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Paper Citation Record · LEDGER

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization

As of 8 August 2026, this Paper Citation Record lists 55 of 55 outbound references and 0 inbound Pith citation observations for arXiv:2506.09496.

A citation records a reference. It does not transfer a finding from one paper to another.

pith.paper-citation-record.v1
2506.09496 v1

Coverage vector

measured 55 of 55 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-07T04:52:27.311643Z

measured 55 of 55 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-08T06:32:00.761636+00:00

measured 0 of 0 inbound itemization

Pith citing papers itemized under the disclosed page cap.

Source: paper_references, paper_reference_links

measured 0 of 1 external citation measurements

A source-named dated measurement, never combined with another source.

Source: cited_works

Reference resolution

55 of 55 outbound references displayed

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  • verified fuzzy34
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External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 01b08e68-be38-4bd5-b993-40d03c50e057 · outbound

This paper cites A new age in protein design empowered by deep learning,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization A new age in protein design empowered by deep learning,

Reference 1

Resolution
verified fuzzy
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Source-reported events for the cited work

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Observation 3b11b215-9941-4ba4-95eb-063408a8ed62 · outbound

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

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Sparks of function by de novo protein design,

Reference 2

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.269217Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 69eb93dc-3bd1-4d67-abc8-da09080586be · outbound

This paper cites Highly accurate protein structure prediction with alphafold,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Highly accurate protein structure prediction with alphafold,

Reference 3

Resolution
verified fuzzy
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Source-reported events for the cited work

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Observation 711014f9-b882-4ff4-a6da-be3b9529ce12 · outbound

This paper cites Representing long-range context for graph neural networks with global attention,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Representing long-range context for graph neural networks with global attention,

Reference 4

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 2f4ed58f-dd93-4469-931b-e24cb44cab43 · outbound

This paper cites Robust deep learning–based protein sequence design using proteinmpnn,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Robust deep learning–based protein sequence design using proteinmpnn,

Reference 5

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.217475Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 372e20ed-ec65-4625-a9ba-5754200c73b0 · outbound

This paper cites PiFold: Toward effective and efficient protein inverse folding.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization PiFold: Toward effective and efficient protein inverse folding

Reference 6

Resolution
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Source-reported events for the cited work

Unavailable: canonical work link unavailable.

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Observation ab0e7c70-8db2-4b7f-978e-7da1f908948a · outbound

This paper cites The graph neural network model,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization The graph neural network model,

Reference 7

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unresolved
no resolver link, observed 2026-08-07T04:52:27.039850Z

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Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.039850Z digest=sha256:f24cc3ac3a60020374d08e515409b4c8bc82b42ad0db9fa2c908aa5d05c1916e

Observation 7d6e4ba3-1e4d-4334-a0b8-09ea77361fca · outbound

This paper cites Structure-informed language models are protein designers,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Structure-informed language models are protein designers,

Reference 8

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 8906621d-d29c-4577-ae2e-8026c96e8e19 · outbound

This paper cites Knowledge-Design: Pushing the Limit of Protein Design via Knowledge Refinement.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Knowledge-Design: Pushing the Limit of Protein Design via Knowledge Refinement

Reference 9

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.049695Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.049695Z digest=sha256:62cab96431e3cd7aaa4eecb67e64e1f68949ceaabd55cf4aed88ac7de0f2e397

Observation 8ef7157b-41ee-4c73-aef5-7b86faa76d90 · outbound

This paper cites Graph denoising diffusion for inverse protein folding,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Graph denoising diffusion for inverse protein folding,

Reference 10

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.176645Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 1983ea13-d6c6-4018-aa4c-f2a665e5d7ee · outbound

This paper cites Bridge-IF: Learning Inverse Protein Folding with Markov Bridges.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Bridge-IF: Learning Inverse Protein Folding with Markov Bridges

Reference 11

Resolution
verified exact
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 7b1deb16-4c84-46ee-b2d0-8473ee4a8e3c · outbound

This paper cites Diffusion Model with Representation Alignment for Protein Inverse Folding.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Diffusion Model with Representation Alignment for Protein Inverse Folding

Reference 12

Resolution
unresolved
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Source-reported events for the cited work

Unavailable: canonical work link unavailable.

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Observation 55704c6b-fbbc-406a-a9bf-529a926e11af · outbound

This paper cites Cath–a hierarchic classification of protein domain structures,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Cath–a hierarchic classification of protein domain structures,

Reference 13

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 22e81ff2-75c5-4c59-9e2d-fec369a2a3ac · outbound

This paper cites Protein sequence design by conformational landscape optimization,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Protein sequence design by conformational landscape optimization,

Reference 14

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.143209Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 75d8902f-7cc3-4d58-91ea-2abd421b9b1d · outbound

This paper cites RetroBridge: Modeling Retrosynthesis with Markov Bridges.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization RetroBridge: Modeling Retrosynthesis with Markov Bridges

Reference 15

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Source-reported events for the cited work

Unavailable: canonical work link unavailable.

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Observation 0ba13296-7917-43ee-a6d5-70ad4416c92a · outbound

This paper cites Disco: Diffusion schrödinger bridge for molecular conformer optimization,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Disco: Diffusion schrödinger bridge for molecular conformer optimization,

Reference 16

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation fe16befd-9a33-4ca1-a1b4-6a274fa06c99 · outbound

This paper cites Direct preference opti- mization: Your language model is secretly a reward model,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Direct preference opti- mization: Your language model is secretly a reward model,

Reference 17

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 7008be01-0854-453c-82c0-f3e4f9eb3b31 · outbound

This paper cites Generative models for graph-based protein design,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Generative models for graph-based protein design,

Reference 18

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation bb6bd383-241b-46ef-a17e-7c5d8342e35b · outbound

This paper cites AlphaDesign: A graph protein design method and benchmark on AlphaFoldDB.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization AlphaDesign: A graph protein design method and benchmark on AlphaFoldDB

Reference 19

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.106096Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

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Observation 34bec870-a1ba-48a9-b795-11c3bf2662a8 · outbound

This paper cites Generative De Novo Protein Design with Global Context.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Generative De Novo Protein Design with Global Context

Reference 20

Resolution
verified exact
local_arxiv, observed 2026-08-07T04:52:27.512862Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation cb0fb4f5-8606-4436-a782-9cfc433a684c · outbound

This paper cites Structgnn: an efficient graph neural network framework for static structural analysis,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Structgnn: an efficient graph neural network framework for static structural analysis,

Reference 21

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.076226Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 14a0a204-b880-4cf3-99cc-248d556d8bc0 · outbound

This paper cites Learning inverse folding from millions of predicted structures,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Learning inverse folding from millions of predicted structures,

Reference 22

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.059712Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 9899f40b-539b-4db8-840c-a68d706d8a14 · outbound

This paper cites Illuminating protein space with a programmable generative model,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Illuminating protein space with a programmable generative model,

Reference 23

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 48338a00-e6c4-4e1e-a14d-360c8cd4d98e · outbound

This paper cites Accurate and robust protein sequence design with carbondesign,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Accurate and robust protein sequence design with carbondesign,

Reference 24

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.020661Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 440709f8-46a6-4f2d-950a-5a2cc4e2c5c0 · outbound

This paper cites Structured denoising diffusion models in discrete state-spaces,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Structured denoising diffusion models in discrete state-spaces,

Reference 25

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:28.002499Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 89ff6185-529f-4299-922b-7ec88307cd54 · outbound

This paper cites Protein design using physics informed neural networks,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Protein design using physics informed neural networks,

Reference 26

Resolution
verified fuzzy
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Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation d4b4f6cd-378d-487d-8d7d-6331790d28f8 · outbound

This paper cites Machine learning for evolutionary- based and physics-inspired protein design: Current and future synergies,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Machine learning for evolutionary- based and physics-inspired protein design: Current and future synergies,

Reference 27

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.967492Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation 159c8552-792c-424c-acd4-e480be367974 · outbound

This paper cites Protein structure prediction using rosetta,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Protein structure prediction using rosetta,

Reference 28

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.950587Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

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Observation def2e76f-2a50-419e-9042-f32f402f2f9b · outbound

This paper cites Deep reinforcement learning from human preferences,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Deep reinforcement learning from human preferences,

Reference 29

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.164730Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.164730Z digest=sha256:fd750e2c24af5c647f505ffd25d5de5f099be26a447db8eac803ae95bcf25ed7

Observation 74a12679-4088-417b-a4e7-9ea272ff9adf · outbound

This paper cites Fine-Tuning Language Models from Human Preferences.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Fine-Tuning Language Models from Human Preferences

Reference 30

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.171463Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.171463Z digest=sha256:e02b30f145fd8708009a17459a3cdcdd22356ad07ddd87d8f6d3fa3d49292770

Observation 40f023bd-aaa9-4631-8d0a-3169fe0b869d · outbound

This paper cites Training language models to follow instructions with human feedback,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Training language models to follow instructions with human feedback,

Reference 31

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unresolved
no resolver link, observed 2026-08-07T04:52:27.178917Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.178917Z digest=sha256:e7055f9c4b3607404a4d8c95a244f18a00393455082e56e43c97c3ddfd675bb1

Observation 5ecd9988-03e4-4cc7-bb79-938b95e05943 · outbound

This paper cites Safe RLHF: Safe Reinforcement Learning from Human Feedback.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Safe RLHF: Safe Reinforcement Learning from Human Feedback

Reference 32

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.187623Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.187623Z digest=sha256:4e75072df153044e7a3957240c39269681e21d65402b4089fe162d6a018bee64

Observation 06c47b10-2a54-4385-ad6f-d795a69f70ba · outbound

This paper cites Rlaif: Scaling reinforcement learning from human feedback with ai feedback,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Rlaif: Scaling reinforcement learning from human feedback with ai feedback,

Reference 33

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.193814Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.193814Z digest=sha256:7d822f07fa01a878bb802bf5828cd9b2cd0397d57ab96e7cbc96694407678508

Observation 78e3f370-cbac-4a98-995a-4441e14109d8 · outbound

This paper cites Dpok: Reinforcement learning for fine-tuning text-to-image diffusion models,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Dpok: Reinforcement learning for fine-tuning text-to-image diffusion models,

Reference 34

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.903001Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.199818Z digest=sha256:a960ee513fc4bc5ad61aac7574ed02c47a0d9b31fda659eb4541bac1e076dd41

Observation e96c7da8-9d79-4d75-b9ca-f0ff310b82ac · outbound

This paper cites Training Diffusion Models with Reinforcement Learning.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Training Diffusion Models with Reinforcement Learning

Reference 35

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.206534Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.206534Z digest=sha256:2f9292271e21f800d1008b89b4c47d05fdd7ed4e94bcf47bba76232383ded0b8

Observation 733a98db-9006-464c-a516-ffcaa6a4d2b8 · outbound

This paper cites Diffusion model alignment using direct preference optimization,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Diffusion model alignment using direct preference optimization,

Reference 36

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.886138Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.211932Z digest=sha256:116f8e25d8011a622423f039094a5f9072bba1323d22884095e892d7071a22cb

Observation 9dfb36e7-7581-4d4b-9c7d-d3cf494fa107 · outbound

This paper cites Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences,

Reference 37

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.870738Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.217323Z digest=sha256:050cb3c82fa2eda105f2540b738e2ac88af542ea94c4905f0650c44c05101ebd

Observation 33836300-b0b3-4970-a835-777e6f47addf · outbound

This paper cites Scalable diffusion models with transformers,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Scalable diffusion models with transformers,

Reference 38

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.221812Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.221812Z digest=sha256:4d3c50018d3227894f6c4d39252e3c428343fcb141765a275e42b4ac3037c228

Observation dd1a78e6-2d6b-4808-b6a6-83f752340c36 · outbound

This paper cites Boltzmann-Aligned Inverse Folding Model as a Predictor of Mutational Effects on Protein-Protein Interactions.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Boltzmann-Aligned Inverse Folding Model as a Predictor of Mutational Effects on Protein-Protein Interactions

Reference 39

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.226979Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.226979Z digest=sha256:4000803d614108d080572d0fff59398ac395eeea7765eb1593e5199fedfaa6a6

Observation 06daa3c9-084e-4969-8e93-6518880ab798 · outbound

This paper cites Bindinggym: A large-scale mutational dataset toward deciphering protein-protein interactions,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Bindinggym: A large-scale mutational dataset toward deciphering protein-protein interactions,

Reference 40

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.839231Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.231952Z digest=sha256:8f7f84a2602c6df28a8474ac09dc3bca2b8d11e89e7e18312552d11f0c81a49c

Observation 5a32ad02-f3ac-4ea1-874b-35649799502d · outbound

This paper cites Skempi 2.0: an updated benchmark of changes in protein–protein binding energy, kinetics and thermodynamics upon mutation,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Skempi 2.0: an updated benchmark of changes in protein–protein binding energy, kinetics and thermodynamics upon mutation,

Reference 41

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.821751Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.236706Z digest=sha256:5d595483a452199a0a1b29d97376600c2574b73597dd90a2066422a2a57d921d

Observation d0f23f63-ca57-40d2-a843-28409963429c · outbound

This paper cites Rotamer density estimator is an unsupervised learner of the effect of mutations on protein-protein interaction,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Rotamer density estimator is an unsupervised learner of the effect of mutations on protein-protein interaction,

Reference 42

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.803569Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.241182Z digest=sha256:fc1d26c80161b5cdc18f88963fc09e78aa7d0568427eb6c758ac0a6abed26e59

Observation 5cedac6d-5bc1-4bc0-8642-9f134ff997a3 · outbound

This paper cites Surface-vqmae: Vector-quantized masked auto-encoders on molecular surfaces,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Surface-vqmae: Vector-quantized masked auto-encoders on molecular surfaces,

Reference 43

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.786464Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.246968Z digest=sha256:4a39ffe6e3e0fdcb0a45fbdb7f4ce9b2f727c8a5f46b1213d307239baf80bafb

Observation 45e1e1f5-6f16-4c7e-b14c-9ff7f6b22656 · outbound

This paper cites Improved denoising diffusion probabilistic models,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Improved denoising diffusion probabilistic models,

Reference 44

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.770183Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.252818Z digest=sha256:85d86ea1a7d665d3db1c7653c0821002f554dd96800ce5fdc30a6438e2bba4c6

Observation 41a642ad-beb9-4fb5-9bad-ee47340e1173 · outbound

This paper cites Adam: A Method for Stochastic Optimization.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Adam: A Method for Stochastic Optimization

Reference 45

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.260565Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.260565Z digest=sha256:9cec96d784a82e8678b2fe00ce27323d0cfdb9e8576a652b22e081e1b104890d

Observation b2095bc2-2895-4df7-8116-f7cb612b1701 · outbound

This paper cites Attention is all you need,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Attention is all you need,

Reference 46

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.265372Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.265372Z digest=sha256:dc1a37b0787c0c8685776e6fa40ec8535c45b8cfc1e479c82068d14a419770a0

Observation d0d9d678-23ed-433a-89ef-768aa8ff3b7b · outbound

This paper cites Learning from Protein Structure with Geometric Vector Perceptrons.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Learning from Protein Structure with Geometric Vector Perceptrons

Reference 47

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.270401Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.270401Z digest=sha256:a9886e6329ebfbe60b3ac138b5c03f602d8671cab0979749c9578fc9e4172f33

Observation 4266702c-cec8-4511-9c86-ed6abc719923 · outbound

This paper cites Global-context aware generative protein design,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Global-context aware generative protein design,

Reference 48

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.741480Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.275766Z digest=sha256:ab09f3bf3b90e684143d4adace52572908ac1722ad3c8c5572b3a44e35e82c5e

Observation 16c291fa-6790-4558-a277-7df93ad81cde · outbound

This paper cites Deep learning guided optimization of human antibody against sars-cov-2 variants with broad neutralization,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Deep learning guided optimization of human antibody against sars-cov-2 variants with broad neutralization,

Reference 49

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.722113Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.280914Z digest=sha256:a4a0aabf48d685384899a69780f07b80dea355bb8da90a4cb3fb7a6c50b805fb

Observation 2797d1a5-5b4e-4871-b447-9f9bedcdd9e0 · outbound

This paper cites The hdock server for integrated protein–protein docking,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization The hdock server for integrated protein–protein docking,

Reference 50

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.702979Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.286265Z digest=sha256:78f7e51dcfc58f6c44fae6b2b01e0f440fa0051d63a5182c4c7b91547341a570

Observation 2458cc04-927a-486f-a74a-fb32a9e7b4a5 · outbound

This paper cites Language models of protein sequences at the scale of evolution enable accurate structure prediction,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Language models of protein sequences at the scale of evolution enable accurate structure prediction,

Reference 51

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.685217Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.291594Z digest=sha256:fff717171ad2ae1a2a5ccb75975f357ba8dcb84fe83dcde0c11580f3e8a08d9b

Observation 4e87d97c-e859-47f7-8739-4960b690f5c1 · outbound

This paper cites Learning to Predict Mutation Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Learning to Predict Mutation Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning

Reference 52

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.296672Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.296672Z digest=sha256:2b1239de44ae940b49d534650aa37446f4e4b509fa7da58ad62a1a8e32064085

Observation 510ec5d7-7f2c-4a96-b277-1396b24cf02a · outbound

This paper cites Multi-level Interaction Modeling for Protein Mutational Effect Prediction.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Multi-level Interaction Modeling for Protein Mutational Effect Prediction

Reference 53

Resolution
unresolved
no resolver link, observed 2026-08-07T04:52:27.301516Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T04:52:27.301516Z digest=sha256:130d2b272c0c63912978ed643b7b2c43f4aeb216076c4cae43fb7df2297f91b0

Observation 351337d0-fadf-4790-8240-5be09d10fe76 · outbound

This paper cites Foldx 5.0: working with rna, small molecules and a new graphical interface,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization Foldx 5.0: working with rna, small molecules and a new graphical interface,

Reference 54

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.668996Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.306696Z digest=sha256:c11aabee370e18b04fe7b76e5a4c10024b6883b61f0b20ae31153b5ccf9e4505

Observation 57d386b1-c3b8-441a-8594-2bc7ebcb3b2e · outbound

This paper cites The rosetta all-atom energy function for macromolecular modeling and design,.

EnerBridge-DPO: Energy-Guided Protein Inverse Folding with Markov Bridges and Direct Preference Optimization The rosetta all-atom energy function for macromolecular modeling and design,

Reference 55

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T04:52:27.651920Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-08T06:32:00.761636+00:00.

source=pdf_text observed=2026-08-07T04:52:27.311643Z digest=sha256:6330f57b673f2009da9e9642f7ee88e32b530685b002f4cb5a247de0d4cbd1ce

Pith citing papers

No inbound Pith citation observations are available.