Typed states for the displayed outbound observations.
Source: paper_references, paper_reference_links, observed 2026-08-07T15:32:44.288828Z
Paper Citation Record · LEDGER
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction
As of 19 August 2026, this Paper Citation Record lists 20 of 20 outbound references and 4 inbound Pith citation observations for arXiv:2505.14919.
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 2026-08-19T06:32:44.657259+00:00
Pith citing papers itemized under the disclosed page cap.
Source: paper_references, paper_reference_links, observed 2026-08-02T21:54:19.333431Z
A source-named dated measurement, never combined with another source.
Source: arxiv_reference, observed 2026-07-02T22:57:26.519398Z
Reference resolution
20 of 20 outbound references displayed
- verified exact1
- verified fuzzy12
- unresolved6
- parse uncertain0
- malformed identifier1
- metadata mismatch0
External citation measurements
No source-named external measurement is stored.
Outbound references
Observation e94bc7c3-72ff-4a81-bddb-f75325144b4e · outbound
This paper cites Deep learning-based predictions of gene perturbation effects do not yet outperform simple linear methods.BioRxiv, pp.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Deep learning-based predictions of gene perturbation effects do not yet outperform simple linear methods.BioRxiv, pp
Reference 1
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:47.198551Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 6ba54060-53ee-4496-9652-c2752c8cf690 · outbound
This paper cites M., Zhou, Y., Crepaldi, L., Usluer, S., Dunham, A., Braunger, J.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction M., Zhou, Y., Crepaldi, L., Usluer, S., Dunham, A., Braunger, J
Reference 6
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:46.848272Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation b5a9d668-0409-4d0e-b125-0c57e4380811 · outbound
This paper cites K., Mathias, S.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction K., Mathias, S
Reference 9
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:46.130933Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 31f77bde-ec7e-40cc-b9af-8444f9176e7d · outbound
This paper cites A Theory for Compressibility of Graph Transformers for Transductive Learning.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction A Theory for Compressibility of Graph Transformers for Transductive Learning
Reference 10
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:43.545613Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation b2f2dc3a-c31b-4177-b77f-3a0a613957f3 · outbound
This paper cites Cellplm: pre-training of cell language model beyond single cells.BioRxiv, pp.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Cellplm: pre-training of cell language model beyond single cells.BioRxiv, pp
Reference 12
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:45.513109Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation aa3dee6f-b8ca-40dd-9a70-9e0f6220cf29 · outbound
This paper cites Overcoming Oversmoothness in Graph Convolutional Networks via Hybrid Scattering Networks.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Overcoming Oversmoothness in Graph Convolutional Networks via Hybrid Scattering Networks
Reference 13
- Resolution
- verified exact
- local_arxiv, observed 2026-08-07T15:32:44.525052Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation c588f81f-f5de-4e30-9eb0-2519dc8419bd · outbound
This paper cites Cayley Graph Propagation.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Cayley Graph Propagation
Reference 14
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:43.878371Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation 74dd4722-aa39-48af-9165-c22820af53c2 · outbound
This paper cites R., Hill, A., and Moccia, R.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction R., Hill, A., and Moccia, R
Reference 15
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:45.302427Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation c11e40e2-d673-4894-bf2b-01b408173d56 · outbound
This paper cites A., Borja, R.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction A., Borja, R
Reference 18
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:45.042571Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 70816761-9e81-4916-9338-84e53eed4784 · outbound
This paper cites , vN ⋆ } and edges E⊂V×V representing gene-gene interactions.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction , vN ⋆ } and edges E⊂V×V representing gene-gene interactions
Reference 19
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:44.854260Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 4c98bfc3-2880-4d5b-acd4-ccb784d364f0 · outbound
This paper cites Exphormer.
Reference 20
- Resolution
- malformed identifier
- raw_fallback, observed 2026-08-07T15:32:44.709355Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 0909a92f-8b09-4f3b-9f87-aea20f270440 · outbound
This paper cites Z., and Szalai, B.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Z., and Szalai, B
Reference 2004
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:47.026842Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 6917c60e-4a6e-4368-b54f-14f37623f8d7 · outbound
This paper cites A Generalization of Transformer Networks to Graphs.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction A Generalization of Transformer Networks to Graphs
Reference 2016
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:43.189458Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation dd10f9a0-97a9-4839-bb95-c7993345663d · outbound
This paper cites Modeling and predicting single-cell multi-gene perturbation responses with sclambda.bioRxiv, pp.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Modeling and predicting single-cell multi-gene perturbation responses with sclambda.bioRxiv, pp
Reference 2018
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:45.837626Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 8f3a1024-df19-420f-9e13-4d45afb15271 · outbound
This paper cites M., Nassar, M., Osi´ nski, B., Eksi, R., Zhang, K., and Graepel, T.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction M., Nassar, M., Osi´ nski, B., Eksi, R., Zhang, K., and Graepel, T
Reference 2019
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:44.020757Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation 9edd387b-b7b6-4801-9dd0-4e6310345e4a · outbound
This paper cites Link prediction on multilayer networks through learning of within-layer and across-layer node-pair structural features and node embedding similarity.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Link prediction on multilayer networks through learning of within-layer and across-layer node-pair structural features and node embedding similarity
Reference 2021
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:45.196380Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation e3b98ce1-5610-49a6-a587-1cb6e195a520 · outbound
This paper cites How does over-squashing affect the power of GNNs?.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction How does over-squashing affect the power of GNNs?
Reference 2022
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:43.096283Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation 4b443eb4-cbb6-4e8b-97aa-b68b68984038 · outbound
This paper cites The reactome pathway knowledgebase 2024.Nucleic acids research, 52(D1): D672–D678,.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction The reactome pathway knowledgebase 2024.Nucleic acids research, 52(D1): D672–D678,
Reference 2023
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:46.315311Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation ffc41ddb-5372-46fc-a88e-fc479da95e48 · outbound
This paper cites Benchmarking Transcriptomics Foundation Models for Perturbation Analysis : one PCA still rules them all.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction Benchmarking Transcriptomics Foundation Models for Perturbation Analysis : one PCA still rules them all
Reference 2024
- Resolution
- unresolved
- no resolver link, observed 2026-08-07T15:32:42.924913Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation 8fd9c4c3-dd6e-4ac7-8f1a-04a91a03c239 · outbound
This paper cites S., Battle, A., and Cahan, P.
TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction S., Battle, A., and Cahan, P
Reference 2025
- Resolution
- verified fuzzy
- raw_fallback, observed 2026-08-07T15:32:46.603364Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Pith citing papers
Observation fe9852c4-9d7e-426f-ac63-40d9848dc454 · inbound
Learning Adaptive Perturbation-Conditioned Contexts for Robust Transcriptional Response Prediction cites this paper.
Learning Adaptive Perturbation-Conditioned Contexts for Robust Transcriptional Response Prediction TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction
Reference 2018
- Resolution
- unresolved
- no resolver link, observed 2026-08-02T21:54:19.333431Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.
Observation 4f72e0d1-fcd6-4099-b03f-7fc1acc616de · inbound
What Makes a Representation Good for Single-Cell Perturbation Prediction? cites this paper.
What Makes a Representation Good for Single-Cell Perturbation Prediction? TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction
Reference 122
- Resolution
- verified exact
- arxiv_id, observed 2026-05-20T08:08:08.859117Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation d2c267b5-b10e-4a06-b89f-b26b5fecdb9a · inbound
Knowledge Graphs and Reasoning LLMs for Finding Simple Yet Effective Transcriptomic Perturbation Predictors cites this paper.
Knowledge Graphs and Reasoning LLMs for Finding Simple Yet Effective Transcriptomic Perturbation Predictors TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction
Reference 19
- Resolution
- verified exact
- arxiv_id, observed 2026-07-02T22:57:26.520743Z
Source-reported events for the cited work
No event found in the named queried sources as of 2026-08-19T06:32:44.657259+00:00.
Observation 737f72ec-558c-421d-b15d-acb33a8984ee · inbound
PertReason: A Knowledge-Grounded Benchmark and Framework for Cell-State-Conditioned Mechanistic Reasoning of Perturbation Effects cites this paper.
PertReason: A Knowledge-Grounded Benchmark and Framework for Cell-State-Conditioned Mechanistic Reasoning of Perturbation Effects TxPert: Leveraging Biochemical Relationships for Out-of-Distribution Transcriptomic Perturbation Prediction
Reference 48
- Resolution
- unresolved
- no resolver link, observed 2026-08-01T14:28:21.134900Z
Source-reported events for the cited work
Unavailable: canonical work link unavailable.