Paper Citation Record · LEDGER

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills

As of 9 August 2026, this Paper Citation Record lists 42 of 42 outbound references and 0 inbound Pith citation observations for arXiv:2607.17012.

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

pith.paper-citation-record.v1
2607.17012 v1

Coverage vector

measured 42 of 42 reference resolution

Typed states for the displayed outbound observations.

Source: paper_references, paper_reference_links, observed 2026-08-01T19:19:04.221888Z

measured 42 of 42 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

42 of 42 outbound references displayed

verified exact0
verified fuzzy0
unresolved42
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malformed identifier0
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External citation measurements

No source-named external measurement is stored.

Outbound references

Observation 4d51b29e-4945-4b74-8e18-53f82f7a0233 · outbound

This paper cites Autonomous chemical research with large language models.Nature, 624(7992):570–578, 2023.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Autonomous chemical research with large language models.Nature, 624(7992):570–578, 2023

Reference 1

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.062861Z

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Unavailable: canonical work link unavailable.

Observation cb2ca672-7a07-4183-b7e6-3be5e1ba1958 · outbound

This paper cites Bran, Sam Cox, Oliver Schilter, Carlo Baldassari, Andrew D White, and Philippe Schwaller.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Bran, Sam Cox, Oliver Schilter, Carlo Baldassari, Andrew D White, and Philippe Schwaller

Reference 2

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.149924Z

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Observation 524ef9b6-f267-40e1-a6c3-26db5a8460ba · outbound

This paper cites Self-driving laboratories for chemistry and materials science.Chemical Reviews, 124(16):9633–9732, 2024.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Self-driving laboratories for chemistry and materials science.Chemical Reviews, 124(16):9633–9732, 2024

Reference 3

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.237880Z

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Observation 6f34bc2c-a067-4ad8-96de-7a285d70f16a · outbound

This paper cites Gonzalez.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Gonzalez

Reference 4

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.338218Z

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Observation 8a74f306-0390-42dc-a917-bcf975878e4b · outbound

This paper cites Automated and autonomous experiments in electron and scanning probe microscopy.ACS nano, 15(8):12604–12627, 2021.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Automated and autonomous experiments in electron and scanning probe microscopy.ACS nano, 15(8):12604–12627, 2021

Reference 5

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.441828Z

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Observation b65fdcdd-1816-4bdb-98f2-00f8096e37c5 · outbound

This paper cites AtomAI: A Deep Learning Framework for Analysis of Image and Spectroscopy Data in (Scanning) Transmission Electron Microscopy and Beyond.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills AtomAI: A Deep Learning Framework for Analysis of Image and Spectroscopy Data in (Scanning) Transmission Electron Microscopy and Beyond

Reference 6

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.588385Z

Source-reported events for the cited work

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Observation 81eb20cc-1895-4125-97b7-efcf5ec0e9fc · outbound

This paper cites Autonomous scanning probe microscopy with hypothesis learning: Exploring the physics of domain switching in ferroelectric materials.Patterns, 4(3), 2023.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Autonomous scanning probe microscopy with hypothesis learning: Exploring the physics of domain switching in ferroelectric materials.Patterns, 4(3), 2023

Reference 7

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.675203Z

Source-reported events for the cited work

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Observation 360b4fd5-47ba-406d-bd63-f5968e45987f · outbound

This paper cites Machine learning-based reward-driven tuning of scanning probe microscopy: Toward fully automated microscopy.ACS nano, 19(21):19659–19669, 2025.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Machine learning-based reward-driven tuning of scanning probe microscopy: Toward fully automated microscopy.ACS nano, 19(21):19659–19669, 2025

Reference 8

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.754690Z

Source-reported events for the cited work

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Observation 2eac17c4-9db1-42fc-bb0f-8eaeb3bd9f38 · outbound

This paper cites Scientific exploration with expert knowledge (seek) in autonomous scanning probe microscopy with active learning.Digital Discovery, 4(1):252–263, 2025.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Scientific exploration with expert knowledge (seek) in autonomous scanning probe microscopy with active learning.Digital Discovery, 4(1):252–263, 2025

Reference 9

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.895047Z

Source-reported events for the cited work

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Observation 6902c803-e2ff-429a-82bc-33c3626f9b54 · outbound

This paper cites Evaluating large language model agents for automation of atomic force microscopy.Nature Communications, 16(1):9104, 2025.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Evaluating large language model agents for automation of atomic force microscopy.Nature Communications, 16(1):9104, 2025

Reference 10

Resolution: unresolved; no resolver link, observed 2026-08-01T19:18:59.926465Z

Source-reported events for the cited work

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Observation b31fd094-6eaa-43be-9db3-845f0a0a92ec · outbound

This paper cites Tem agent: enhancing transmission electron microscopy (tem) with modern ai tools.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Tem agent: enhancing transmission electron microscopy (tem) with modern ai tools

Reference 11

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.063281Z

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Observation da8a68cd-7a80-4ccf-a2ef-bde03179fdd2 · outbound

This paper cites Bridging electron microscopy and materials analysis with an autonomous agentic platform.Science Advances, 12(14):eaed0583, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Bridging electron microscopy and materials analysis with an autonomous agentic platform.Science Advances, 12(14):eaed0583, 2026

Reference 12

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.132199Z

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Observation 232b0c09-81da-4a0a-a1b0-3b4d2a21b39c · outbound

This paper cites Thinking microscopes: agentic ai and the future of electron microscopy.npj Computational Materials, 12(1):149, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Thinking microscopes: agentic ai and the future of electron microscopy.npj Computational Materials, 12(1):149, 2026

Reference 13

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.238520Z

Source-reported events for the cited work

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Observation 30505e06-e3b3-411c-ba79-f2ca350e7018 · outbound

This paper cites Accelerating scientific discovery with co-scientist.Nature, pages 1–3, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Accelerating scientific discovery with co-scientist.Nature, pages 1–3, 2026

Reference 14

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.337258Z

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Observation 929acf20-67f2-436e-a2e7-f48317e28ea1 · outbound

This paper cites A multi-agent system for automating scientific discovery.Nature, pages 1–3, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills A multi-agent system for automating scientific discovery.Nature, pages 1–3, 2026

Reference 15

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.459037Z

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Observation c0e866c2-80bc-4151-a048-c81ee2b90ad6 · outbound

This paper cites An ai system to help scientists write expert-level empirical software.Nature, pages 1–3, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills An ai system to help scientists write expert-level empirical software.Nature, pages 1–3, 2026

Reference 16

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.517043Z

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Observation a94ff4a5-a583-4636-8557-678e95e61edc · outbound

This paper cites Model Context Protocol: An open standard for connecting AI assistants to external data sources and tools.https://modelcontextprotocol.io, 2024.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Model Context Protocol: An open standard for connecting AI assistants to external data sources and tools.https://modelcontextprotocol.io, 2024

Reference 17

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.590098Z

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Observation 2106e28b-05b1-46dd-9ffd-2dbc4ac62d80 · outbound

This paper cites Model context protocol (mcp): Landscape, security threats, and future research directions.ACM Transactions on Software Engineering and Methodology, 2025.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Model context protocol (mcp): Landscape, security threats, and future research directions.ACM Transactions on Software Engineering and Methodology, 2025

Reference 18

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.675064Z

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Observation 2c0c2382-5590-4cfa-a8da-b8b8dd2a924d · outbound

This paper cites Llm agents for interactive workflow provenance: Reference architecture and evaluation methodology.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Llm agents for interactive workflow provenance: Reference architecture and evaluation methodology

Reference 19

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.793431Z

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Observation 477a7ffb-8ac6-41bc-9b14-c5d8019bc628 · outbound

This paper cites R-lam: Reproducibility-constrained large action models for scientific workflow automation.arXiv preprint arXiv:2601.09749, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills R-lam: Reproducibility-constrained large action models for scientific workflow automation.arXiv preprint arXiv:2601.09749, 2026

Reference 20

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.862589Z

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Observation 56fbcb3b-5d8d-4a33-a1bb-133e42e6007e · outbound

This paper cites Audit trails for accountability in large language models.arXiv preprint arXiv:2601.20727, 2026.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Audit trails for accountability in large language models.arXiv preprint arXiv:2601.20727, 2026

Reference 21

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:00.962473Z

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Observation 3139fe1b-f03a-4f40-99ca-808f170911c2 · outbound

This paper cites Pydantic v2: Data validation using Python type hints.https://docs.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Pydantic v2: Data validation using Python type hints.https://docs

Reference 22

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.035255Z

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Observation ca29e037-b17e-4fb6-96cf-6d47da0c8190 · outbound

This paper cites Universalcontrolprotocolforscientificinstrumentation using extended Model Context Protocol.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Universalcontrolprotocolforscientificinstrumentation using extended Model Context Protocol

Reference 23

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.218149Z

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Observation c6b9b2cc-06a8-4ea3-adfb-2a5cc6f5b6e0 · outbound

This paper cites Model Context Protocol (MCP) Tool Descriptions Are Smelly! Towards Improving AI Agent Efficiency with Augmented MCP Tool Descriptions.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Model Context Protocol (MCP) Tool Descriptions Are Smelly! Towards Improving AI Agent Efficiency with Augmented MCP Tool Descriptions

Reference 24

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.349304Z

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Observation 3b3bd4c6-7431-4904-9562-5b25af7c9588 · outbound

This paper cites The FAIR guiding principles for scientific data management and stewardship.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills The FAIR guiding principles for scientific data management and stewardship

Reference 25

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.553695Z

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Observation 5336ec38-5b64-4886-b281-93e852f794dd · outbound

This paper cites Nodeology: creating graph-based agentic workflows for ai-assisted electron microscopy.Mi- croscopy and Microanalysis, 31(Supplement_1):ozaf048–1108, 2025.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Nodeology: creating graph-based agentic workflows for ai-assisted electron microscopy.Mi- croscopy and Microanalysis, 31(Supplement_1):ozaf048–1108, 2025

Reference 26

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.758918Z

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Observation 1b10ab15-82df-4154-a7b5-c8c96e421dd6 · outbound

This paper cites Four-dimensional scanning transmission electron microscopy (4d-stem): From scanning nanodiffraction to ptychography and beyond.Microscopy and Microanalysis, 25(3): 563–582, 2019.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Four-dimensional scanning transmission electron microscopy (4d-stem): From scanning nanodiffraction to ptychography and beyond.Microscopy and Microanalysis, 25(3): 563–582, 2019

Reference 27

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:01.945995Z

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Observation fad58f4c-8f7c-4891-8d70-b3a2c20065f8 · outbound

This paper cites py4dstem: A software package for four-dimensional scanning transmission electron microscopy data analysis.Microscopy and Microanalysis, 27(4):712–743, 2021.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills py4dstem: A software package for four-dimensional scanning transmission electron microscopy data analysis.Microscopy and Microanalysis, 27(4):712–743, 2021

Reference 28

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.144632Z

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Unavailable: canonical work link unavailable.

Observation 54b04f55-a1ba-4ca1-bb90-705891f6d022 · outbound

This paper cites Mea- surement of atomic electric fields and charge densities from average momentum transfers using scanning transmission electron microscopy.Ultramicroscopy, 178:62–80, 2017.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Mea- surement of atomic electric fields and charge densities from average momentum transfers using scanning transmission electron microscopy.Ultramicroscopy, 178:62–80, 2017

Reference 29

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.272489Z

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Observation f034ce9d-c33f-46f5-ac48-139d80bf7dc5 · outbound

This paper cites Phase contrast stem for thin samples: Integrated differential phase contrast.Ultramicroscopy, 160:265–280, 2016.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Phase contrast stem for thin samples: Integrated differential phase contrast.Ultramicroscopy, 160:265–280, 2016

Reference 30

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.408469Z

Source-reported events for the cited work

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Observation 316e00ff-fa09-4e41-b725-a91a29c56ef1 · outbound

This paper cites Electron microscopy (big and small) data analysis with the open source software package hyperspy.Microscopy and Microanalysis, 23(S1):214–215, 2017.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Electron microscopy (big and small) data analysis with the open source software package hyperspy.Microscopy and Microanalysis, 23(S1):214–215, 2017

Reference 31

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.553137Z

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Observation 4bb29274-3794-48ee-ac02-9f0a14827b6a · outbound

This paper cites Springer Science & Business Media, 2011.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Springer Science & Business Media, 2011

Reference 32

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.731276Z

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Observation 33bb5ebf-77b9-4981-8d1a-bcbd06b9e8f2 · outbound

This paper cites PyZMQ: Python bindings for ZeroMQ.https://pyzmq.readthedocs.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills PyZMQ: Python bindings for ZeroMQ.https://pyzmq.readthedocs

Reference 33

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.862838Z

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Observation f232a7cd-f89c-4dc5-8401-e2f6505fee8d · outbound

This paper cites Ollama: Run large language models locally.https://ollama.com, 2024.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Ollama: Run large language models locally.https://ollama.com, 2024

Reference 34

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:02.997162Z

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Observation b67377f6-4d67-41ab-8a15-263d42f63232 · outbound

This paper cites ReAct: Synergizing Reasoning and Acting in Language Models.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills ReAct: Synergizing Reasoning and Acting in Language Models

Reference 35

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.145268Z

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Unavailable: canonical work link unavailable.

Observation f0802130-6060-4c98-a353-ea24bfe03aaf · outbound

This paper cites LangChain and LangGraph: Python libraries for building LLM-powered applications.https://python.langchain.com, 2024.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills LangChain and LangGraph: Python libraries for building LLM-powered applications.https://python.langchain.com, 2024

Reference 36

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.332800Z

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Observation c8b5bd16-703b-4d30-b0e9-97da2db23b08 · outbound

This paper cites Empowering electron ptychography with generative artificial intelligence and agentic workflows.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Empowering electron ptychography with generative artificial intelligence and agentic workflows

Reference 37

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.471126Z

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Unavailable: canonical work link unavailable.

Observation 3371f9a3-5480-4255-84b2-01eff880b5b7 · outbound

This paper cites Automated electron microscope tomography using robust prediction of specimen movements.Journal of structural biology, 152(1):36–51, 2005.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Automated electron microscope tomography using robust prediction of specimen movements.Journal of structural biology, 152(1):36–51, 2005

Reference 38

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.606153Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation f2128662-695d-4df7-a494-6cb596e245c1 · outbound

This paper cites Kalinin, and Gerd Duscher.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Kalinin, and Gerd Duscher

Reference 39

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.781289Z

Source-reported events for the cited work

Unavailable: canonical work link unavailable.

Observation a087873e-f910-400e-afb7-2035b0c9284e · outbound

This paper cites Experiences with Model Context Protocol Servers for Science and High Performance Computing.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Experiences with Model Context Protocol Servers for Science and High Performance Computing

Reference 40

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:03.937676Z

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Observation 1ae63b55-b590-48dc-99f1-b2d020685d3d · outbound

This paper cites MCP-Bench: Benchmarking Tool-Using LLM Agents with Complex Real-World Tasks via MCP Servers.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills MCP-Bench: Benchmarking Tool-Using LLM Agents with Complex Real-World Tasks via MCP Servers

Reference 41

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:04.089748Z

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Observation 97de9447-9614-4d58-a647-7e587bf916f8 · outbound

This paper cites Large Language Model Agent for User-friendly Chemical Process Simulations.

Schema-Bound LLM Control of Scientific Instrumentation through Model Context Protocol Skills Large Language Model Agent for User-friendly Chemical Process Simulations

Reference 42

Resolution: unresolved; no resolver link, observed 2026-08-01T19:19:04.221888Z

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Pith citing papers

No inbound Pith citation observations are available.