Pith. sign in

Paper Citation Record · LEDGER

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction

As of 17 August 2026, this Paper Citation Record lists 40 of 40 outbound references and 0 inbound Pith citation observations for arXiv:2505.20036.

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

pith.paper-citation-record.v1
2505.20036 v1

Coverage vector

measured 40 of 40 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-07T14:04:45.745996Z

measured 40 of 40 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-17T06:30:58.91139+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

40 of 40 outbound references displayed

  • verified exact1
  • verified fuzzy24
  • unresolved15
  • parse uncertain0
  • malformed identifier0
  • metadata mismatch0

External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 6c99f1a4-4f96-45e0-a519-2ae2cc16936c · outbound

This paper cites History of protein–protein interactions: From egg- white to complex networks.Proteomics, 12(10):1478–1498, 2012.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction History of protein–protein interactions: From egg- white to complex networks.Proteomics, 12(10):1478–1498, 2012

Reference 1

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:49.737805Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.105498Z digest=sha256:48dd2602870075c902167e083bfe428377d026b4423caf0b226af94c0c1fbf0d

Observation 54fba32a-49cb-4730-a82c-70e0bbd8f7a4 · outbound

This paper cites Recent advances in the development of protein–protein interactions modulators: mechanisms and clinical trials.Signal transduction and targeted therapy, 5(1):213, 2020.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Recent advances in the development of protein–protein interactions modulators: mechanisms and clinical trials.Signal transduction and targeted therapy, 5(1):213, 2020

Reference 2

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:49.522748Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.243295Z digest=sha256:24b20de2f044b3a3233a22355fc66b6f2a6be48ebb0ea8123447029549a3d494

Observation cf8e6e20-4a42-433c-a33d-403e7ecb03a2 · outbound

This paper cites A novel method for protein-ligand binding affinity prediction and the related descriptors exploration.Journal of computational chemistry, 30(6):900–909, 2009.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction A novel method for protein-ligand binding affinity prediction and the related descriptors exploration.Journal of computational chemistry, 30(6):900–909, 2009

Reference 3

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:49.294796Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.395884Z digest=sha256:177a712bc5e8f07393c46f2d7c3f2241b76602abd93acf44d57dabeb3987fb50

Observation 35cbf112-ba71-4aa2-9917-eb63c43dd95c · outbound

This paper cites Ensembling methods for protein-ligand binding affinity prediction.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Ensembling methods for protein-ligand binding affinity prediction

Reference 4

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:49.124137Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.562597Z digest=sha256:ba37408a5b7aa84164fc307d96193aa8c94adc22c1a3f7399852c03b12fed2d2

Observation 03d228a8-939d-4278-a627-d94a6553fdfa · outbound

This paper cites Exploring the computational methods for protein- ligand binding site prediction.Computational and structural biotechnology journal, 18:417–426, 2020.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Exploring the computational methods for protein- ligand binding site prediction.Computational and structural biotechnology journal, 18:417–426, 2020

Reference 5

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.946570Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.648900Z digest=sha256:e378361f1b62001069ab0f158f89378c737484f3121b87459e6d921f689e5f7a

Observation 35c37617-1fc2-4c7b-88f7-ce7263913fae · outbound

This paper cites Binding affinity prediction for protein–ligand complex using deep attention mechanism based on intermolecular interactions.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Binding affinity prediction for protein–ligand complex using deep attention mechanism based on intermolecular interactions

Reference 6

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.788901Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.737159Z digest=sha256:dd7d8eee67b8c41cc5bcc537a78381bfdb9b6ebade51413b837c04c5d77a6a65

Observation 8319a97b-3175-4465-adb5-43238858ac5b · outbound

This paper cites Uniref clusters: a comprehensive and scalable alternative for improving sequence similarity searches.Bioinformatics, 31(6):926–932, 2015.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Uniref clusters: a comprehensive and scalable alternative for improving sequence similarity searches.Bioinformatics, 31(6):926–932, 2015

Reference 7

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:42.892443Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:42.892443Z digest=sha256:71e57032da51065eb1e0d4b20b5a3722a0207290d5c643f7fb3181b2bb92ada9

Observation dc5e8668-fa35-4e41-86d0-5d2857008978 · outbound

This paper cites Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold.Nature methods, 16(7):603–606, 2019.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold.Nature methods, 16(7):603–606, 2019

Reference 8

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.634413Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:42.981520Z digest=sha256:932df2a44e0cd18818f6e65a00116cf42c9aeaf2df48644e76e9083fbb008c75

Observation 1d6c816e-ddbc-45ba-bac8-b12b9effc773 · outbound

This paper cites an unresolved cited work.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Unresolved cited work

Reference 9

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:43.061404Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:43.061404Z digest=sha256:0173054ae82a7e088e288dbc31460719c0a8ae532b4c4b4ccb793c6b49fa0360

Observation 046315f6-3306-400c-817d-d44d5a48c158 · outbound

This paper cites Prottrans: Towards cracking the language of life’s code through 500 self-supervised deep learning and high performance computing [j].

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Prottrans: Towards cracking the language of life’s code through 500 self-supervised deep learning and high performance computing [j]

Reference 10

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.512461Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:43.147421Z digest=sha256:6e81678ee7983d74237a25b231182efc46506692a1b9f5eda0ae27c100a16cf5

Observation 7a196524-b7d5-4509-9e3f-e456bd65916a · outbound

This paper cites Evolutionary-scale prediction of atomic-level protein structure with a language model.Science, 379(6637):1123–1130, 2023.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Evolutionary-scale prediction of atomic-level protein structure with a language model.Science, 379(6637):1123–1130, 2023

Reference 11

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:43.254424Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:43.254424Z digest=sha256:1bf5ecdd970d8cbab50ccd05478db37029da62183190d9019cf714dc479358ba

Observation bc68fa91-3975-4693-943b-101514512a0d · outbound

This paper cites Ankh: Optimized Protein Language Model Unlocks General-Purpose Modelling.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Ankh: Optimized Protein Language Model Unlocks General-Purpose Modelling

Reference 12

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:43.324966Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:43.324966Z digest=sha256:a07acdfc8ee846bbe9519819d46a57213ee40b3f0ccfb141aba5d97c847fefd2

Observation 3ae4d8a5-5b9a-42bb-95f4-e5c2fe023a0b · outbound

This paper cites ankh2-ext1 (revision 286cb6e), 2025.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction ankh2-ext1 (revision 286cb6e), 2025

Reference 13

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.306741Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:43.413107Z digest=sha256:34c161882df0e64f1665a96016254b1e61a9f1ddddded40818a92bc4e51ae2f7

Observation 59b32593-7fcd-4003-80db-7389d59a7116 · outbound

This paper cites ankh2-ext2 (revision 4c155ee), 2025.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction ankh2-ext2 (revision 4c155ee), 2025

Reference 14

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.121601Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:43.498851Z digest=sha256:45a3f7812914a452841a9ba679c7ab3189a652ede594d843c8b0cddbb4d104b6

Observation 0ce834c9-3865-4e23-8ed3-c9753a38b1b0 · outbound

This paper cites Sofroniew, Deniz Oktay, Zeming Lin, Robert Verkuil, Vincent Q.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Sofroniew, Deniz Oktay, Zeming Lin, Robert Verkuil, Vincent Q

Reference 15

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:43.594892Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:43.594892Z digest=sha256:e36a2c34288fc53b3dcf7d3c8987dcdf0ca90b1465d06fcf4cf37f748ad5fe12

Observation 2d66bb25-543c-4e94-ae1d-d9998695bf8b · outbound

This paper cites Peer: a comprehensive and multi-task benchmark for protein sequence understanding.Advances in Neural Information Processing Systems, 35:35156–35173, 2022.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Peer: a comprehensive and multi-task benchmark for protein sequence understanding.Advances in Neural Information Processing Systems, 35:35156–35173, 2022

Reference 16

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:43.731215Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:43.731215Z digest=sha256:7657dee7418abeb2a776f650c3171f9e9781df49c2eb00b7beb758e5df43253e

Observation aaa02c3b-c96d-4904-9e09-cd3dea683729 · outbound

This paper cites D-script translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions.Cell Systems, 12(10):969–982, 2021.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction D-script translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions.Cell Systems, 12(10):969–982, 2021

Reference 17

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:48.003853Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:43.817579Z digest=sha256:3d5f589bbc633ba5b7ab2bbbe84de0b7ded07a75eb58b8008a6a6f0d0da74050

Observation 07f4ed01-0fda-43ad-b5ef-419565e2159e · outbound

This paper cites Topsy- turvy: integrating a global view into sequence-based ppi prediction.Bioinformatics, 38 (Supplement_1):i264–i272, 2022.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Topsy- turvy: integrating a global view into sequence-based ppi prediction.Bioinformatics, 38 (Supplement_1):i264–i272, 2022

Reference 18

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.843487Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:43.950847Z digest=sha256:594bb382313e9bf89bcc3cb736a957d5831c41cac8d3a2f2802500ab755a58e0

Observation eabbc64b-cf0c-47b6-a6e8-7217735105f1 · outbound

This paper cites Saprot: Protein language modeling with structure-aware vocabulary.bioRxiv, pages 2023–10, 2023.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Saprot: Protein language modeling with structure-aware vocabulary.bioRxiv, pages 2023–10, 2023

Reference 19

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:44.055078Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:44.055078Z digest=sha256:5aec4764f20cd18f0fd47d26f12df72cdb4445191e22f96810883a961898f209

Observation 751f973b-1c5e-4032-ab91-44166b08a455 · outbound

This paper cites Multifaceted protein–protein interaction prediction based on siamese residual rcnn.Bioinformatics, 35(14):i305–i314, 2019.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Multifaceted protein–protein interaction prediction based on siamese residual rcnn.Bioinformatics, 35(14):i305–i314, 2019

Reference 20

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.673970Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.124590Z digest=sha256:b910b1f195f04234ce6f96b4eb3e081575ec038b07132eaa4608bef67bc2e6f0

Observation cb2c1cfa-ab1d-4c1d-8c57-bf9750ef46fe · outbound

This paper cites Mu- tation effect estimation on protein–protein interactions using deep contextualized representation learning.NAR genomics and bioinformatics, 2(2):lqaa015, 2020.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Mu- tation effect estimation on protein–protein interactions using deep contextualized representation learning.NAR genomics and bioinformatics, 2(2):lqaa015, 2020

Reference 21

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.501805Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.228402Z digest=sha256:33446d54cdfe6cf1e00cc870b6f5e71dff8c94cb3ee3dec5a3c89a8d0fc895b6

Observation f12e7de8-760a-4dfa-aba8-302a8b4b42f1 · outbound

This paper cites Ddmut-ppi: predicting effects of mutations on protein–protein interactions using graph-based deep learning.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Ddmut-ppi: predicting effects of mutations on protein–protein interactions using graph-based deep learning

Reference 22

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.316934Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.351797Z digest=sha256:90cdf1e1b4e3f8f2b8db80c36480d7be5d2f530e060043f64d5221f446851fd6

Observation b38f9df0-c5da-48fd-8e1f-9807adf81de7 · outbound

This paper cites Ppb-affinity: Protein-protein binding affinity dataset for ai-based protein drug discovery.Scientific Data, 11(1):1–11, 2024.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Ppb-affinity: Protein-protein binding affinity dataset for ai-based protein drug discovery.Scientific Data, 11(1):1–11, 2024

Reference 23

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.153059Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.429538Z digest=sha256:857ea0a52bcf5b5cc8d0034a7382bb9846d8d526ad2e7c62ef13874c1cee867e

Observation c870f26a-3973-4ed8-b586-29029ab0b941 · outbound

This paper cites Datasets: A Community Library for Natural Language Processing.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Datasets: A Community Library for Natural Language Processing

Reference 24

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:44.497007Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:44.497007Z digest=sha256:85f850b60fb8e090a2dcf9996a40ffe117b1bf5cd1e5972c6e8d747014560773

Observation 93432789-213f-40e3-8c00-535b5959f681 · outbound

This paper cites Skempi 2.0: an updated benchmark of changes in protein–protein binding energy, kinetics and thermodynamics upon mutation.Bioinformatics, 35(3):462–469, 2019.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Skempi 2.0: an updated benchmark of changes in protein–protein binding energy, kinetics and thermodynamics upon mutation.Bioinformatics, 35(3):462–469, 2019

Reference 25

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:47.044997Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.562867Z digest=sha256:0a2527356e74991e76b7c47afd81fbc0375e78a9c07c9f5b1220be442047a1f0

Observation d4f5649f-1435-4732-a0cd-45e6b3fcf200 · outbound

This paper cites Proteinflow: a python library to pre-process protein structure data for deep learning applications.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Proteinflow: a python library to pre-process protein structure data for deep learning applications

Reference 26

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.911258Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.645475Z digest=sha256:c8809782e0c2a14ed13f5525156d677a2cb1de64a9a284fe0c76a04a105e0823

Observation e8938a73-b40c-4fc3-9bc3-c256a7feafeb · outbound

This paper cites Deeploc: prediction of protein subcellular localization using deep learning.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Deeploc: prediction of protein subcellular localization using deep learning

Reference 27

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:44.721725Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:44.721725Z digest=sha256:e5c54c2e2f1e177c9effbc9778adcf0ad4e1ea0ab90f4b2886b1b6744e82482b

Observation 57880f12-7f9c-4927-8a64-dfa7fd8ed292 · outbound

This paper cites Deeploc 2.0: multi-label subcellular localization prediction using protein language models.Nucleic acids research, 50(W1):W228–W234, 2022.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Deeploc 2.0: multi-label subcellular localization prediction using protein language models.Nucleic acids research, 50(W1):W228–W234, 2022

Reference 28

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.783710Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.814412Z digest=sha256:55ea7d9583cbd05067b746ce2a4ab65155a09c71c624790764db12142fb2c745

Observation 0f4f7754-5c0c-4731-9cf5-6310a615fd0e · outbound

This paper cites Mutabind2: predicting the impacts of single and multiple mutations on protein-protein interactions.Iscience, 23(3), 2020.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Mutabind2: predicting the impacts of single and multiple mutations on protein-protein interactions.Iscience, 23(3), 2020

Reference 29

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.623393Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.884098Z digest=sha256:7c85fb7697f0d969cf3f7b87f907fa54d2e72e72deb81516ba94bfb830b3fb7f

Observation 38b63fa1-80ca-4425-8b67-7a4407c4b043 · outbound

This paper cites Saambe-3d: predicting effect of mutations on protein–protein interactions.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Saambe-3d: predicting effect of mutations on protein–protein interactions

Reference 30

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.501071Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:44.961797Z digest=sha256:37133a54aa23e98eef209c6bb139391fdf2860d6e8aae5f48c91b144da0636a6

Observation b69e8a71-6ed3-4ed6-a6c9-2ebe9c6e5a2d · outbound

This paper cites Revealing data leakage in protein interaction benchmarks.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Revealing data leakage in protein interaction benchmarks

Reference 31

Resolution
verified exact
local_arxiv, observed 2026-08-07T14:04:45.977693Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:45.082498Z digest=sha256:2f2248c62816636ea1f79451e38c1fb942ea53319f9b0ec5f75cc70395bbaccb

Observation fe3fbb21-bcbb-49dd-8ca9-9610f90ba0dd · outbound

This paper cites Quantification of biases in predictions of protein–protein binding affinity changes upon mutations.Briefings in bioinformatics, 25(1): bbad491, 2024.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Quantification of biases in predictions of protein–protein binding affinity changes upon mutations.Briefings in bioinformatics, 25(1): bbad491, 2024

Reference 32

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.374996Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:45.161896Z digest=sha256:53b25f1cbc7821b18ddef1ad71f98becb898b057635db0628748cf2a5738c46e

Observation 41723e62-2e4b-45dd-a65a-a2425d9f5a37 · outbound

This paper cites Mmseqs2 enables sensitive protein sequence searching for the analysis of massive data sets.Nature biotechnology, 35(11):1026–1028, 2017.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Mmseqs2 enables sensitive protein sequence searching for the analysis of massive data sets.Nature biotechnology, 35(11):1026–1028, 2017

Reference 33

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.222353Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.222353Z digest=sha256:7b1b7b9c06c2b376e57db9b9cf2a07b10d2557b6cd9270b44713e286614bbb72

Observation 124ed1fd-7dc1-4ebb-9bc1-dc21e6a23e75 · outbound

This paper cites Robust deep learning–based protein sequence design using proteinmpnn.Science, 378(6615):49–56, 2022.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Robust deep learning–based protein sequence design using proteinmpnn.Science, 378(6615):49–56, 2022

Reference 34

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.307846Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.307846Z digest=sha256:2b1cbcceb2205e39e26033a0b44b8b9a8a915d82a15af47df60e598ace232625

Observation 3dc52373-67e8-4d34-9c64-4f544d2cde9f · outbound

This paper cites Evaluating protein transfer learning with tape.Advances in neural information processing systems, 32, 2019.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Evaluating protein transfer learning with tape.Advances in neural information processing systems, 32, 2019

Reference 35

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.383121Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.383121Z digest=sha256:d89a98b0feb66ad0a840f3b0a3b8f7af50919fea046529da1c9cd2811c0d44be

Observation 9540d6ef-bede-44ce-a078-3401dd7a3883 · outbound

This paper cites Deepsol: a deep learning framework for sequence-based protein solubility prediction.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Deepsol: a deep learning framework for sequence-based protein solubility prediction

Reference 36

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.451571Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.451571Z digest=sha256:24a0d2919662ac36e2a249190f0706e32e9aff5e7e4b89b59d6d55a8ca72ede5

Observation b646c805-7ef6-490e-b377-f9cca3708d92 · outbound

This paper cites Attention is all you need.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Attention is all you need

Reference 37

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.525142Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.525142Z digest=sha256:090e13ba588d13a9c6e9c25a78b3ecf4ab75f68fe7c231e919df2dc24b1a7f98

Observation 733137e8-afab-4b87-a1f3-5c3d0fbb9f0c · outbound

This paper cites Con- vbert: Improving bert with span-based dynamic convolution.Advances in Neural Information Processing Systems, 33:12837–12848, 2020.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Con- vbert: Improving bert with span-based dynamic convolution.Advances in Neural Information Processing Systems, 33:12837–12848, 2020

Reference 38

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.268240Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:45.597983Z digest=sha256:eea30da24bc112764e276b01014f10c9accd6790d46876c32f9e9a09c7c1bb77

Observation 3f7448f9-d861-43ac-abb7-a44bb52125e9 · outbound

This paper cites PyTorch 2: Faster Machine Learning Through Dynamic Python Bytecode Transformation and Graph Compilation.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction PyTorch 2: Faster Machine Learning Through Dynamic Python Bytecode Transformation and Graph Compilation

Reference 39

Resolution
unresolved
no resolver link, observed 2026-08-07T14:04:45.676854Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

source=pdf_text observed=2026-08-07T14:04:45.676854Z digest=sha256:67dbc64bc1136c3866f7d97d55f8ab7253d1615578d78e81dbbbe070383b482c

Observation 31989c2d-9c9e-4769-ac6e-71e84a75238c · outbound

This paper cites Accurate structure prediction of biomolecular interactions with alphafold 3.Nature, 630(8016):493–500, 2024.

Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction Accurate structure prediction of biomolecular interactions with alphafold 3.Nature, 630(8016):493–500, 2024

Reference 40

Resolution
verified fuzzy
raw_fallback, observed 2026-08-07T14:04:46.104687Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-17T06:30:58.91139+00:00.

source=pdf_text observed=2026-08-07T14:04:45.745996Z digest=sha256:d224e2f53085a4abeeaf9201ab2d9788877d98aa011ca978510a883c9a18c115

Pith citing papers

No inbound Pith citation observations are available.