,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.339475Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:8168e5db886c8cc29fa33da0ebf18e3fd114454c715a05b4db444f31e9a466df","observation_id":"df3ed84e-3db6-4330-9f44-89cae312828a","resolution":{"observed_at":"2026-08-01T15:54:06.339475Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1038/s41467-024-46569-1","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"A dual diffusion model enables 3d molecule generation and lead optimization based on target pockets.Nature Communications, 15(1):2657, Mar 2024","venue":"Nature Communications","work_id":"abacbc04-e503-4c90-87a1-c32b548f4b89","year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":4,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.445325Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:9bda7e42ac35e3c805bb1427f9e5920e7c37e993f4063ed270cbcf6b8f8f52f7","observation_id":"bedb7919-2ba1-4602-a198-0d39e8314ceb","resolution":{"observed_at":"2026-08-01T15:58:33.067940Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.522472Z","title":"Aligning target-aware molecule diffusion models with exact energy optimization","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":5,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.522472Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:27bacd4f66fe210ddbf14785df80b4b6134336f86932f03f43c17d818219f6b4","observation_id":"eabcab87-e180-4d3e-8428-5d19f6b0b896","resolution":{"observed_at":"2026-08-01T15:54:06.522472Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1186/s13321-025-01123-z","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"SGEDiff: a subgraph-enriched diffusion model for structure-based 3d molecular generation.Journal of Cheminformatics, 17(1):175, Dec 2025","venue":"Journal of Cheminformatics","work_id":"2c54cd07-3d62-401f-a866-1af052cbba34","year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":6,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.606104Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:eefe5dbfe081af502bf079231ddf33f388d8ecb83d08e7a7e34158c30e9ecdf6","observation_id":"e41722be-228a-4279-abb4-769512d9976e","resolution":{"observed_at":"2026-08-01T15:58:32.945355Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1126/sciadv.ady9955","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Steering semi-flexible molecular diffusion model for structure-based drug design with reinforcement learning.Science Advances, 12(16):eady9955, 2026","venue":"Science Advances","work_id":"0eb841e5-8a2c-464e-8098-13b17e40f9f4","year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":7,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.697082Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:74892220c583e7c5cb09d9a9b1102abd7e4112ffefdd6f593858938e5cd3b2b2","observation_id":"1270cfb6-a9cb-451f-929d-de8fada84825","resolution":{"observed_at":"2026-08-01T15:58:32.794407Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.785877Z","title":"DiffDec: Structure-aware scaffold decoration with an end-to-end diffusion model.Journal of Chemical Information and Modeling, 64(7):2554–2564, 2024","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":8,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.785877Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:d0da354236a45dc70304104e1a072927ffa6492d3023e6382a876fd1a7a2db29","observation_id":"f9af9fca-0493-401f-aaaa-fb0633505e07","resolution":{"observed_at":"2026-08-01T15:54:06.785877Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.911505Z","title":"Protein-ligand interaction prior for binding- aware 3d molecule diffusion models","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":9,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.911505Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:f5675713d80b6af8adaac2f96b870159a0261fc3c112deb218f2c888df30c64a","observation_id":"98462f00-c5a8-4b38-b80e-2e586acd461c","resolution":{"observed_at":"2026-08-01T15:54:06.911505Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:06.991911Z","title":null,"venue":null,"work_id":null,"year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":10,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:06.991911Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:1d5bdef5254f96fd62c5888c12e7260c9d8ac70f7f23c74f5997894c71d30ec2","observation_id":"0fb09f76-7935-4986-87cc-d4abc308bcb2","resolution":{"observed_at":"2026-08-01T15:54:06.991911Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1038/s44386-026-00040-x","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Interaction-constrained 3d molec- ular generation using a diffusion model enables structure-based pharmacophore model- ing for drug design.npj Drug Discovery, 3(1):8, Mar 2026","venue":"npj Drug Discovery.","work_id":"8d938c72-1c74-4df9-a63b-1576891a2d18","year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":11,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.147400Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:38cb594b84726b47563bc72e33c8659b3963af41ef496670ad1529538ca54b2b","observation_id":"1bd725c1-79cd-49ab-904c-f242fb874543","resolution":{"observed_at":"2026-08-01T15:58:32.659913Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:07.238170Z","title":"Cassady, Michael A","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":12,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.238170Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:40c688a9834191d87ffc734acfbfc7859796efbfd739187bfdc5b9c1092e21f5","observation_id":"16150835-d0f1-42c4-a946-4ed2414876c6","resolution":{"observed_at":"2026-08-01T15:54:07.238170Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:07.319746Z","title":"Conversational drug editing using retrieval and domain feedback","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":13,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.319746Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:36fb7845be74b482bc088f989313d49c02337f70bd7ed5a42728b8b40db4ebdf","observation_id":"bb719584-9bd3-4196-bdfa-cc9bae6cf255","resolution":{"observed_at":"2026-08-01T15:54:07.319746Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:07.472299Z","title":"Baker, Ziqi Chen, Xia Ning, and Huan Sun","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":14,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.472299Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:63fe367e1a0d7d08a9997878ff0966abbf3d990faa4024a65e19d2169f1fa113","observation_id":"597e9dfd-8066-44be-8ada-df609dee3a78","resolution":{"observed_at":"2026-08-01T15:54:07.472299Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:07.596565Z","title":"Language models can generate molecules, materials, and protein binding sites directly in three dimensions as XYZ, CIF, and PDB files,","venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":15,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.596565Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:c28b79c54f5cc814ce577555bbe03d4627dd6686c2941e57c00613d0dcda6756","observation_id":"4ea5aed6-d79e-46e4-bdac-02cbe47cc560","resolution":{"observed_at":"2026-08-01T15:54:07.596565Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1609/aaai.v39i24.34804","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":null,"venue":"Proceedings of the AAAI Conference on Artificial Intelligence","work_id":"d276d264-0293-4141-b7c6-cbe5bb63a1f2","year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":16,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.772376Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:5f8105a818fe056e42502ec44878205527fabb2fe894ad3fa154211991d5e8cb","observation_id":"94d794b6-a126-4741-89b4-ee835a50f18f","resolution":{"observed_at":"2026-08-01T15:58:32.510261Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1609/aaai.v39i23.34613","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"nach0-pc: Multi-task language model with molecular point cloud encoder.Proceedings of the AAAI Conference on Artificial Intelligence, 39(23): 24357–24365, Apr","venue":"Proceedings of the AAAI Conference on Artificial Intelligence","work_id":"b96f78b8-64fc-4207-9f3c-7548b645cb10","year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":17,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.882789Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:4e10ec696a16ea02066855eb6894a6c315140315c6968bd3e1792f2aaa54c787","observation_id":"5e1aa066-97df-4e95-a089-5cfcfe1ccd1a","resolution":{"observed_at":"2026-08-01T15:58:32.366980Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1021/acs.jcim.0c00411","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Francoeur, Tomohide Masuda, Jocelyn Sunseri, Andrew Jia, Richard B","venue":"Journal of Chemical Information and Modeling","work_id":"8f5b1100-9a9a-4345-84e2-8233b1a4a210","year":2020},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":18,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.002354Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:3245069b5df2b7480595e1d5383c4d0a26ef038c99468e951e4af8df8278675f","observation_id":"d416ccfa-d2d6-4f0c-8ff1-df6ec63092ce","resolution":{"observed_at":"2026-08-01T15:58:32.232790Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:08.158376Z","title":"PLINDER: The protein-ligand interactions dataset and resource","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":19,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.158376Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:9dab7345f4e5bf848f5375ecabce33d414ddf86227a2356a6822e62d5013f231","observation_id":"afd50b71-6bfe-40ed-94c6-1704d42a8fee","resolution":{"observed_at":"2026-08-01T15:54:08.158376Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:08.271280Z","title":"The PDBbind database: Methodologies and updates.Journal of Medicinal Chemistry, 48(12):4111–4119,","venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":20,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.271280Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:4ca77c5a82e6ed6069263c4d8b711a5fcd7a84ea894a8475273c1b9e3cc27851","observation_id":"e1b2db8f-a815-458a-bccf-c12d5f9944d1","resolution":{"observed_at":"2026-08-01T15:54:08.271280Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1038/s41598-023-29996-w","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Smith, Anthony J","venue":"Scientific Reports","work_id":"ac81c7a6-d250-4091-9279-2d0409e95c2a","year":2023},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":21,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.558874Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:5c1b0a8fe4e4e825894ab64395e3362fa0380f9057c6aa32ef489cdac53a9b4a","observation_id":"35d96ff3-4609-4061-a62f-d9152d6e6dc5","resolution":{"observed_at":"2026-08-01T15:58:32.052214Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:08.704287Z","title":null,"venue":null,"work_id":null,"year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":22,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.704287Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:05896539d8f6ba96ba9a467020c693caa49cd5d7b3d6c6d3ce2671c45423f234","observation_id":"e400f038-607a-46f7-8407-ee7fc0114069","resolution":{"observed_at":"2026-08-01T15:54:08.704287Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1021/acs.jcim.4c01598","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":null,"venue":"Journal of Chemical Information and Modeling","work_id":"335295d0-22b4-4773-b272-b69d8f5b8a50","year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":23,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.007235Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:c13f20d84fe673bf5e7b9999ebef643d6d0fe0ac76daf8c3a78e3ae100efee77","observation_id":"fa6dfa14-e5fb-4477-9442-9ae9d8bdf641","resolution":{"observed_at":"2026-08-01T15:58:31.895831Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1021/acs.jcim.4c02232","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Durian: A comprehensive benchmark for structure-based 3d molecular generation.Journal of Chemical Information and Modeling, 65(1):173–186, 2025","venue":"Journal of Chemical Information and Modeling","work_id":"9f1b0b18-b94a-4c73-9e21-13c0f9a3dbfe","year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":24,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.184207Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:8c5fcacdd1ff9fb5e82669864931683e14d51e996952ff70b5b845de59a2deec","observation_id":"c309474b-7ba5-4de9-af86-5785ad3a8f77","resolution":{"observed_at":"2026-08-01T15:58:31.762246Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:09.353548Z","title":"MolDiff: Addressing the atom- bond inconsistency problem in 3D molecule diffusion generation","venue":null,"work_id":null,"year":2023},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":25,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.353548Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:c1720d7e14b64930ed4cf9f00bbaf9951de2709be75295e189d5212d1db366ac","observation_id":"b6826d9f-87d1-492a-b0e8-afd3136e275f","resolution":{"observed_at":"2026-08-01T15:54:09.353548Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:09.481328Z","title":null,"venue":null,"work_id":null,"year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":26,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.481328Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:0fc86a163b1ec098da3c14fe827afaced36bc0cdf79e6bef9820a7e597f185ab","observation_id":"21663e6a-d1c8-4834-be55-3f0ef8e3dbdb","resolution":{"observed_at":"2026-08-01T15:54:09.481328Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1609/aaai.v38i11.29162","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Binding-adaptive diffusion models for structure-based drug design.Proceedings of the AAAI Conference on Artificial Intelligence, 38(11):12671–12679, Mar","venue":"Proceedings of the AAAI Conference on Artificial Intelligence","work_id":"01546881-202f-4751-8442-78f0a48b148d","year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":27,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.659503Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:3f972207c2c0c96dcd097bc532eadb1150deabd121aee8f89070b1684c1a5a2f","observation_id":"a776d0ce-9de3-4c8d-a520-d64304754e70","resolution":{"observed_at":"2026-08-01T15:58:31.630069Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1093/bib/bbaf727","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"An effective fragment-based dual conditional diffusion framework for molecular generation.Briefings in Bioinformatics, 27(1): bbaf727, 01 2026","venue":"Briefings in Bioinformatics","work_id":"d8dd88b8-f438-440b-b3d2-db710ca4f004","year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":28,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.819857Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:3101b6246da02e19e6f298813714cef8d3a8aba69717a718ee5bc8fdd4191bd9","observation_id":"6381dd37-bce7-4a21-8686-a099313f71c0","resolution":{"observed_at":"2026-08-01T15:58:31.496751Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:09.989889Z","title":"Berman, John Westbrook, Zukang Feng, Gary Gilliland, T","venue":null,"work_id":null,"year":2000},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":29,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:09.989889Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:816cc0b9c3903b07cbc23072cd076cf9c29e35d4f784279f7c89eec82838e4c1","observation_id":"9c254156-ac2e-45b9-9f93-af8c37fd1479","resolution":{"observed_at":"2026-08-01T15:54:09.989889Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1021/ci00007a012","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Nourse, W","venue":"Journal of Chemical Information and Computer Sciences","work_id":"879140de-db04-4ba3-b891-36717480c24e","year":1992},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":30,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.175396Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:64b9545f12d77d022cefface8329c2ee3166c62b26f1a030db1047d19eb2970b","observation_id":"ac2e1cbd-3be5-46c4-8c57-57bdbe7c6621","resolution":{"observed_at":"2026-08-01T15:58:31.360664Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:10.344483Z","title":"nach0: multimodal natural and chemical languages foundation model","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":31,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.344483Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:c53bdbf745ebd3ce6b0e19f59bc2fa623bb3b3aee547ec8e3974b8701f4d4e61","observation_id":"eb8a7901-3e2a-4501-a303-223812503b59","resolution":{"observed_at":"2026-08-01T15:54:10.344483Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1093/bioinformatics/btr168","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Meireles, and Ivet Bahar","venue":"Bioinformatics","work_id":"027f7dfc-94a6-4e0b-9c79-10fe7fc6fe23","year":2011},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":32,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.504082Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:a9c240a5a86fd70b675e83f971652aeeea81e27a6ea94a61c1562beb698eb9f2","observation_id":"d353b1e0-27e2-4481-9d47-e7630c3349fc","resolution":{"observed_at":"2026-08-01T15:58:31.225831Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:10.641186Z","title":"Scalfani, Daniel Probst, Kazuya Ujihara, guillaume godin, Rachel Walker, Juuso Lehtivarjo, Axel Pahl, Francois Berenger, jasondbiggs, and strets123","venue":null,"work_id":null,"year":2023},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":33,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.641186Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:08c0c3f4c7f48f3ebc6e11e838121d1a027585b4b3b2ee7541cf55ee353111f1","observation_id":"7d1e3636-ae7a-434f-ac9b-18e05534b8fc","resolution":{"observed_at":"2026-08-01T15:54:10.641186Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:10.784992Z","title":null,"venue":null,"work_id":null,"year":2010},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":34,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.784992Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:35bb39673f53b29e456d196345cc9a165101b947c27ff4db6d13b5551fc82caf","observation_id":"612d2de1-0207-4bbb-b728-476e95b932da","resolution":{"observed_at":"2026-08-01T15:54:10.784992Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.1186/s13321-021-00548-6","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"ProLIF: a library to encode molecular interactions as fingerprints.Journal of Cheminformatics, 13(1):72, Sep 2021","venue":"Journal of Cheminformatics","work_id":"907b2cbf-ced8-4faf-8bdf-d49909db31b0","year":2021},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":35,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:10.919167Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:e80ee1291ca5aec3101b6da459831ea2fc49f5b8819202df7aeb205e66964451","observation_id":"3f0f8103-4647-47b7-beea-68bf6e46cf8d","resolution":{"observed_at":"2026-08-01T15:58:31.106689Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[],"observation":"No event found in the named queried sources as of 2026-08-10T06:31:04.303077+00:00.","reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.014734Z","title":"On the art of compiling and using ’drug-like’ chemical fragment spaces.ChemMedChem, 3(10):1503–1507,","venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":36,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.014734Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:2fe03a3338f9b6c53459642eaa35413deb9e5acf93240b15aeceaad2bf93f10e","observation_id":"ae5eb126-ba4d-4837-b104-9b0e5aa39d47","resolution":{"observed_at":"2026-08-01T15:54:11.014734Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":"10.3390/molecules23123094","metadata_source":"openalex","pith_arxiv_id":null,"snapshot_observed_at":"2026-08-05T02:28:24.338817Z","title":"Ligand- based pharmacophore modeling using novel 3d pharmacophore signatures.Molecules, 23 (12), 2018","venue":"Molecules","work_id":"7965174c-6674-47bc-a5dc-cf3785d289f2","year":2018},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":37,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.336662Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:ade3ba62c9c3bf93beea384ed440f353f927c999655cf307c7875edf1e40972e","observation_id":"3c1b9f49-3940-460f-baab-e1f344e27c00","resolution":{"observed_at":"2026-08-01T15:58:30.939017Z","resolver_source":"doi","status":"verified_exact"},"standing_notice":{"events":[{"edge_observation":{"observed_at":"2026-08-01T18:19:44.448946+00:00","source":"paper_reference_links","state":"open"},"event_date":"2019-03-18","event_type":"correction","notice_doi":"10.3390/molecules24061052","provenance":{"observed_at":"2026-07-11T03:04:44.841104+00:00","source":"crossref","source_record_id":"10.3390/molecules24061052->10.3390/molecules23123094:correction"}}],"reason":null,"source_receipts":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"state":"measured"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.499714Z","title":"GPT-5.5 system card, April 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":38,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.499714Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:42e9fb96258d2ede29cef7a0aa9b1951212e78e9e117d3e66120620fabc6e9d5","observation_id":"3d4c14a0-bc60-481e-ac27-72ad644e38c5","resolution":{"observed_at":"2026-08-01T15:54:11.499714Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.619061Z","title":"GPT-5.4 thinking system card, March 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":39,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.619061Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:97ebacf9f504773fa731053e7afb9bae3de052305f83d73402685d214692dd8c","observation_id":"b28fdb6c-7edb-4b5a-a749-08930174d4f9","resolution":{"observed_at":"2026-08-01T15:54:11.619061Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.761908Z","title":"System card: Claude opus 4.7, April 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":40,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.761908Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:719354d7a3abbc51656fb42f18d9e65ea44308ad3af03159ed3c42b92cd51dd7","observation_id":"ca582d07-0c38-4c9a-8702-9ff8a6bf9ef5","resolution":{"observed_at":"2026-08-01T15:54:11.761908Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.908215Z","title":"System card: Claude opus 4.6, February 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":41,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.908215Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:4c4927df836528a33ca5ef85c6b8c5dc810ceca6e4456cccc33a511fa47ea6bf","observation_id":"b78723ac-cd19-4e7c-9c72-e8ee5c3c1474","resolution":{"observed_at":"2026-08-01T15:54:11.908215Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.986685Z","title":"System card: Claude sonnet 4.6, February 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":42,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.986685Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:21fba8ae9506c8214d2cb1381d35dcd579f4c1a842343a4ae9aa96de8093f9ff","observation_id":"b38db337-78a8-48ed-b0ed-4d7330d840d3","resolution":{"observed_at":"2026-08-01T15:54:11.986685Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.076006Z","title":"Gemini 3.1 pro model card, February 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":43,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.076006Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:d71a5c47d4d01016d89fe558277bd622ec30ece20a34e259608bc787eddb177f","observation_id":"1373986f-98b1-4af5-8b5e-f207eb3442d4","resolution":{"observed_at":"2026-08-01T15:54:12.076006Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.114287Z","title":"Grok 4.1 model card, November 2025","venue":null,"work_id":null,"year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":44,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.114287Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:b30c7a383e993e4f31d9f96d05588ff56e6dd95a88faf6b0cb1e265d63105a40","observation_id":"7bd45712-9659-493b-89ed-049aa5ca54a1","resolution":{"observed_at":"2026-08-01T15:54:12.114287Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.249837Z","title":"Qwen3.5: Towards native multimodal agents, February 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":45,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.249837Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:b7f78c142298d29ee555bf856ec9c01639a324f353ed72dfd20c49129686b37c","observation_id":"cf22a1f1-7c81-4279-82ff-6aad48dcadaa","resolution":{"observed_at":"2026-08-01T15:54:12.249837Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":{"arxiv_id":"2512.02556","last_updated":"2025-12-02T09:25:14Z","snapshot_observed_at":"2026-07-31T23:49:25.878472Z","submitted_at":"2025-12-02T09:25:14Z","title":"DeepSeek-V3.2: Pushing the Frontier of Open Large Language Models","version":1},"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":"2512.02556","snapshot_observed_at":"2026-08-01T15:54:12.377796Z","title":null,"venue":null,"work_id":null,"year":2025},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":46,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.377796Z"},"links":{"cited_paper":"/paper/2512.02556","citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:f912e388ad32aee47f2518f7860758eb26b351a48177dda07906e92e557f17d7","observation_id":"6aabf71d-150f-42ac-af54-4001d5d157b8","resolution":{"observed_at":"2026-08-01T15:54:12.377796Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":{"arxiv_id":"2602.15763","last_updated":"2026-02-24T10:44:44Z","snapshot_observed_at":"2026-07-06T02:11:23.670680Z","submitted_at":"2026-02-17T17:50:56Z","title":"GLM-5: from Vibe Coding to Agentic Engineering","version":2},"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":"2602.15763","snapshot_observed_at":"2026-08-01T15:54:12.562331Z","title":"GLM-5: from vibe coding to agentic engineering, 2026","venue":null,"work_id":null,"year":2026},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":47,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.562331Z"},"links":{"cited_paper":"/paper/2602.15763","citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:3aae7024858811ccc5a4e683edee53c5de2bcc56db3cff6a96246c428a708131","observation_id":"b407df51-82a4-446d-aa52-942e7cd169f0","resolution":{"observed_at":"2026-08-01T15:54:12.562331Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.684132Z","title":"Unified modeling of 3d molecular generation via atomic interactions with pocketXMol.Cell, 189(7):1904–1922.e28, Apr 2026","venue":null,"work_id":null,"year":1904},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":48,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.684132Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:ca4f59e19a0dbbb28aba3df74ccb81aadc4258cb2ef838b0a8046fd00b6d19b2","observation_id":"d30c2560-1032-403a-91d4-27ef0c81fb03","resolution":{"observed_at":"2026-08-01T15:54:12.684132Z","resolver_source":null,"status":"malformed_identifier"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.799161Z","title":"Morris, and Charlotte M","venue":null,"work_id":null,"year":2024},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":49,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.799161Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:0e126abb3936eecb689f46d90a516adc259bf370db0cd660204904943b017379","observation_id":"16746110-3cc0-42de-b480-95fe111860b0","resolution":{"observed_at":"2026-08-01T15:54:12.799161Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:12.959884Z","title":"Uni- Dock: GPU-accelerated docking enables ultralarge virtual screening.Journal of Chemical Theory and Computation, 19(11):3336–3345, 2023","venue":null,"work_id":null,"year":2023},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":50,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:12.959884Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:3b0344bafa461a215660bb33e4b4a1b7d27f0f7b0af10e12028c09d6aa770ab9","observation_id":"f46b86d1-a1f6-4d76-babf-9d2e80992e8b","resolution":{"observed_at":"2026-08-01T15:54:12.959884Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:08.433473Z","title":"URL https://doi.org/10.1021/jm048957q","venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":2005,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:08.433473Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:4b4c875c5ab54441b0974e6bd6d71ffcd3ff94f76bca0fae7368decde82af507","observation_id":"55eb7d5e-385d-4cde-8668-42fe8dab0b48","resolution":{"observed_at":"2026-08-01T15:54:08.433473Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":null,"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":null,"snapshot_observed_at":"2026-08-01T15:54:11.195695Z","title":"URL https://chemistry-europe","venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":2008,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:11.195695Z"},"links":{"citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:820081056adf478bc1eb6ca18ec5e6d3cfbadbbff551ce0c31718232481d26f2","observation_id":"48e26824-502e-42c8-8fc0-90194cb7c76c","resolution":{"observed_at":"2026-08-01T15:54:11.195695Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}},{"citation":{"cited_paper":{"arxiv_id":"2305.05708","last_updated":"2023-05-09T18:35:38Z","snapshot_observed_at":"2026-07-06T15:25:16.703799Z","submitted_at":"2023-05-09T18:35:38Z","title":"Language models can generate molecules, materials, and protein binding sites directly in three dimensions as XYZ, CIF, and PDB files","version":1},"cited_work":{"arxiv_id":null,"doi":null,"metadata_source":null,"pith_arxiv_id":"2305.05708","snapshot_observed_at":"2026-08-01T15:54:07.687108Z","title":null,"venue":null,"work_id":null,"year":null},"citing_paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints","version":1},"reference_index":2023,"source":"pdf_text","source_observed_at":"2026-08-01T15:54:07.687108Z"},"links":{"cited_paper":"/paper/2305.05708","citing_paper":"/paper/2607.18144"},"observation_digest":"sha256:a17c2d5ee334ec5560d473391a7b986605886b662ba425c71443d20afdebbac4","observation_id":"e2476302-d6fc-44c5-9d30-b1b116d8d611","resolution":{"observed_at":"2026-08-01T15:54:07.687108Z","resolver_source":null,"status":"unresolved"},"standing_notice":{"events":[],"reason":"canonical_work_link_unavailable","source_receipts":[],"state":"unavailable"}}],"paper":{"arxiv_id":"2607.18144","last_updated":"2026-07-20T16:43:54Z","latest_version":1,"primary_category":"cs.LG","snapshot_observed_at":"2026-08-01T15:54:04.827256Z","submitted_at":"2026-07-20T16:43:54Z","title":"Do Language Models Dream of Binding Molecules? Benchmarking LLMs under Spatial Constraints"},"reference_resolution":{"displayed":53,"state_counts":{"malformed_identifier":1,"metadata_mismatch":0,"parse_uncertain":0,"unresolved":36,"verified_exact":16,"verified_fuzzy":0},"total_outbound_references":53},"refusal":"A citation records a reference. It does not transfer a finding from one paper to another.","schema":"pith.paper-citation-record.v1","standing_sources":[{"observed_at":"2026-08-10T06:31:04.303077+00:00","source":"crossref"},{"observed_at":"2026-08-10T06:30:57.382061+00:00","source":"retraction_watch"}],"thesis":"As of 10 August 2026, this Paper Citation Record lists 53 of 53 outbound references and 0 inbound Pith citation observations for arXiv:2607.18144."}