# Probing Neural Topology of Large Language Models

arXiv: https://arxiv.org/abs/2506.01042 · HTML: https://mlsanity.com/paper/2506.01042/

## Key facts

- Cited by 4 papers in the map (data through 14 Oct 2026).
- Builds on 59 of its 88 references that are in the map.
- First posted on arXiv 1 Jun 2025.

## Builds on (most cited first, 30 of 59)

- [Microsoft COCO: Common Objects in Context](https://mlsanity.com/paper/1405.0312/) (2014)
- [LLaMA: Open and Efficient Foundation Language Models](https://mlsanity.com/paper/2302.13971/) (2023)
- [Semi-Supervised Classification with Graph Convolutional Networks](https://mlsanity.com/paper/1609.02907/) (2016)
- [Measuring Massive Multitask Language Understanding](https://mlsanity.com/paper/2009.03300/) (2020)
- [DeepSeek-R1: Incentivizing Reasoning Capability in LLMs via Reinforcement Learning](https://mlsanity.com/paper/2501.12948/) (2025)
- [Qwen2.5 Technical Report](https://mlsanity.com/paper/2412.15115/) (2024)
- [Improved Baselines with Visual Instruction Tuning](https://mlsanity.com/paper/2310.03744/) (2023)
- [TruthfulQA: Measuring How Models Mimic Human Falsehoods](https://mlsanity.com/paper/2109.07958/) (2021)
- [Emergent Abilities of Large Language Models](https://mlsanity.com/paper/2206.07682/) (2022)
- [Fast Graph Representation Learning with PyTorch Geometric](https://mlsanity.com/paper/1903.02428/) (2019)
- [The Pile: An 800GB Dataset of Diverse Text for Language Modeling](https://mlsanity.com/paper/2101.00027/) (2020)
- [MMLU-Pro: A More Robust and Challenging Multi-Task Language Understanding Benchmark](https://mlsanity.com/paper/2406.01574/) (2024)
- [Pythia: A Suite for Analyzing Large Language Models Across Training and Scaling](https://mlsanity.com/paper/2304.01373/) (2023)
- [CLEVR: A Diagnostic Dataset for Compositional Language and Elementary Visual Reasoning](https://mlsanity.com/paper/1612.06890/) (2016)
- [Sparse Autoencoders Find Highly Interpretable Features in Language Models](https://mlsanity.com/paper/2309.08600/) (2023)
- [Understanding intermediate layers using linear classifier probes](https://mlsanity.com/paper/1610.01644/) (2016)
- [ChatGLM: A Family of Large Language Models from GLM-130B to GLM-4 All Tools](https://mlsanity.com/paper/2406.12793/) (2024)
- [Gemma: Open Models Based on Gemini Research and Technology](https://mlsanity.com/paper/2403.08295/) (2024)
- [Probing Classifiers: Promises, Shortcomings, and Advances](https://mlsanity.com/paper/2102.12452/) (2021)
- [Semantic Uncertainty: Linguistic Invariances for Uncertainty Estimation in Natural Language Generation](https://mlsanity.com/paper/2302.09664/) (2023)
- [A Primer in BERTology: What we know about how BERT works](https://mlsanity.com/paper/2002.12327/) (2020)
- [A Simple and Effective Pruning Approach for Large Language Models](https://mlsanity.com/paper/2306.11695/) (2023)
- [Discovering Latent Knowledge in Language Models Without Supervision](https://mlsanity.com/paper/2212.03827/) (2022)
- [LLM-Pruner: On the Structural Pruning of Large Language Models](https://mlsanity.com/paper/2305.11627/) (2023)
- [Designing and Interpreting Probes with Control Tasks](https://mlsanity.com/paper/1909.03368/) (2019)
- [Scaling and evaluating sparse autoencoders](https://mlsanity.com/paper/2406.04093/) (2024)
- [Sparse Feature Circuits: Discovering and Editing Interpretable Causal Graphs in Language Models](https://mlsanity.com/paper/2403.19647/) (2024)
- [Gemma Scope: Open Sparse Autoencoders Everywhere All At Once on Gemma 2](https://mlsanity.com/paper/2408.05147/) (2024)
- [Finding Neurons in a Haystack: Case Studies with Sparse Probing](https://mlsanity.com/paper/2305.01610/) (2023)
- [Language Models Represent Space and Time](https://mlsanity.com/paper/2310.02207/) (2023)

## Built on by (most cited first, 4 of 4)

- [Reinforcement Learning Fine-Tuning Enhances Activation Intensity and Diversity in the Internal Circuitry of LLMs](https://mlsanity.com/paper/2509.21044/) (2025)
- [LocalGPT: Benchmarking and Advancing Large Language Models for Local Life Services in Meituan](https://mlsanity.com/paper/2506.02720/) (2025)
- [Structural Graph Probing of Vision-Language Models](https://mlsanity.com/paper/2603.27070/) (2026)
- [Why Do Large Language Models Generate Harmful Content?](https://mlsanity.com/paper/2604.11663/) (2026)

## Abstract (arXiv)

Probing large language models (LLMs) has yielded valuable insights into their internal mechanisms by linking neural activations to interpretable semantics. However, the complex mechanisms that link neuron's functional co-activation with the emergent model capabilities remains largely unknown, hindering a deeper understanding and safer development of LLMs. In this work, we introduce graph probing, a method for uncovering the functional connectivity of LLM neurons and relating it to language generation performance. By probing models across diverse LLM families and scales, we discover a universal predictability of language generation and understanding performance using only neural topology, which persists even when retaining just 1% of neuron connections. Strikingly, probing on topology outperforms probing on activation by up to 130.4% and 67.7% on perplexity and space/time semantic regression respectively, suggesting that neural topology contains orders of richer information of LLM performance than neural activation, which can be easily extracted with simple linear or MLP probes. To explain the dependence between neural topology and language performance, we identify default networks and hub neurons in LLMs and provide causal evidence by interventional experiments on multiple benchmarks, showing that LLMs actually exploit these topological information. Further analyses suggest that graph probing can be effectively leveraged to improve the efficiency and reliability of LLMs through proof-of-concept applications in model pruning and hallucination detection. Codes and data for the graph probing toolbox are available at https://github.com/DavyMorgan/llm-graph-probing.