Paper Citation Record · LEDGER

Platform for Representation and Integration of multimodal Molecular Embeddings

As of 9 August 2026, this Paper Citation Record lists 35 of 35 outbound references and 0 inbound Pith citation observations for arXiv:2507.07367.

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

pith.paper-citation-record.v1
2507.07367 v1

Coverage vector

measured 35 of 35 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-06T18:48:08.798700Z

measured 35 of 35 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-09T06:31:02.800959+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

35 of 35 outbound references displayed

verified exact1
verified fuzzy27
unresolved6
parse uncertain1
malformed identifier0
metadata mismatch0

External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 05cbc9dd-2c67-455d-bd32-4178178a0b2f · outbound

This paper cites an unresolved cited work.

Platform for Representation and Integration of multimodal Molecular Embeddings Unresolved cited work

Reference 1

Resolution: unresolved; raw_fallback, observed 2026-08-06T18:48:11.424166Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 3c51602f-9571-4d4b-bb29-d827534c7714 · outbound

This paper cites an unresolved cited work.

Platform for Representation and Integration of multimodal Molecular Embeddings Unresolved cited work

Reference 2

Resolution: unresolved; raw_fallback, observed 2026-08-06T18:48:11.390299Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 7469d7a9-84a9-4d11-b0d0-d34600b10888 · outbound

This paper cites Local genetic effects on gene expression across 44 human tissues.BioRxiv, page 074450, 2016.

Platform for Representation and Integration of multimodal Molecular Embeddings Local genetic effects on gene expression across 44 human tissues.BioRxiv, page 074450, 2016

Reference 3

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.373830Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation e96a1434-b5e7-4aa9-a999-9759e7d3f7aa · outbound

This paper cites Deeploc: prediction of protein subcellu- lar localization using deep learning.Bioinformatics, 33(21):3387–3395, 2017.

Platform for Representation and Integration of multimodal Molecular Embeddings Deeploc: prediction of protein subcellu- lar localization using deep learning.Bioinformatics, 33(21):3387–3395, 2017

Reference 4

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.357968Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 4fc51b24-a143-4adc-9e85-93ceb463e052 · outbound

This paper cites Gene ontology: tool for the unification of biology.Nature genetics, 25(1):25–29, 2000.

Platform for Representation and Integration of multimodal Molecular Embeddings Gene ontology: tool for the unification of biology.Nature genetics, 25(1):25–29, 2000

Reference 5

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.342033Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 56a5cf06-cf0c-485e-85d4-71cb52cb8090 · outbound

This paper cites Multi-relational poincaré graph embeddings.Advances in neural information processing systems, 32, 2019.

Platform for Representation and Integration of multimodal Molecular Embeddings Multi-relational poincaré graph embeddings.Advances in neural information processing systems, 32, 2019

Reference 6

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.327378Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 8665b0e8-4081-4084-9106-d7f251e98398 · outbound

This paper cites Translating embeddings for modeling multi- relational data.Advances in neural information processing systems, 26, 2013.

Platform for Representation and Integration of multimodal Molecular Embeddings Translating embeddings for modeling multi- relational data.Advances in neural information processing systems, 26, 2013

Reference 7

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.311799Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 5acec638-024e-4a25-9fc3-7d386fbb6546 · outbound

This paper cites Eval- uation of input data modality choices on functional gene embeddings.NAR Genomics and Bioinformat- ics, 5(4):lqad095, 2023.

Platform for Representation and Integration of multimodal Molecular Embeddings Eval- uation of input data modality choices on functional gene embeddings.NAR Genomics and Bioinformat- ics, 5(4):lqad095, 2023

Reference 8

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.295652Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation b6c2ce31-9fc1-4ff1-83ea-7b02a09eff8e · outbound

This paper cites Genept: a simple but effective foundation model for genes and cells built from chatgpt.bioRxiv, pages 2023–10, 2024.

Platform for Representation and Integration of multimodal Molecular Embeddings Genept: a simple but effective foundation model for genes and cells built from chatgpt.bioRxiv, pages 2023–10, 2024

Reference 9

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.279940Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 24b67e44-3f5b-4e70-92cc-bce7a9f0ec52 · outbound

This paper cites scgpt: toward building a foundation model for single- cell multi-omics using generative ai.Nature Methods, 21(8):1470–1480, 2024.

Platform for Representation and Integration of multimodal Molecular Embeddings scgpt: toward building a foundation model for single- cell multi-omics using generative ai.Nature Methods, 21(8):1470–1480, 2024

Reference 10

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.263485Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 89464ec7-6b36-47b5-991f-d63381b3ebfc · outbound

This paper cites Gene2vec: distributed representation of genes based on co-expression.BMC genomics, 20:7–15, 2019.

Platform for Representation and Integration of multimodal Molecular Embeddings Gene2vec: distributed representation of genes based on co-expression.BMC genomics, 20:7–15, 2019

Reference 11

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.247136Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 5f263811-5ea4-478b-80ed-903855369eae · outbound

This paper cites Gene expression omnibus: Ncbi gene expression and hybridization array data repository.Nucleic acids research, 30(1):207–210, 2002.

Platform for Representation and Integration of multimodal Molecular Embeddings Gene expression omnibus: Ncbi gene expression and hybridization array data repository.Nucleic acids research, 30(1):207–210, 2002

Reference 12

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.231887Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation f83f5114-b941-4f27-b1e0-f2ccddd079ad · outbound

This paper cites Prottrans: Toward understanding the language of life through self-supervised learning.

Platform for Representation and Integration of multimodal Molecular Embeddings Prottrans: Toward understanding the language of life through self-supervised learning

Reference 13

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.214417Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 9c05ffbb-d0d7-4170-b8a2-4b71391cedb6 · outbound

This paper cites struc2vec: Learning node representations from structural identity.CoRR, 2017.

Platform for Representation and Integration of multimodal Molecular Embeddings struc2vec: Learning node representations from structural identity.CoRR, 2017

Reference 14

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.197186Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 0b249885-0257-4e93-ad03-9021a3a0c8b2 · outbound

This paper cites Canonical correlation analysis: An overview with application to learning methods.Neu- ral computation, 16(12):2639–2664, 2004.

Platform for Representation and Integration of multimodal Molecular Embeddings Canonical correlation analysis: An overview with application to learning methods.Neu- ral computation, 16(12):2639–2664, 2004

Reference 15

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.180172Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 09ce0dd6-9151-4b9f-b7b5-ab6865648d7b · outbound

This paper cites Does your model understand genes? A benchmark of gene properties for biological and text models.

Platform for Representation and Integration of multimodal Molecular Embeddings Does your model understand genes? A benchmark of gene properties for biological and text models

Reference 16

Resolution: verified exact; local_arxiv, observed 2026-08-06T18:48:08.981582Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation d9999bda-93fd-4152-a79c-4ac0726a1cd2 · outbound

This paper cites The hugo gene nomenclature committee (hgnc).Human genet- ics, 109(6), 2001.

Platform for Representation and Integration of multimodal Molecular Embeddings The hugo gene nomenclature committee (hgnc).Human genet- ics, 109(6), 2001

Reference 17

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.163537Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 6d1d414b-7a82-44a6-aee8-97b38d2bb266 · outbound

This paper cites Svcca: Singular vector canon- ical correlation analysis for deep learning dynamics 6 and interpretability.Advances in neural information processing systems, 30, 2017.

Platform for Representation and Integration of multimodal Molecular Embeddings Svcca: Singular vector canon- ical correlation analysis for deep learning dynamics 6 and interpretability.Advances in neural information processing systems, 30, 2017

Reference 18

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.147484Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 931c37fc-e06e-4bf4-bf39-2f4370329ea4 · outbound

This paper cites String v10: protein–protein interaction networks, integrated over the tree of life.Nucleic acids research, 43(D1):D447– D452, 2015.

Platform for Representation and Integration of multimodal Molecular Embeddings String v10: protein–protein interaction networks, integrated over the tree of life.Nucleic acids research, 43(D1):D447– D452, 2015

Reference 19

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.131944Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 042e0753-2b42-4bba-88e2-ec5be2a99b27 · outbound

This paper cites an unresolved cited work.

Platform for Representation and Integration of multimodal Molecular Embeddings Unresolved cited work

Reference 20

Resolution: unresolved; raw_fallback, observed 2026-08-06T18:48:11.117413Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 64e4561c-4171-4306-b51d-b54194dd8f65 · outbound

This paper cites Large language models streamline automated machine learning for clinical studies.Nature Communications, 15(1):1603, 2024.

Platform for Representation and Integration of multimodal Molecular Embeddings Large language models streamline automated machine learning for clinical studies.Nature Communications, 15(1):1603, 2024

Reference 21

Resolution: unresolved; no resolver link, observed 2026-08-06T18:48:07.539037Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 57e574b2-6699-4e39-b297-023a8e61294b · outbound

This paper cites The human protein atlas,.

Platform for Representation and Integration of multimodal Molecular Embeddings The human protein atlas,

Reference 22

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:11.092774Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 777463af-9db4-4366-a38f-4e5cb992e582 · outbound

This paper cites Transfer learning enables predic- tions in network biology.Nature, 618(7965):616–624, 2023.

Platform for Representation and Integration of multimodal Molecular Embeddings Transfer learning enables predic- tions in network biology.Nature, 618(7965):616–624, 2023

Reference 23

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:10.736929Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation c71b6073-c931-41c9-b43a-7e5ee273c979 · outbound

This paper cites Defining a can- cer dependency map.Cell, 170(3):564–576, 2017.

Platform for Representation and Integration of multimodal Molecular Embeddings Defining a can- cer dependency map.Cell, 170(3):564–576, 2017

Reference 24

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:10.462440Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation e795ae42-7fa8-4192-afae-768cae96f1d9 · outbound

This paper cites Tissue-based map of the human pro- teome.Science, 347(6220):1260419, 2015.

Platform for Representation and Integration of multimodal Molecular Embeddings Tissue-based map of the human pro- teome.Science, 347(6220):1260419, 2015

Reference 25

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:10.243219Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 1c252129-7182-4c9c-8412-756ffaaa7277 · outbound

This paper cites Biogps and mygene.

Platform for Representation and Integration of multimodal Molecular Embeddings Biogps and mygene

Reference 26

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:10.038500Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 155db665-d311-4930-b2e4-00549aef7287 · outbound

This paper cites Prgefne: predicting disease-related genesbyfastnetworkembedding.Methods, 192:3–12, 2021.

Platform for Representation and Integration of multimodal Molecular Embeddings Prgefne: predicting disease-related genesbyfastnetworkembedding.Methods, 192:3–12, 2021

Reference 27

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.897738Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 92cd8f9f-98dd-4a1a-a1b7-030a90179445 · outbound

This paper cites Know2BIO: A Comprehensive Dual-View Benchmark for Evolving Biomedical Knowledge Graphs.

Platform for Representation and Integration of multimodal Molecular Embeddings Know2BIO: A Comprehensive Dual-View Benchmark for Evolving Biomedical Knowledge Graphs

Reference 28

Resolution: unresolved; no resolver link, observed 2026-08-06T18:48:08.346049Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 32f76e44-1e0f-4cf0-a022-74fe0522110b · outbound

This paper cites Seq2seq fingerprint: An unsupervised deep molecular embedding for drug discovery.

Platform for Representation and Integration of multimodal Molecular Embeddings Seq2seq fingerprint: An unsupervised deep molecular embedding for drug discovery

Reference 29

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.766173Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 7ee9e4f6-9a46-4963-a573-536dd8b41a9e · outbound

This paper cites LinkBERT: Pretraining Language Models with Document Links.

Platform for Representation and Integration of multimodal Molecular Embeddings LinkBERT: Pretraining Language Models with Document Links

Reference 30

Resolution: unresolved; no resolver link, observed 2026-08-06T18:48:08.520961Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 6a4f8878-dcef-4df1-a1ec-787936f9af44 · outbound

This paper cites The ensembl rest api: Ensembl data for any language.Bioinformatics, 31(1):143–145, 2015.

Platform for Representation and Integration of multimodal Molecular Embeddings The ensembl rest api: Ensembl data for any language.Bioinformatics, 31(1):143–145, 2015

Reference 31

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.601328Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation c46f1232-b2b9-41d7-9caf-ef1aa7b97d29 · outbound

This paper cites A comprehensive capability analysis of gpt-3 and gpt-3.5 series models, 2023.

Platform for Representation and Integration of multimodal Molecular Embeddings A comprehensive capability analysis of gpt-3 and gpt-3.5 series models, 2023

Reference 32

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.434340Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 71d3fef4-6872-4466-9e84-35033ed66004 · outbound

This paper cites Graph embedding on biomedical networks: methods, applications and evaluations.Bioinformat- ics, 36(4):1241–1251, 2020.

Platform for Representation and Integration of multimodal Molecular Embeddings Graph embedding on biomedical networks: methods, applications and evaluations.Bioinformat- ics, 36(4):1241–1251, 2020

Reference 33

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.312091Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 435b0a74-b744-4d04-8144-80897483f4de · outbound

This paper cites geneformer- 12L-30M.

Platform for Representation and Integration of multimodal Molecular Embeddings geneformer- 12L-30M

Reference 34

Resolution: verified fuzzy; raw_fallback, observed 2026-08-06T18:48:09.166398Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Observation 99d0a1f4-5d01-493a-a60a-31cc993ec17d · outbound

This paper cites an unresolved cited work.

Platform for Representation and Integration of multimodal Molecular Embeddings Unresolved cited work

Reference 2024

Resolution: parse uncertain; raw_fallback, observed 2026-08-06T18:48:11.023539Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-09T06:31:02.800959+00:00.

Pith citing papers

No inbound Pith citation observations are available.