VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design | Paper Citation Record

Observation f83076c2-4687-4d77-a970-c800a079cfa1 · outbound

This paper cites Computational protein design.Nature Reviews Methods Primers, 5(1):13.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Computational protein design.Nature Reviews Methods Primers, 5(1):13

Reference 1

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.840881Z

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Observation 6e1e99fb-dd11-4084-acfb-52affc6ad4a4 · outbound

This paper cites Claude opus 4.6.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Claude opus 4.6

Reference 2

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.844541Z

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Observation ba8a6e8f-e339-475a-a47f-5bd96be56a06 · outbound

This paper cites Miniprotein design: past, present, and prospects.Accounts of Chemical Research, 50(9):2085–2092.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Miniprotein design: past, present, and prospects.Accounts of Chemical Research, 50(9):2085–2092

Reference 3

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.823774Z

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Observation f8d1cfc0-af94-43d2-aa44-6d3e3f51bd99 · outbound

This paper cites Atomically accurate de novo design of antibodies with rfdiffusion.Nature, 649(8095):183–193.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Atomically accurate de novo design of antibodies with rfdiffusion.Nature, 649(8095):183–193

Reference 4

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.849122Z

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Observation e61e07a0-48d5-4f98-909c-bb84e6819314 · outbound

This paper cites The interpro protein families and domains database: 20 years on.Nucleic Acids Research, 49(D1):D344–D354.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design The interpro protein families and domains database: 20 years on.Nucleic Acids Research, 49(D1):D344–D354

Reference 5

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.836738Z

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Observation 558aebae-a327-4ac0-a733-37b402264598 · outbound

This paper cites Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Li Chen, et al.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Li Chen, et al

Reference 6

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.857198Z

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Observation 8ada55ff-f85f-4c52-acdc-e17550213bc4 · outbound

This paper cites PQA: Zero-shot Protein Question Answering for Free-form Scientific Enquiry with Large Language Models.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design PQA: Zero-shot Protein Question Answering for Free-form Scientific Enquiry with Large Language Models

Reference 7

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.898927Z

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Observation 71256527-4b68-4b89-9b25-8afcd4c4bce9 · outbound

This paper cites Pyrosetta: a script-based interface for implementing molecular modeling algorithms using rosetta.Bioinformatics, 26(5):689–691.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Pyrosetta: a script-based interface for implementing molecular modeling algorithms using rosetta.Bioinformatics, 26(5):689–691

Reference 8

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.794844Z

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Observation 3cd7ae0d-02a7-4c1d-80e5-564fcd28514e · outbound

This paper cites Cheng, R.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Cheng, R

Reference 9

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.853221Z

Source-reported events for the cited work

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Observation 39f21a54-de0d-4c78-9ab8-b8c13c251d86 · outbound

This paper cites Stable de novo protein design via joint conformational landscape and sequence optimization.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Stable de novo protein design via joint conformational landscape and sequence optimization

Reference 10

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.828293Z

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Observation 9814f904-a94c-412b-b0f6-1d7c31f83a7c · outbound

This paper cites Sparks of function by de novo protein design.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Sparks of function by de novo protein design

Reference 11

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.832441Z

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Observation 3b9ba505-10cc-4ae9-836f-e31c17d832fd · outbound

This paper cites Rational protein design.Current Opinion in Structural Biology, 97:103224.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Rational protein design.Current Opinion in Structural Biology, 97:103224

Reference 12

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.799158Z

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Observation 3978acdf-7f04-4bca-9bd1-a8024c39ecc9 · outbound

This paper cites Biopython: freely available python tools for computational molecular biology and bioinformatics.Bioinformatics, 25(11):1422–1423.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Biopython: freely available python tools for computational molecular biology and bioinformatics.Bioinformatics, 25(11):1422–1423

Reference 13

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.702524Z

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No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 6e8fd057-de46-4800-ab0f-f36a0040682b · outbound

This paper cites an unresolved cited work.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Unresolved cited work

Reference 14

Resolution: unresolved; raw_fallback, observed 2026-05-14T22:48:14.642532Z

Source-reported events for the cited work

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Observation 4dc8b469-0d42-4a42-8645-381144e433d8 · outbound

This paper cites Crowd- sourced protein design: Lessons from the adaptyv egfr binder competition.bioRxiv, pages 2025–04.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Crowd- sourced protein design: Lessons from the adaptyv egfr binder competition.bioRxiv, pages 2025–04

Reference 15

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.636589Z

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Observation ff07d580-7f17-4779-9eef-7d3c41fd69af · outbound

This paper cites De novo protein design: fully automated sequence selection.Science, 278(5335):82–87.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design De novo protein design: fully automated sequence selection.Science, 278(5335):82–87

Reference 16

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.547769Z

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Observation 200fe115-2ed8-4639-99e7-2304be9ab325 · outbound

This paper cites Toward de novo protein design from natural language.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Toward de novo protein design from natural language

Reference 17

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.646693Z

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Observation b82de2eb-3315-4769-896e-fba5b88c871e · outbound

This paper cites Robust deep learning–based protein sequence design using proteinmpnn.Science, 378(6615):49–56.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Robust deep learning–based protein sequence design using proteinmpnn.Science, 378(6615):49–56

Reference 18

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.632465Z

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Observation 43bc9a40-efc2-4d80-b833-aef6f5e94345 · outbound

This paper cites Atomic context-conditioned protein sequence design using ligandmpnn.Nature Methods, 22(4):717–723.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Atomic context-conditioned protein sequence design using ligandmpnn.Nature Methods, 22(4):717–723

Reference 19

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.774243Z

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Observation 67aa57b8-7dc8-4bf8-923e-4411c7ab1b7c · outbound

This paper cites Gemini 3.1 pro - model card.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Gemini 3.1 pro - model card

Reference 20

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.748748Z

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Observation 8b12d048-1e57-4bcd-ba4c-dddd2fcadf43 · outbound

This paper cites Deepseek-v4: Towards highly efficient million-token context in- telligence.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Deepseek-v4: Towards highly efficient million-token context in- telligence

Reference 21

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.757822Z

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Observation f274434b-4a1e-4d73-88ca-2fe904fcdc84 · outbound

This paper cites Bronstein, Martin Steinegger, Emine Kucukbenli, Arash Vahdat, and Karsten Kreis.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Bronstein, Martin Steinegger, Emine Kucukbenli, Arash Vahdat, and Karsten Kreis

Reference 22

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.739404Z

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No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 6f841fef-7e45-4799-b1f8-ca46e134526f · outbound

This paper cites Trans- fer learning to leverage larger datasets for improved prediction of protein stability changes.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Trans- fer learning to leverage larger datasets for improved prediction of protein stability changes

Reference 23

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.720050Z

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Observation dee76677-8a3b-46c4-97a3-7de9508f7655 · outbound

This paper cites Bioreason-pro: Advancing protein function prediction with multimodal biological reasoning.bioRxiv.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Bioreason-pro: Advancing protein function prediction with multimodal biological reasoning.bioRxiv

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.577095Z

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Observation 9e010514-8e80-4c51-9b73-820c33f4d6e3 · outbound

This paper cites Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models

Reference 25

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.885267Z

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Observation fd8eada7-49ec-4d24-8dd3-9548ace02636 · outbound

This paper cites Protgpt2 is a deep unsupervised language model for protein design.Nature communications, 13(1):4348.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protgpt2 is a deep unsupervised language model for protein design.Nature communications, 13(1):4348

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.581141Z

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Observation febd8d9b-9260-4c30-bfe6-b954daab1075 · outbound

This paper cites an unresolved cited work.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Unresolved cited work

Reference 27

Resolution: unresolved; raw_fallback, observed 2026-05-14T22:48:14.668568Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation d935af2b-d291-4158-bf6d-0f78e275b597 · outbound

This paper cites Structure-based protein function prediction using graph convolutional networks.Nature communications, 12(1):3168.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Structure-based protein function prediction using graph convolutional networks.Nature communications, 12(1):3168

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.761708Z

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No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation cf96cb01-3eec-45ef-8e3b-b06483baa877 · outbound

This paper cites Protein engineering for industrial biocatalysis: principles, approaches, and lessons from engineered petases.Catalysts, 15(2):147.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protein engineering for industrial biocatalysis: principles, approaches, and lessons from engineered petases.Catalysts, 15(2):147

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.609618Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 0c5e495d-c7ce-4eaa-8f14-072efcbd4647 · outbound

This paper cites Protein design with guided discrete diffusion.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protein design with guided discrete diffusion

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.568463Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 01d1d0cb-d835-4d9b-b125-c8fadc4303e1 · outbound

This paper cites pykvfinder: an efficient and integrable python package for biomolecular cavity detection and characterization in data science.BMC bioinformatics, 22(1):607.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design pykvfinder: an efficient and integrable python package for biomolecular cavity detection and characterization in data science.BMC bioinformatics, 22(1):607

Reference 31

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.594443Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 3c9f6b84-146e-459a-b583-cde152189401 · outbound

This paper cites Learning sequence, structure, and function representations of proteins with language models.bioRxiv.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Learning sequence, structure, and function representations of proteins with language models.bioRxiv

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.664433Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 28fa967b-7102-4108-8689-eaca441c95cd · outbound

This paper cites Simulating 500 million years of evolution with a language model.Science, 387(6736):850–858.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Simulating 500 million years of evolution with a language model.Science, 387(6736):850–858

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.790683Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 0a70a71c-f798-44af-b5f0-5a2fbfde7a24 · outbound

This paper cites Efficient evolution of human antibodies from 11 general protein language models.Nature biotechnology, 42(2):275–283.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Efficient evolution of human antibodies from 11 general protein language models.Nature biotechnology, 42(2):275–283

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.786828Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 01cd49a8-82be-4474-8df5-b0143ed2c0e0 · outbound

This paper cites Adaptive machine learning for protein engineering.Current opinion in structural biology, 72:145–152.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Adaptive machine learning for protein engineering.Current opinion in structural biology, 72:145–152

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.770109Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation eeca7ea1-1766-4d55-9907-9ef38702638f · outbound

This paper cites Pro-1.https://michaelhla.com/blog/pro1.html, March 2025.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Pro-1.https://michaelhla.com/blog/pro1.html, March 2025

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.735266Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation f867223a-a1d3-4106-8a1b-3b32ae7e589f · outbound

This paper cites Elucidating the Design Space of Multimodal Protein Language Models.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Elucidating the Design Space of Multimodal Protein Language Models

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Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.858356Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 7584d80e-0464-4736-867b-e4d0b70e0db3 · outbound

This paper cites Protein2text: Resampling mechanism to translate protein sequences into human-interpretable text.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protein2text: Resampling mechanism to translate protein sequences into human-interpretable text

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.542841Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 16aa8b8b-d518-4467-af36-5a9edf39421b · outbound

This paper cites A multi-modal llm for dynamic protein-ligand interactions and generative molecular design.bioRxiv.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design A multi-modal llm for dynamic protein-ligand interactions and generative molecular design.bioRxiv

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.613706Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation ffd24cd8-d370-4a61-9a15-79005bc5e6ea · outbound

This paper cites Dictionary of protein secondary structure: pattern recogni- tion of hydrogen-bonded and geometrical features.Biopolymers, 22(12):2577–2637.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Dictionary of protein secondary structure: pattern recogni- tion of hydrogen-bonded and geometrical features.Biopolymers, 22(12):2577–2637

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.707032Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation fd24e244-dfdf-441a-81ce-d0413e693e0c · outbound

This paper cites Pubchem 2023 update.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Pubchem 2023 update

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.680926Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 81e5a623-df66-4394-a761-8f21641df4e2 · outbound

This paper cites Improving Protein Optimization with Smoothed Fitness Landscapes.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Improving Protein Optimization with Smoothed Fitness Landscapes

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Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.871768Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 0b0060cb-7ef4-4ee4-8624-f1c48ff5236f · outbound

This paper cites Sequence-structure-function relationships in the microbial protein universe.Nature communications, 14(1):2351.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Sequence-structure-function relationships in the microbial protein universe.Nature communications, 14(1):2351

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.688347Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 42fe43af-1bed-4ed9-9afa-1d1b55627dc0 · outbound

This paper cites Rational and semirational protein design.Protein engineering: methods and protocols, pages 15–23.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Rational and semirational protein design.Protein engineering: methods and protocols, pages 15–23

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.598832Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 736b704d-986e-4a4a-8169-19912862cd05 · outbound

This paper cites De novo protein design—from new structures to programmable functions.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design De novo protein design—from new structures to programmable functions

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.618030Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation db546d35-0593-4342-9849-ecf83a1d8467 · outbound

This paper cites PDFBench: A Benchmark for De novo Protein Design from Function.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design PDFBench: A Benchmark for De novo Protein Design from Function

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Resolution: verified exact; arxiv_id, observed 2026-07-07T03:17:09.828184Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 36c87f6b-3eed-425a-8b21-58d0f18b5b14 · outbound

This paper cites Conditional generative modeling for de novo protein design with hierarchical functions.Bioinformatics, 38(13):3454– 3461.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Conditional generative modeling for de novo protein design with hierarchical functions.Bioinformatics, 38(13):3454– 3461

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Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.552408Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation cee39a3c-b66c-4bba-a945-182561a48860 · outbound

This paper cites Design of a novel globular protein fold with atomic-level accuracy.Science, 302(5649):1364–1368.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Design of a novel globular protein fold with atomic-level accuracy.Science, 302(5649):1364–1368

Reference 48

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.623928Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 33b96e3e-d1dd-4b24-abb9-88f0e313aa1d · outbound

This paper cites A Model-Centric Review of Deep Learning for Protein Design.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design A Model-Centric Review of Deep Learning for Protein Design

Reference 49

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.831390Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 9d21f5b4-927e-44ef-b004-edf58ebf886e · outbound

This paper cites ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design ROSETTA3: an object-oriented software suite for the simulation and design of macromolecules

Reference 50

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.782823Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 2fca31fb-db2b-4cf2-ab5b-bc2517e4f7e1 · outbound

This paper cites DeepSeek-V3.2: Pushing the Frontier of Open Large Language Models.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design DeepSeek-V3.2: Pushing the Frontier of Open Large Language Models

Reference 51

Resolution: verified exact; local_arxiv, observed 2026-05-14T22:13:04.851681Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 4bca2dcb-27fd-4454-9f75-1449f56e40a9 · outbound

This paper cites Protein design with dynamic protein vocabulary.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protein design with dynamic protein vocabulary

Reference 52

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.519893Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 514dc0d0-2e6d-4b5b-8aaa-efab4b9d6b72 · outbound

This paper cites A text-guided protein design framework.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design A text-guided protein design framework

Reference 53

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.485480Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 293fee1a-578e-4632-b8e3-d33184d6d59e · outbound

This paper cites Prollama: A protein large language model for multi-task protein language processing.IEEE Transactions on Artificial Intelligence.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Prollama: A protein large language model for multi-task protein language processing.IEEE Transactions on Artificial Intelligence

Reference 54

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.563639Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 7b0ab329-9550-40fc-a5f0-d104121249d5 · outbound

This paper cites Prottex: Structure-in-context reasoning and 12 editing of proteins with large language models.Journal of Chemical Information and Modeling, 65(13):6599–6612.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Prottex: Structure-in-context reasoning and 12 editing of proteins with large language models.Journal of Chemical Information and Modeling, 65(13):6599–6612

Reference 55

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.572677Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation bdcb992b-4fe1-41d6-9226-7fc8703e690e · outbound

This paper cites Zymctrl: a conditional language model for the controllable generation of artificial enzymes.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Zymctrl: a conditional language model for the controllable generation of artificial enzymes

Reference 56

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.715225Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 250d7380-a50f-4c42-89ae-897e4cf90924 · outbound

This paper cites Progen2: exploring the boundaries of protein language models.Cell systems, 14(11):968–978.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Progen2: exploring the boundaries of protein language models.Cell systems, 14(11):968–978

Reference 57

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.728593Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 2d1c5d87-6719-4e98-8fb3-f014147a07ec · outbound

This paper cites Machine learning for functional protein design.Nature biotechnology, 42(2):216–228.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Machine learning for functional protein design.Nature biotechnology, 42(2):216–228

Reference 58

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.753676Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 1cb032ab-dee1-46a3-965f-482123a9a68f · outbound

This paper cites Accelerating life sciences research with retro biosciences.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Accelerating life sciences research with retro biosciences

Reference 59

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.672820Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 425a45ec-00af-4aff-a764-92ea3448ba23 · outbound

This paper cites Introducing gpt-5.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Introducing gpt-5

Reference 60

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.676974Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation f12400c0-51dd-421c-b63a-c0e5abc3e18d · outbound

This paper cites Introducing gpt-rosalind for life sciences research.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Introducing gpt-rosalind for life sciences research

Reference 61

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.628064Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 7c582a07-76ed-4a82-9e10-fd4c49fa6425 · outbound

This paper cites Design and engineering of miniproteins.ACS bio & med Chem Au, 2(4):316–327.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Design and engineering of miniproteins.ACS bio & med Chem Au, 2(4):316–327

Reference 62

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.506647Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 4b1236ea-0dfd-49bb-ae0f-6401dbb009e5 · outbound

This paper cites Bindcraft: one-shot design of functional protein binders.BioRxiv, pages 2024–09.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Bindcraft: one-shot design of functional protein binders.BioRxiv, pages 2024–09

Reference 63

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.556945Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 489f8559-0830-4982-b606-bbe160f4d69a · outbound

This paper cites Proteincrow: A language model agent that can design proteins.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Proteincrow: A language model agent that can design proteins

Reference 64

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.604745Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 8bbe2072-e064-4b20-856b-4f92fca102b6 · outbound

This paper cites Qwen3.5: Towards native multimodal agents.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Qwen3.5: Towards native multimodal agents

Reference 65

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.502604Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 2475b75a-d128-4a1a-bc89-37d9d527a89c · outbound

This paper cites A generalized protein design ml model enables generation of functional de novo proteins.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design A generalized protein design ml model enables generation of functional de novo proteins

Reference 66

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.510868Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 3285ef1c-f925-492c-bab9-c794aa525abd · outbound

This paper cites Liveproteinbench: A contamination-free benchmark for assessing models’ specialized capabilities in protein science.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Liveproteinbench: A contamination-free benchmark for assessing models’ specialized capabilities in protein science

Reference 67

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.838241Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation b40e6653-be43-49d0-8c7f-008c000990fd · outbound

This paper cites Protein sequence design and its applications.Current opinion in structural biology, 37:71–80.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protein sequence design and its applications.Current opinion in structural biology, 37:71–80

Reference 68

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.524966Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation a03e6803-e16c-4b10-b175-32ea43f3d8c0 · outbound

This paper cites Improved protein binder design usingβ-pairing targeted rfdiffusion.Nature Communications.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Improved protein binder design usingβ-pairing targeted rfdiffusion.Nature Communications

Reference 69

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.475917Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 723f1884-8248-4afd-bf20-c39196da2bd2 · outbound

This paper cites Brenda, the enzyme database: updates and major new developments.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Brenda, the enzyme database: updates and major new developments

Reference 70

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.533638Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation e9f7580f-f53d-42c7-887f-3eccb5a8ff84 · outbound

This paper cites A fine-tuning dataset and benchmark for large language models for protein understanding.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design A fine-tuning dataset and benchmark for large language models for protein understanding

Reference 71

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.515523Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 07e7b074-bd92-43da-89ec-d8aa4f92c858 · outbound

This paper cites Toursynbio: A multi-modal large model and agent framework to bridge text and protein sequences for protein engineering.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Toursynbio: A multi-modal large model and agent framework to bridge text and protein sequences for protein engineering

Reference 72

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.589622Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 16052600-744f-4d3e-8355-c58f06a08bc1 · outbound

This paper cites New and continuing developments at prosite.Nucleic Acids Research, 41(D1):D344–D347.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design New and continuing developments at prosite.Nucleic Acids Research, 41(D1):D344–D347

Reference 73

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.697845Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 08cbc073-067c-4565-b6a3-3845467b9807 · outbound

This paper cites Scalable Agentic Reasoning for Designing Biologics Targeting Intrinsically Disordered Proteins.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Scalable Agentic Reasoning for Designing Biologics Targeting Intrinsically Disordered Proteins

Reference 74

Resolution: verified exact; local_arxiv, observed 2026-05-14T22:13:04.804937Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 2326aa63-ca4c-490c-b864-7df17afcf81f · outbound

This paper cites Instructpro: Natural language guided ligand-binding protein design.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Instructpro: Natural language guided ligand-binding protein design

Reference 75

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.797578Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation b5ba26ae-6ee6-431d-a434-0cf97ef81e3b · outbound

This paper cites Boltzgen: Toward universal binder design.bioRxiv, pages 2025–11.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Boltzgen: Toward universal binder design.bioRxiv, pages 2025–11

Reference 76

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.743213Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 03aa770c-a278-444a-ad1d-05f53f29cbc9 · outbound

This paper cites VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning

Reference 77

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.791414Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 5acef15e-4a4a-46bb-8148-9239439c847d · outbound

This paper cites Kimi K2.5: Visual Agentic Intelligence.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Kimi K2.5: Visual Agentic Intelligence

Reference 78

Resolution: verified exact; local_arxiv, observed 2026-05-14T22:13:04.766863Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 33cc894f-6a16-4631-a4b3-856bd2301cec · outbound

This paper cites Protenix-v1: Toward high-accuracy open-source biomolecular structure prediction.bioRxiv.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protenix-v1: Toward high-accuracy open-source biomolecular structure prediction.bioRxiv

Reference 79

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.778368Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 221bb19e-a811-49ba-956a-3175834b2805 · outbound

This paper cites Engineering strategies to overcome the stability–function trade-off in proteins.ACS synthetic biology, 11(3):1030–1039.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Engineering strategies to overcome the stability–function trade-off in proteins.ACS synthetic biology, 11(3):1030–1039

Reference 80

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.651389Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation d5141968-7dcc-4164-ad04-a5f02f8a5f39 · outbound

This paper cites Uniprot: the universal protein knowledgebase in 2023.Nucleic Acids Research, 51(D1):D523–D531.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Uniprot: the universal protein knowledgebase in 2023.Nucleic Acids Research, 51(D1):D523–D531

Reference 81

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.765873Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 8e04fc1e-0179-44d1-b3eb-abd1e030fc81 · outbound

This paper cites an unresolved cited work.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Unresolved cited work

Reference 82

Resolution: unresolved; raw_fallback, observed 2026-05-14T22:48:14.584974Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 039b2f0e-3250-429e-b7ff-e0a1552031f6 · outbound

This paper cites PDB-Struct: A Comprehensive Benchmark for Structure-based Protein Design.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design PDB-Struct: A Comprehensive Benchmark for Structure-based Protein Design

Reference 83

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.778579Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation c7a36dfc-c8f2-46d7-bf86-d7b36c45273d · outbound

This paper cites TxGemma: Efficient and Agentic LLMs for Therapeutics.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design TxGemma: Efficient and Agentic LLMs for Therapeutics

Reference 84

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.824726Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation b2f18d74-c1d6-4cf2-bb7e-c1aefa3f0bf3 · outbound

This paper cites Y ., Lee, D.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Y ., Lee, D

Reference 85

Resolution: metadata mismatch; arxiv_id, observed 2026-05-14T22:13:04.818429Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 99f57a8c-7496-4b8e-8806-62fa98dd0e5e · outbound

This paper cites Scireasoner: Laying the scientific reasoning ground across disciplines.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Scireasoner: Laying the scientific reasoning ground across disciplines

Reference 86

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.811774Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 419c3b20-a877-446b-bf5f-224e9a703bb6 · outbound

This paper cites Rethinking text-based protein understanding: Retrieval or llm? InProceedings of the 2025 Conference on Empirical Methods in Natural Language Processing, pages 23737–23757.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Rethinking text-based protein understanding: Retrieval or llm? InProceedings of the 2025 Conference on Empirical Methods in Natural Language Processing, pages 23737–23757

Reference 87

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.656043Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 6b329ca3-78cb-49a7-9aee-b95ae086d122 · outbound

This paper cites Nature Language Model: Deciphering the Language of Nature for Scientific Discovery.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Nature Language Model: Deciphering the Language of Nature for Scientific Discovery

Reference 88

Resolution: metadata mismatch; arxiv_id, observed 2026-05-14T22:13:04.772627Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 18e72b7a-a282-432b-8428-0db7ba98d039 · outbound

This paper cites ProteinGPT: Multimodal LLM for Protein Property Prediction and Structure Understanding.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design ProteinGPT: Multimodal LLM for Protein Property Prediction and Structure Understanding

Reference 89

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.784926Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 16c0d3be-21a9-412f-acc5-53b36e0df916 · outbound

This paper cites Protst: Multi-modality learning of protein sequences and biomedical texts.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protst: Multi-modality learning of protein sequences and biomedical texts

Reference 90

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.537591Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 8bb1f607-ba97-497a-abbe-dcb1dcaf097a · outbound

This paper cites Peer: a comprehensive and multi-task benchmark for protein sequence understanding.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Peer: a comprehensive and multi-task benchmark for protein sequence understanding

Reference 91

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.490038Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 33a1834c-243a-479d-afa7-e6ddeaa7490b · outbound

This paper cites Function-Guided Conditional Generation Using Protein Language Models with Adapters.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Function-Guided Conditional Generation Using Protein Language Models with Adapters

Reference 92

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.891990Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 881a6790-a6c6-4f4e-b918-e74f5c4125f7 · outbound

This paper cites Care: a benchmark suite for the classification and retrieval of enzymes.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Care: a benchmark suite for the classification and retrieval of enzymes

Reference 93

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.494484Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation e0a6d09f-028a-4892-87ac-3557afe07028 · outbound

This paper cites ProteinBench: A Holistic Evaluation of Protein Foundation Models.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design ProteinBench: A Holistic Evaluation of Protein Foundation Models

Reference 94

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.865213Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 275e7f10-edde-493b-8778-c0da8fa516b8 · outbound

This paper cites Annotation-guided protein design with multi-level domain alignment.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Annotation-guided protein design with multi-level domain alignment

Reference 95

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.498578Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation bb25ce63-5d3a-4bb4-855b-adeb443f0a50 · outbound

This paper cites UniGenX: a unified generative foundation model that couples sequence, structure and function to accelerate scientific design across proteins, molecules and materials.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design UniGenX: a unified generative foundation model that couples sequence, structure and function to accelerate scientific design across proteins, molecules and materials

Reference 96

Resolution: verified exact; arxiv_id, observed 2026-05-14T22:13:04.878158Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 113b5369-8fbb-4b5c-b621-9ecf30212ee5 · outbound

This paper cites Sglang: Efficient execution of structured language model programs.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Sglang: Efficient execution of structured language model programs

Reference 97

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.529474Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 60cef787-d628-494d-ad26-17aaade5b57c · outbound

This paper cites Decoding the molecular language of proteins with evolla.bioRxiv, pages 2025–01.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Decoding the molecular language of proteins with evolla.bioRxiv, pages 2025–01

Reference 98

Resolution: verified fuzzy; raw_fallback, observed 2026-05-14T22:48:14.660145Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

Observation 1a47b4e5-823a-43e3-82af-595741089e22 · outbound

This paper cites Protllm: An interleaved protein-language llm with protein- as-word pre-training.

VibeProteinBench: An Evaluation Benchmark for Language-interfaced Vibe Protein Design Protllm: An interleaved protein-language llm with protein- as-word pre-training

Reference 99

Resolution: malformed identifier; raw_fallback, observed 2026-05-14T22:48:14.481034Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-14T06:32:32.682623+00:00.

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Outbound references

Pith citing papers