Graph learning papers guide

Skill brycewang-stanford/Auto-Empirical-Research-Skills/skills/43-wentorai-research-plugins/skills/domains/ai-ml/graph-learning-papers-guide

Conference papers on graph neural networks and graph learningFrom its SKILL.md

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npx -y skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill graph-learning-papers-guide

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Graph Learning Papers Guide

Overview

A curated list of graph learning papers from top AI/ML conferences (NeurIPS, ICML, ICLR, KDD, WWW, AAAI). Covers graph neural networks, graph transformers, spectral methods, message passing, and applications in molecular science, social networks, and recommendation systems. Organized by venue, year, and topic for systematic tracking.

Topic Taxonomy

Graph Learning
├── Graph Neural Networks
│   ├── Message Passing (GCN, GAT, GraphSAGE, GIN)
│   ├── Spectral (ChebNet, CayleyNet)
│   ├── Graph Transformers (Graphormer, GPS)
│   └── Equivariant GNNs (EGNN, SE(3)-Transformers)
├── Graph Generation
│   ├── VAE-based (GraphVAE)
│   ├── Autoregressive (GraphRNN)
│   ├── Diffusion (GDSS, DiGress)
│   └── Flow-based (GraphFlow)
├── Self-supervised Learning
│   ├── Contrastive (GraphCL, GCA)
│   ├── Generative (GraphMAE)
│   └── Predictive (GPT-GNN)
├── Scalability
│   ├── Sampling (GraphSAINT, ClusterGCN)
│   ├── Knowledge distillation
│   └── Graph condensation
├── Temporal Graphs
│   ├── Dynamic GNNs
│   ├── Temporal interaction
│   └── Evolving graphs
└── Applications
    ├── Molecular property prediction
    ├── Drug discovery
    ├── Social network analysis
    ├── Recommendation systems
    └── Traffic forecasting

Key Models

Model	Year	Innovation
GCN	2017	Spectral convolution simplified
GraphSAGE	2017	Inductive with sampling
GAT	2018	Attention over neighbors
GIN	2019	WL-test as powerful as possible
Graphormer	2021	Transformer on graphs
GPS	2022	General, powerful, scalable recipe
GraphMAE	2022	Masked autoencoding on graphs

Paper Search

import arxiv

def find_gnn_papers(topic="graph neural network", max_results=20):
    """Find recent GNN papers."""
    search = arxiv.Search(
        query=f"abs:{topic}",
        max_results=max_results,
        sort_by=arxiv.SortCriterion.SubmittedDate,
    )

    for r in search.results():
        print(f"[{r.published.strftime('%Y-%m-%d')}] {r.title}")

find_gnn_papers("graph transformer")
find_gnn_papers("molecular graph generation")

Benchmark Datasets

datasets = {
    "Node Classification": {
        "Cora": "Citation network, 7 classes",
        "PubMed": "Medical citation, 3 classes",
        "ogbn-arxiv": "arXiv papers, 40 classes",
        "ogbn-papers100M": "100M papers (large-scale)",
    },
    "Graph Classification": {
        "ZINC": "Molecular graphs, regression",
        "ogbg-molpcba": "128 molecular tasks",
        "PROTEINS": "Protein function prediction",
    },
    "Link Prediction": {
        "ogbl-collab": "Author collaborations",
        "ogbl-citation2": "Citation prediction",
    },
}

for task, ds in datasets.items():
    print(f"\n{task}:")
    for name, desc in ds.items():
        print(f"  {name}: {desc}")

Use Cases

Literature survey: Track GNN research across top venues
Method comparison: Compare GNN architectures and results
Research planning: Identify trends and open problems
Course preparation: Curate reading lists for GNN courses
Benchmark tracking: Monitor SOTA on OGB leaderboards

References

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