Paper Citation Record · LEDGER

The Dance of Atoms-De Novo Protein Design with Diffusion Model

As of 21 August 2026, this Paper Citation Record lists 38 of 38 outbound references and 0 inbound Pith citation observations for arXiv:2504.16479.

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

pith.paper-citation-record.v1
2504.16479 v1

Coverage vector

measured 38 of 38 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-16T11:06:36.178510Z

measured 38 of 38 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-21T06:32:19.484+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

38 of 38 outbound references displayed

verified exact3
verified fuzzy7
unresolved28
parse uncertain0
malformed identifier0
metadata mismatch0

External citation measurements

No source-named external measurement is stored.

Outbound references

Observation e76adb98-024b-4a14-8cd2-d7e961c7e8e1 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 1

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.668177Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 359feebb-6bee-4d9e-86d8-53a081f601dc · outbound

This paper cites De novo design of beta-sheet proteins.

The Dance of Atoms-De Novo Protein Design with Diffusion Model De novo design of beta-sheet proteins

Reference 2

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.656171Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation a69d926f-97df-4030-8776-0f15af97ae06 · outbound

This paper cites UniProt: the Universal Protein knowledgebase.

The Dance of Atoms-De Novo Protein Design with Diffusion Model UniProt: the Universal Protein knowledgebase

Reference 3

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.643159Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation e936def6-8daa-40b6-8dea-42c882ce0411 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 4

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.630898Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 46fc6fb8-85cd-4fa1-ae21-362c08ee100c · outbound

This paper cites K., Brenner, S.

The Dance of Atoms-De Novo Protein Design with Diffusion Model K., Brenner, S

Reference 5

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.619713Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation de362e16-5257-437c-be79-19c6f51969cc · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 6

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.606028Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 15e4b758-cd66-4e2c-8d39-d0359dd0fcc7 · outbound

This paper cites R., Choe, C.

The Dance of Atoms-De Novo Protein Design with Diffusion Model R., Choe, C

Reference 7

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.591688Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 99657ed5-e83c-45c5-bd99-0f5a724b2196 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 8

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.579066Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 6c82c944-8963-4961-b0f2-dbaa33d13c7c · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 9

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.566049Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation a0313147-df1b-4f2a-932c-d2bce789523f · outbound

This paper cites Sliced Score Matching: A Scalable Approach to Density and Score Estimation.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Sliced Score Matching: A Scalable Approach to Density and Score Estimation

Reference 10

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.068099Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation ebd83528-6917-4d5d-9cdb-b66a4c3fcf39 · outbound

This paper cites Denoising Diffusion Probabilistic Models.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Denoising Diffusion Probabilistic Models

Reference 11

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.072274Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 4bd7f96c-4be6-481f-8ca2-21b86e744e24 · outbound

This paper cites Denoising Diffusion Implicit Models.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Denoising Diffusion Implicit Models

Reference 12

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.076539Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 2d8184ea-5b9a-4167-a662-4e6f077e6a15 · outbound

This paper cites Score-Based Generative Modeling through Stochastic Differential Equations.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Score-Based Generative Modeling through Stochastic Differential Equations

Reference 13

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.080808Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation b6c77150-aaff-40b0-b38c-54bc2b24a538 · outbound

This paper cites & Schneider, G.

The Dance of Atoms-De Novo Protein Design with Diffusion Model & Schneider, G

Reference 14

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.552595Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 33aac4fe-8f2e-4887-8cdf-2029e718b807 · outbound

This paper cites S., Kim, J.

The Dance of Atoms-De Novo Protein Design with Diffusion Model S., Kim, J

Reference 15

Resolution: verified exact; doi, observed 2026-08-16T11:06:36.285107Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 8a8a2dad-973d-4626-97ff-f9afc7ba6f02 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 16

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.091110Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 92e880f8-ced3-4b99-9859-5eeb78b51cea · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 17

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.539531Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation f6a44d79-7e49-4847-b21e-45256ad2abe6 · outbound

This paper cites Diffusion probabilistic modeling of protein backbones in 3D for the motif-scaffolding problem.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Diffusion probabilistic modeling of protein backbones in 3D for the motif-scaffolding problem

Reference 18

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.097911Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation f665c469-0267-4ca9-a553-3f9c986c661a · outbound

This paper cites Out of Many, One: Designing and Scaffolding Proteins at the Scale of the Structural Universe with Genie 2.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Out of Many, One: Designing and Scaffolding Proteins at the Scale of the Structural Universe with Genie 2

Reference 19

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.101476Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 813f1779-a4dd-40c9-a5c2-b44715a54b1e · outbound

This paper cites & McIlvin, M.

The Dance of Atoms-De Novo Protein Design with Diffusion Model & McIlvin, M

Reference 20

Resolution: verified exact; doi, observed 2026-08-16T11:06:36.263931Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 7b1416ff-28cc-42ec-84b1-8fcb20a9d13a · outbound

This paper cites SE(3) diffusion model with application to protein backbone generation.

The Dance of Atoms-De Novo Protein Design with Diffusion Model SE(3) diffusion model with application to protein backbone generation

Reference 21

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.109278Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 894362d4-76a0-4d4e-92b8-b53aa424e78f · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 22

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.113282Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 05ce19a3-936a-4c30-ae23-d57fcfb80252 · outbound

This paper cites Variational Diffusion Models.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Variational Diffusion Models

Reference 23

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.117143Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 73cab80f-afe2-4319-a02b-8126a539f866 · outbound

This paper cites Improved Denoising Diffusion Probabilistic Models.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Improved Denoising Diffusion Probabilistic Models

Reference 24

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.121340Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation f10033c4-1af6-4328-81d9-18a76b25fd1b · outbound

This paper cites & Liu, H.

The Dance of Atoms-De Novo Protein Design with Diffusion Model & Liu, H

Reference 25

Resolution: verified exact; doi, observed 2026-08-16T11:06:36.249219Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation e27eb019-4529-4992-879e-877317444972 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 26

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.517696Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 2b55b64a-eafb-4751-9504-0aa2a173c9c0 · outbound

This paper cites Fast non-autoregressive inverse folding with discrete diffusion.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Fast non-autoregressive inverse folding with discrete diffusion

Reference 27

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.133322Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 5fb88d89-b73c-43ab-a93a-1db506ba5dcc · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 28

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.137800Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 940cd2e3-1a0d-4903-a4b1-56f60eddcbee · outbound

This paper cites TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation.

The Dance of Atoms-De Novo Protein Design with Diffusion Model TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation

Reference 29

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.141811Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 37f80abe-8f65-402d-8974-af9a5a47e888 · outbound

This paper cites Diffusion on language model encodings for protein sequence generation.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Diffusion on language model encodings for protein sequence generation

Reference 30

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.146021Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 1df871c9-2451-4c53-8dba-20559aaf86ad · outbound

This paper cites Protein Structure and Sequence Generation with Equivariant Denoising Diffusion Probabilistic Models.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Protein Structure and Sequence Generation with Equivariant Denoising Diffusion Probabilistic Models

Reference 31

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.150242Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 390924bf-fd92-4e2b-a2fe-6bcc08d531ff · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 32

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.502646Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation a45269b2-370f-4b7a-91da-81ba572395f0 · outbound

This paper cites & Zhang, H.

The Dance of Atoms-De Novo Protein Design with Diffusion Model & Zhang, H

Reference 33

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.489499Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 2b31de44-4fdd-4276-a125-40f8b0a1d1d4 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 34

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.161965Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 943e2029-c713-4215-b481-3cee314bcbca · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 35

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.476742Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 2ef9bfe8-41e9-4398-b8b4-ae8b4da84dcd · outbound

This paper cites & Samudrala, R.

The Dance of Atoms-De Novo Protein Design with Diffusion Model & Samudrala, R

Reference 36

Resolution: verified fuzzy; raw_fallback, observed 2026-08-16T11:06:36.464155Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Observation 801a71db-f6a4-4330-a640-bc818f395109 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 37

Resolution: unresolved; no resolver link, observed 2026-08-16T11:06:36.174557Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 759b8b4c-e49f-43dc-88a2-a91fef5cb6b0 · outbound

This paper cites an unresolved cited work.

The Dance of Atoms-De Novo Protein Design with Diffusion Model Unresolved cited work

Reference 38

Resolution: unresolved; raw_fallback, observed 2026-08-16T11:06:36.451170Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-21T06:32:19.484+00:00.

Pith citing papers

No inbound Pith citation observations are available.