An awesome collection of sources regarding Informed Machine Learning (IML)/Background Knowledge Integration (BKI).
Overview, Taxonomy and Surveys
Year
Title
Paper
2022
A review of some techniques for inclusion of domain-knowledge into deep neural networks
Link
2021
Informed Machine Learning - A Taxonomy and Survey of Integrating Prior Knowledge into Learning Systems
Link
2020
Integrating Machine Learning with Human Knowledge
Link
Papers are categorized based on the task, more details are included in the table.
Title
Year
Knowledge Representation
Model
Task (specific)
Paper
Code
A multimodal graph neural network framework for cancer molecular subtype classification
2024
graph
GNN
cancer subtype classification
Link
Biologically informed deep learning to query gene programs in single-cell atlases
2023
binary matrix
Conditional variational autoencoders
single cell reference mapping
Link Link
Cancer molecular subtype classification by graph convolutional networks on multi-omics data
2021
graph
GNN
cancer subtype classification
Link
PKGCN: prior knowledge enhanced graph convolutional network for graph-based semi-supervised learning
2019
graph
GNN
node classification
Link
Single-cell classification using graph convolutional networks
2021
graph
GNN
cell classification
Link Link
Graph neural networks with multiple prior knowledge for multi-omics data analysis
2023
graph
GNN
cancer molecular subtype classification
Link
Prior Knowledge Guided Unsupervised Domain Adaptation
2022
human feedback
Predictive Model
unsupervised domain adaptation (UDA)
Link Link
BaKGraSTeC: A Background Knowledge Graph Based Method for Short Text Classification
2020
knowledge graph
GNN
short text classification
Link
Learning beyond datasets: Knowledge Graph Augmented Neural Networks for Natural language Processing
2018
knowledge graph
NN
text classification
Link
Injecting Semantic Background Knowledge into Neural Networks using Graph Embeddings
2017
knowledge graph
NN
fraud detection
Link
The Deep Weight Prior
2019
propabilistic relations
Bayesian CNN
Link Link
Prior-Enhanced Few-Shot Segmentation with Meta-Prototypes
2021
simulation results
Two-Stage Neural Network (Prior and Segmentation)
image segmentation
Link Link
Interpretations are useful: penalizing explanations to align neural networks with prior knowledge
2020
Link Link
Interpretable brain disease classification and relevance‑guided deep learning
2022
CNN
brain disease classification
Link Link
Title
Year
Knowledge Representation
Model
Task (specific)
Paper
Code
A framework for deep constrained clustering
2021
algebraic equation
autoencoder
constrained clustering
Link Link
Feature Extraction
Title
Year
Knowledge Representation
Model
Task (specific)
Paper
Code
Hierarchy-based Image Embeddings for Semantic Image Retrieval
2019
graph
CNN
semantic image retrieval
Link Link
Title
Year
Knowledge Representation
Model
Task (specific)
Paper
Code
Analyzing Koopman approaches to physics-informed machine learning for long-term sea-surface temperature forecasting
2021
Autoencoder
time series forecasting
Link Link
Simulation-Informed Revenue Extrapolation with Confidence Estimate for Scaleup Companies Using Scarce Time-Series Data
2022
time series forecasting
Link Link
Title
Year
Knowledge Representation
Model
Task (specific)
Paper
Code
A Physics-informed Neural Network for Wind Turbine Main Bearing Fatigue
2020
differential equations
RNN
predictive maintenance
Link Link
SimbaML (Simulation-Based ML)
2023
differential equations / simulation results
ODE
synthetic data generation
Link Link
Utilizing Molecular Network Information via Graph Convolutional Neural Networks to Predict Metastatic Event in Breast Cancer
2019
graph
GNN
cancer prediction
Link
Knowledge-aware Attention Network for Protein-Protein Interaction Extraction
2019
Knowledge Base of Protein-Protein Pairs
Transformer
protein-protein interaction (PPI) extraction
Link Link
Leveraging prior knowledge for protein–protein interaction extraction with memory network
2018
Knowledge Base of Protein-Protein Pairs
Memory Network Model
protein-protein interaction (PPI) extraction
Link Link
KCRL: A Prior Knowledge Based Causal Discovery Framework with Reinforcement Learning
2022
knowledge graph
Transformer-Based Deep RL Agent
causal discovery
Link Link
Knowledge Enhanced Graph Neural Networks for Graph Completion
2023
logic rules
GNN
graph completion
Link Link
Inclusion of domain-knowledge into GNNs using mode-directed inverse entailment
2022
logic rules
GNN
drug discovery
Link
Incorporating symbolic domain knowledge into graph neural networks
2021
logic rules
GNN
drug discovery
Link Link
Language Model Prior for Low-Resource Neural Machine Translation
2020
probabilistic relations
Transformer + LLM
neural machine translation (NMT)
Link Link
Prior Knowledge Integration for Neural Machine Translation using Posterior Regularization
2017
probabilistic relations
neural machine translation (NMT)
Link Link
Knowledge enhanced graph neural networks for explainable recommendation
2022
semantic knowledge?
GNN
recommendation
Link
Advancing Generalizable Remote Physiological Measurement through the Integration of Explicit and Implicit Prior Knowledge
2024
simulation results
Link Link
Incorporating prior knowledge into regularized regression
2020
linear regression
Link Link
Physics-informed neural networks: A deep learning framework for solving forward and inverse problems involving nonlinear partial differential equations
2019
solutions to partial differential equations
Link Link