Typed states for the displayed outbound observations.
Source: paper_references, paper_reference_links, observed 2026-05-09T19:31:31.963035Z
Paper Citation Record · LEDGER
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design
As of 4 August 2026, this Paper Citation Record lists 29 of 29 outbound references and 2 inbound Pith citation observations for arXiv:2605.02937.
A citation records a reference. It does not transfer a finding from one paper to another.
Coverage vector
One-hop event checks from named stored sources.
Source: scholarly_work_events, retraction_status_cache, observed 2026-08-04T06:34:03.388597+00:00
Pith citing papers itemized under the disclosed page cap.
Source: paper_references, paper_reference_links, observed 2026-08-01T22:38:27.212657Z
A source-named dated measurement, never combined with another source.
Source: pith, observed 2026-07-04T10:09:44.972677Z
Reference resolution
29 of 29 outbound references displayed
- verified exact14
- verified fuzzy10
- unresolved3
- parse uncertain0
- malformed identifier0
- metadata mismatch2
External citation measurements
No source-named external measurement is stored.
Outbound references
Observation 0c4c6d8f-7094-4af1-aa82-e80656b7a463 · outbound
This paper cites Toward de novo protein design from natural language.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Toward de novo protein design from natural language.bioRxiv, pp
Reference 1
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.165035Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 8fd0ebaa-7106-41ee-895a-549e10dbce2c · outbound
This paper cites Emerging Properties in Unified Multimodal Pretraining.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Emerging Properties in Unified Multimodal Pretraining
Reference 2
- Resolution
- verified exact
- local_arxiv, observed 2026-05-11T15:36:13.494361Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation b9607ac9-13ee-493a-b39d-b136acf34690 · outbound
This paper cites UniIF: Unified Molecule Inverse Folding.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design UniIF: Unified Molecule Inverse Folding
Reference 3
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.377238Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation e9ed6278-fbca-4540-b7e5-d3e74db9754f · outbound
This paper cites Protenix-Mini: Efficient Structure Predictor via Compact Architecture, Few-Step Diffusion and Switchable pLM.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Protenix-Mini: Efficient Structure Predictor via Compact Architecture, Few-Step Diffusion and Switchable pLM
Reference 4
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.427356Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation ca1cfeb3-c30b-44cb-a936-25802ff67b9d · outbound
This paper cites ProtDAT: A Unified Framework for Protein Sequence Design from Any Protein Text Description.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design ProtDAT: A Unified Framework for Protein Sequence Design from Any Protein Text Description
Reference 5
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.212265Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation a5ec3bea-7f9e-4fa3-898f-9f1384accbb7 · outbound
This paper cites ProLLM: Protein Chain-of-Thoughts Enhanced LLM for Protein-Protein Interaction Prediction.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design ProLLM: Protein Chain-of-Thoughts Enhanced LLM for Protein-Protein Interaction Prediction
Reference 6
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.920211Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 7f4840b3-c8a9-49df-931d-04c59854b1ff · outbound
This paper cites UniMoMo: Unified Generative Modeling of 3D Molecules for De Novo Binder Design.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design UniMoMo: Unified Generative Modeling of 3D Molecules for De Novo Binder Design
Reference 7
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:41:04.878356Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation c3825c16-be69-44ac-aa0b-5a95b08bca3a · outbound
This paper cites Xiaomi mimo-vl-miloco technical report.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Xiaomi mimo-vl-miloco technical report
Reference 8
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.685332Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 733539f3-d13e-4cf1-85e7-792c16d10660 · outbound
This paper cites an unresolved cited work.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Unresolved cited work
Reference 9
- Resolution
- unresolved
- raw_fallback, observed 2026-05-25T21:17:11.168353Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 3f2d514c-c53c-49ca-96d0-65bee06bd578 · outbound
This paper cites Decoupled Weight Decay Regularization.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Decoupled Weight Decay Regularization
Reference 10
- Resolution
- verified exact
- local_arxiv, observed 2026-05-11T15:36:13.844538Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation f0cac398-648c-4f0a-aea3-d2bb63b0c55a · outbound
This paper cites Flexible and controllable protein design by prefix-tuning large-scale protein language models.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Flexible and controllable protein design by prefix-tuning large-scale protein language models.bioRxiv, pp
Reference 11
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.173337Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 74acc915-3ece-4a8c-87ce-647c38f8aa4b · outbound
This paper cites ProtTeX: Structure-In-Context Reasoning and Editing of Proteins with Large Language Models.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design ProtTeX: Structure-In-Context Reasoning and Editing of Proteins with Large Language Models
Reference 12
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.965296Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 9e71a72b-185b-42dc-a2a0-3dcae1c87d6f · outbound
This paper cites Bindcraft: one-shot design of functional protein binders.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Bindcraft: one-shot design of functional protein binders.bioRxiv, pp
Reference 13
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.177702Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation ff246f71-4189-4a46-9355-260363a21b3e · outbound
This paper cites P., Matusovsky, O., Parsa, M.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design P., Matusovsky, O., Parsa, M
Reference 14
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.181809Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 1ab63982-2493-4755-94f3-5aa044e4a08a · outbound
This paper cites Score-Based Generative Modeling through Stochastic Differential Equations.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Score-Based Generative Modeling through Stochastic Differential Equations
Reference 15
- Resolution
- metadata mismatch
- local_arxiv, observed 2026-05-11T15:36:13.074451Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 58c7bebd-c259-4397-b70c-3780ab18b08e · outbound
This paper cites Instructpro: Natural language guided ligand-binding protein design.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Instructpro: Natural language guided ligand-binding protein design
Reference 16
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.196148Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation acadf18f-68df-498d-bc33-fb84baf98177 · outbound
This paper cites Boltzgen: Toward universal binder design.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Boltzgen: Toward universal binder design.bioRxiv, pp
Reference 17
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.161219Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation a6bcb0b5-2d3a-4801-aa9f-66113e5c0874 · outbound
This paper cites Pxdesign: Fast, modular, and accurate de novo design of protein binders.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Pxdesign: Fast, modular, and accurate de novo design of protein binders.bioRxiv, pp
Reference 18
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.186257Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 43d08761-6f3f-434f-84dd-7c211e251d6d · outbound
This paper cites Diffusion probabilistic modeling of protein backbones in 3D for the motif-scaffolding problem.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Diffusion probabilistic modeling of protein backbones in 3D for the motif-scaffolding problem
Reference 19
- Resolution
- metadata mismatch
- arxiv_id, observed 2026-05-11T15:36:13.545271Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation c887db91-64e2-4aa4-ae6e-a71069de84d9 · outbound
This paper cites A generative foundation model for antibody design.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design A generative foundation model for antibody design.bioRxiv, pp
Reference 20
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.148627Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 790112d7-b963-4296-8a1e-622b4a9e4837 · outbound
This paper cites Qwen3 Technical Report.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Qwen3 Technical Report
Reference 21
- Resolution
- verified exact
- local_arxiv, observed 2026-05-11T15:36:13.264583Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation e144ed2c-1e18-4554-a833-7667c1efe55f · outbound
This paper cites ProteinBench: A Holistic Evaluation of Protein Foundation Models.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design ProteinBench: A Holistic Evaluation of Protein Foundation Models
Reference 22
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.326182Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 43ed63cc-2bbc-44e2-917d-7ca83365fd78 · outbound
This paper cites High-affinity protein binder design via flow matching and in silico maturation.bioRxiv, pp.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design High-affinity protein binder design via flow matching and in silico maturation.bioRxiv, pp
Reference 23
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.144496Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 63bb2855-8794-4b41-8f27-8fe2d83c0db4 · outbound
This paper cites De novo design of high-affinity protein binders with AlphaProteo.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design De novo design of high-affinity protein binders with AlphaProteo
Reference 24
- Resolution
- verified exact
- arxiv_id, observed 2026-05-11T15:36:13.207553Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 77c8d7d5-a551-4dfe-9b78-09df33141d65 · outbound
This paper cites CMADiff: Cross-Modal Aligned Diffusion for Controllable Protein Generation.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design CMADiff: Cross-Modal Aligned Diffusion for Controllable Protein Generation
Reference 25
- Resolution
- verified exact
- arxiv_id, observed 2026-05-27T02:05:02.644539Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation ca42cec4-6e19-4fbd-8c94-ce4b1067cc48 · outbound
This paper cites Related Work Protein Binder and Antibody Design.Protein–protein interactions (PPIs) underlie most cellular processes and represent a major class of therapeutic targets.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Related Work Protein Binder and Antibody Design.Protein–protein interactions (PPIs) underlie most cellular processes and represent a major class of therapeutic targets
Reference 26
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.156766Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 8be58cc0-880e-47ae-8d86-59de461c7b0e · outbound
This paper cites an unresolved cited work.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Unresolved cited work
Reference 27
- Resolution
- unresolved
- raw_fallback, observed 2026-05-25T21:17:11.135745Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation f239ef1b-99f9-4ace-9de8-2105d27eea9a · outbound
This paper cites an unresolved cited work.
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Unresolved cited work
Reference 28
- Resolution
- unresolved
- raw_fallback, observed 2026-05-25T21:17:11.139506Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 50d33903-6731-43d4-a317-405e0de1ab72 · outbound
This paper cites Recently, DL maturation methods similarly condition generation on predefined anchors or interaction patterns (Yu et al., 2026).
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design Recently, DL maturation methods similarly condition generation on predefined anchors or interaction patterns (Yu et al., 2026)
Reference 29
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-05-25T21:17:11.152164Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Pith citing papers
Observation 055a7c6c-d60d-4ae0-a80a-8428d1b53930 · inbound
Deciphering Fingerprints of 3D Molecular Surfaces for Accurate Epitope Prediction cites this paper.
Deciphering Fingerprints of 3D Molecular Surfaces for Accurate Epitope Prediction Proteo-R1: Reasoning Foundation Models for De Novo Protein Design
Reference 86
- Resolution
- verified exact
- local_arxiv, observed 2026-07-04T10:09:44.974100Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-04T06:34:03.388597+00:00.
Observation 95a258f1-e515-437a-8bd5-d5856505ff91 · inbound
S1-Omni: A Unified Multimodal Reasoning Model for Scientific Understanding, Prediction, and Generation cites this paper.
S1-Omni: A Unified Multimodal Reasoning Model for Scientific Understanding, Prediction, and Generation Proteo-R1: Reasoning Foundation Models for De Novo Protein Design
Reference 31
- Resolution
- unresolved
- no resolver link, observed 2026-08-01T22:38:27.212657Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.