Paper Citation Record · LEDGER

Prompt-to-Paper: Agentic AI System for Bioinformatics

As of 8 August 2026, this Paper Citation Record lists 19 of 19 outbound references and 0 inbound Pith citation observations for arXiv:2607.05456.

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

pith.paper-citation-record.v1
2607.05456 v1

Coverage vector

measured 19 of 19 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-07-11T18:16:55.324819Z

measured 19 of 19 standing notices

One-hop event checks from named stored sources.

Source: scholarly_work_events, retraction_status_cache, observed 2026-08-07T06:34:17.273281+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

19 of 19 outbound references displayed

verified exact4
verified fuzzy0
unresolved14
parse uncertain0
malformed identifier1
metadata mismatch0

External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 201c8527-3ee9-4009-8423-c395f4c96685 · outbound

This paper cites Scientific literature: Information overload,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Scientific literature: Information overload,

Reference 1

Resolution: verified exact; doi, observed 2026-07-11T18:18:10.760385Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-07T06:34:17.273281+00:00.

Observation 2c6592fe-087a-4c46-a9c7-a7021600a300 · outbound

This paper cites Why most published research findings are false,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Why most published research findings are false,

Reference 2

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation e494b7ad-eac5-4ad8-867c-41416f4c1b6c · outbound

This paper cites 1,500 scientists lift the lid on reproducibility,.

Prompt-to-Paper: Agentic AI System for Bioinformatics 1,500 scientists lift the lid on reproducibility,

Reference 3

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation b25d6870-6d00-4e8b-a921-18c7926d99de · outbound

This paper cites Rethinking retractions,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Rethinking retractions,

Reference 4

Resolution: malformed identifier; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 293d9b30-4102-4a88-a2fd-7b0b89066aee · outbound

This paper cites Retracted publications in medical imaging literature: an analysis using the retraction watch database,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Retracted publications in medical imaging literature: an analysis using the retraction watch database,

Reference 5

Resolution: verified exact; doi, observed 2026-07-11T18:18:10.744253Z

Source-reported events for the cited work

No event found in the named queried sources as of 2026-08-07T06:34:17.273281+00:00.

Observation c64787dd-2795-4922-91e3-5f319e8f5fdb · outbound

This paper cites RETRACTED: Cellular functions of spermatogonial stem cells in relation to JAK/STAT signaling pathway,.

Prompt-to-Paper: Agentic AI System for Bioinformatics RETRACTED: Cellular functions of spermatogonial stem cells in relation to JAK/STAT signaling pathway,

Reference 6

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 8b61b434-7a1f-4f84-bed4-48e88fb9d321 · outbound

This paper cites Available: https://doi.org/10.3389/fcell.2023.1339390.

Prompt-to-Paper: Agentic AI System for Bioinformatics Available: https://doi.org/10.3389/fcell.2023.1339390

Reference 7

Resolution: verified exact; arxiv_id, observed 2026-07-11T18:18:10.778292Z

Source-reported events for the cited work

retraction dated 2024-02-16. Source: crossref record 10.3389/fcell.2024.1386861->10.3389/fcell.2023.1339390:retraction, observed 2026-07-11T02:51:46.943386+00:00. This notice travels one citation hop only.

retraction . Source: retraction watch record 51984, observed 2026-07-08T21:54:11.562222+00:00. This notice travels one citation hop only.

retraction . Source: retraction watch record 51983, observed 2026-07-08T21:54:11.56288+00:00. This notice travels one citation hop only.

Observation 25de51f0-b5df-436e-ab3e-2e0e1ab8de97 · outbound

This paper cites The AI Scientist-v2: Workshop-Level Automated Scientific Discovery via Agentic Tree Search.

Prompt-to-Paper: Agentic AI System for Bioinformatics The AI Scientist-v2: Workshop-Level Automated Scientific Discovery via Agentic Tree Search

Reference 9

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 2e6753fa-66f7-436d-9530-f5a0c173290b · outbound

This paper cites Jr. AI scientist and its risk report: Autonomous scientific exploration from a baseline paper,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Jr. AI scientist and its risk report: Autonomous scientific exploration from a baseline paper,

Reference 10

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 42a21300-eae0-4e6e-90d4-ea3c57f7ad5f · outbound

This paper cites Towards a transparent and reproducible AI-assisted research paper writing,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Towards a transparent and reproducible AI-assisted research paper writing,

Reference 11

Resolution: verified exact; doi, observed 2026-07-11T18:18:10.765339Z

Source-reported events for the cited work

correction dated 2026-04-17. Source: crossref record 10.1186/s44342-025-00062-3->10.1186/s44342-025-00057-0:correction, observed 2026-07-11T03:04:36.551049+00:00. This notice travels one citation hop only.

Observation 2fba5257-e5e0-423c-8500-5b5cc896e0d0 · outbound

This paper cites PaperRobot: Incremental draft generation of scientific ideas,.

Prompt-to-Paper: Agentic AI System for Bioinformatics PaperRobot: Incremental draft generation of scientific ideas,

Reference 12

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 3cfd4b26-9d8b-4608-a81b-185e256e0793 · outbound

This paper cites PaSa: An LLM Agent for Comprehensive Academic Paper Search.

Prompt-to-Paper: Agentic AI System for Bioinformatics PaSa: An LLM Agent for Comprehensive Academic Paper Search

Reference 13

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 517f6b8f-4507-4027-9e29-119294472d11 · outbound

This paper cites ScholarGym: Benchmarking deep research workflows on academic literature retrieval,.

Prompt-to-Paper: Agentic AI System for Bioinformatics ScholarGym: Benchmarking deep research workflows on academic literature retrieval,

Reference 14

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 8ef0b045-73ad-40a9-ba32-51232251b12a · outbound

This paper cites CycleResearcher: Improving automated research via automated review,.

Prompt-to-Paper: Agentic AI System for Bioinformatics CycleResearcher: Improving automated research via automated review,

Reference 15

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 0c492ffa-b0ce-43d4-adbf-12c6312d8fcc · outbound

This paper cites CycleResearcher: Improving Automated Research via Automated Review.

Prompt-to-Paper: Agentic AI System for Bioinformatics CycleResearcher: Improving Automated Research via Automated Review

Reference 16

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 1aedd735-98be-4925-8e10-7fa292f987fb · outbound

This paper cites OpenLens AI: Fully autonomous research agent for health informatics,.

Prompt-to-Paper: Agentic AI System for Bioinformatics OpenLens AI: Fully autonomous research agent for health informatics,

Reference 17

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 4f9a1540-8fb4-43ea-891f-88640f3ab8a2 · outbound

This paper cites Accelerating scientific research with Gemini: Case studies and common techniques,.

Prompt-to-Paper: Agentic AI System for Bioinformatics Accelerating scientific research with Gemini: Case studies and common techniques,

Reference 18

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation 9826febb-43f3-4aa5-afb9-f1db3eaa2154 · outbound

This paper cites EpidemIQs: Prompt-to-paper LLM agents for epidemic modeling and analysis,.

Prompt-to-Paper: Agentic AI System for Bioinformatics EpidemIQs: Prompt-to-paper LLM agents for epidemic modeling and analysis,

Reference 19

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation e5d24509-1fa2-446d-ada9-25665310d222 · outbound

This paper cites NORA: A Harness-Engineered Autonomous Research Agent for End-to-End Spatial Data Science.

Prompt-to-Paper: Agentic AI System for Bioinformatics NORA: A Harness-Engineered Autonomous Research Agent for End-to-End Spatial Data Science

Reference 20

Resolution: unresolved; no resolver link, observed 2026-07-11T18:16:55.324819Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Pith citing papers

No inbound Pith citation observations are available.