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---
license: cc0-1.0
task_categories:
- graph-ml
---
# Dataset Card for ogbg-ppa
## Table of Contents
- [Table of Contents](#table-of-contents)
- [Dataset Description](#dataset-description)
- [Dataset Summary](#dataset-summary)
- [Supported Tasks and Leaderboards](#supported-tasks-and-leaderboards)
- [External Use](#external-use)
- [PyGeometric](#pygeometric)
- [Dataset Structure](#dataset-structure)
- [Data Properties](#data-properties)
- [Data Fields](#data-fields)
- [Data Splits](#data-splits)
- [Additional Information](#additional-information)
- [Licensing Information](#licensing-information)
- [Citation Information](#citation-information)
- [Contributions](#contributions)
## Dataset Description
- **[Homepage](https://ogb.stanford.edu/docs/graphprop/#ogbg-ppa)**
- **[Repository](https://github.com/snap-stanford/ogb):**:
- **Paper:**: Open Graph Benchmark: Datasets for Machine Learning on Graphs (see citation)
- **Leaderboard:**: [OGB leaderboard](https://ogb.stanford.edu/docs/leader_graphprop/#ogbg-ppa) and [Papers with code leaderboard](https://paperswithcode.com/sota/graph-property-prediction-on-ogbg-ppa)
### Dataset Summary
The `ogbg-ppa` dataset is "a set of undirected protein association neighborhoods extracted from the protein-protein association networks of 1,581 species", over 37 taxonomic groups, by teams at Stanford, to be a part of the Open Graph Benchmark. See their website for dataset postprocessing.
### Supported Tasks and Leaderboards
`ogbg-ppa` should be used for taxonomic group prediction, a 37-way multi-class classification task. The score used is Average Precision on the test set.
## External Use
### PyGeometric
To load in PyGeometric, do the following:
```python
from datasets import load_dataset
from torch_geometric.data import Data
from torch_geometric.loader import DataLoader
graphs_dataset = load_dataset("graphs-datasets/ogbg-ppa")
# For the train set (replace by valid or test as needed)
graphs_list = [Data(graph) for graph in graphs_dataset["train"]]
graphs_pygeometric = DataLoader(graph_list)
```
## Dataset Structure
### Data Properties
| property | value |
|---|---|
| scale | small |
| #graphs | 158,100 |
| average #nodes | 243.4 |
| average #edges | 2,266.1 |
| average node degree | 18.3 |
| average cluster coefficient | 0.513 |
| MaxSCC ratio | 1.000 |
| graph diameter | 4.8 |
### Data Fields
Each row of a given file is a graph, with:
- `edge_index` (list: 2 x #edges): pairs of nodes constituting edges
- `edge_attr` (list: #edges x #edge-features): for the aforementioned edges, contains their features
- `y` (list: 1 x #labels): contains the number of labels available to predict (here 1, equal to zero or one)
- `num_nodes` (int): number of nodes of the graph
The nodes don't have specific features and are implicit from the lists of edges
### Data Splits
This data comes from the PyGeometric version of the dataset provided by OGB, and follows the provided data splits.
This information can be found back using
```python
from ogb.graphproppred import PygGraphPropPredDataset
dataset = PygGraphPropPredDataset(name = 'ogbg-ppa')
split_idx = dataset.get_idx_split()
train = dataset[split_idx['train']] # valid, test
```
## Additional Information
### Licensing Information
The dataset has been released under CC-0 license.
### Citation Information
```
@inproceedings{hu-etal-2020-open,
author = {Weihua Hu and
Matthias Fey and
Marinka Zitnik and
Yuxiao Dong and
Hongyu Ren and
Bowen Liu and
Michele Catasta and
Jure Leskovec},
editor = {Hugo Larochelle and
Marc Aurelio Ranzato and
Raia Hadsell and
Maria{-}Florina Balcan and
Hsuan{-}Tien Lin},
title = {Open Graph Benchmark: Datasets for Machine Learning on Graphs},
booktitle = {Advances in Neural Information Processing Systems 33: Annual Conference
on Neural Information Processing Systems 2020, NeurIPS 2020, December
6-12, 2020, virtual},
year = {2020},
url = {https://proceedings.neurips.cc/paper/2020/hash/fb60d411a5c5b72b2e7d3527cfc84fd0-Abstract.html},
}
```
### Contributions
Thanks to [@clefourrier](https://github.com/clefourrier) for adding this dataset. |