# Understanding Human Innate Immune System Dependencies using Graph Neural Networks

arXiv: https://arxiv.org/abs/2108.02872 · HTML: https://mlsanity.com/paper/2108.02872/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 15 of its 66 references that are in the map.
- First posted on arXiv 5 Aug 2021.

## Builds on (most cited first, 15 of 15)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [ChestX-ray8: Hospital-scale Chest X-ray Database and Benchmarks on Weakly-Supervised Classification and Localization of Common Thorax Diseases](https://mlsanity.com/paper/1705.02315/) (2017)
- [Deep Gradient Compression: Reducing the Communication Bandwidth for Distributed Training](https://mlsanity.com/paper/1712.01887/) (2017)
- [Res2Net: A New Multi-scale Backbone Architecture](https://mlsanity.com/paper/1904.01169/) (2019)
- [CheXNet: Radiologist-Level Pneumonia Detection on Chest X-Rays with Deep Learning](https://mlsanity.com/paper/1711.05225/) (2017)
- [Learning Discrete Structures for Graph Neural Networks](https://mlsanity.com/paper/1903.11960/) (2019)
- [Distributed Deep Neural Networks over the Cloud, the Edge and End Devices](https://mlsanity.com/paper/1709.01921/) (2017)
- [Covid-19: Automatic detection from X-Ray images utilizing Transfer Learning with Convolutional Neural Networks](https://mlsanity.com/paper/2003.11617/) (2020)
- [Automatic Detection of Coronavirus Disease (COVID-19) Using X-ray Images and Deep Convolutional Neural Networks](https://mlsanity.com/paper/2003.10849/) (2020)
- [COVIDX-Net: A Framework of Deep Learning Classifiers to Diagnose COVID-19 in X-Ray Images](https://mlsanity.com/paper/2003.11055/) (2020)
- [Rapid AI Development Cycle for the Coronavirus (COVID-19) Pandemic: Initial Results for Automated Detection & Patient Monitoring using Deep Learning CT Image Analysis](https://mlsanity.com/paper/2003.05037/) (2020)
- [Viral Pneumonia Screening on Chest X-ray Images Using Confidence-Aware Anomaly Detection](https://mlsanity.com/paper/2003.12338/) (2020)
- [Diagnosing COVID-19 Pneumonia from X-Ray and CT Images using Deep Learning and Transfer Learning Algorithms](https://mlsanity.com/paper/2004.00038/) (2020)
- [Mapping the Landscape of Artificial Intelligence Applications against COVID-19](https://mlsanity.com/paper/2003.11336/) (2020)
- [ChestNet: A Deep Neural Network for Classification of Thoracic Diseases on Chest Radiography](https://mlsanity.com/paper/1807.03058/) (2018)

## Abstract (arXiv)

Since the rapid outbreak of Covid-19 and with no approved vaccines to date, profound research interest has emerged to understand the innate immune response to viruses. This understanding can help to inhibit virus replication, prolong adaptive immune response, accelerated virus clearance, and tissue recovery, a key milestone to propose a vaccine to combat coronaviruses (CoVs), e.g., Covid-19. Although an innate immune system triggers inflammatory responses against CoVs upon recognition of viruses, however, a vaccine is the ultimate protection against CoV spread. The development of this vaccine is time-consuming and requires a deep understanding of the innate immune response system. In this work, we propose a graph neural network-based model that exploits the interactions between pattern recognition receptors (PRRs), i.e., the human immune response system. These interactions can help to recognize pathogen-associated molecular patterns (PAMPs) to predict the activation requirements of each PRR. The immune response information of each PRR is derived from combining its historical PAMPs activation coupled with the modeled effect on the same from PRRs in its neighborhood. On one hand, this work can help to understand how long Covid-19 can confer immunity where a strong immune response means people already been infected can safely return to work. On the other hand, this GNN-based understanding can also abode well for vaccine development efforts. Our proposal has been evaluated using CoVs immune response dataset, with results showing an average IFNs activation prediction accuracy of 90%, compared to 85% using feed-forward neural networks.