Top Research Papers in High Performance Computing

Graph Neural Networks

• A Comprehensive Survey on Graph Neural Networks (TNNLS 2020)
• Spatial-Temporal Fusion Graph Neural Networks for Traffic Flow Forecasting (AAAI 2021)
• Multivariate Time-Series Anomaly Detection via Graph Attention Network (ICDM 2020)
• PyTorch Distributed: Experiences on Accelerating Data Parallel Training (VLDB 2020)
• Random Features Strengthen Graph Neural Networks (SDM 2021)
• Automatic Virtual Network Embedding: A Deep Reinforcement Learning Approach With Graph Convolutional Networks (JSAC 2020)
• Scaling Graph Neural Networks with Approximate PageRank (KDD 2020)
• Improving the Accuracy, Scalability, and Performance of Graph Neural Networks with Roc (MLSys 2020)
• Kornia: an Open Source Differentiable Computer Vision Library for PyTorch (WACV 2020)
• EEG emotion recognition using fusion model of graph convolutional neural networks and LSTM (Appl. Soft Comput. 2021)

Knowledge Graphs

• Knowledge Graphs (ACM Comput. Surv. 2021)
• A review: Knowledge reasoning over knowledge graph (Expert Syst. Appl. 2020)
• Artificial intelligence based anomaly detection of energy consumption in buildings: A review, current trends and new perspectives (Appl. Energy 2021)
• DGL-KE: Training Knowledge Graph Embeddings at Scale (SIGIR 2020)

Hardware/Software Technologies (for ML) and Load balancing/Scheduling

• Opportunities for neuromorphic computing algorithms and applications (Nat. 2022)
• Next-Generation Topology of D-Wave Quantum Processors (arXiv 2020)
• Photonic tensor cores for machine learning (Appl. Phys. Rev. 2020)
• AWB-GCN: A Graph Convolutional Network Accelerator with Runtime Workload Rebalancing (MICRO2020)
• Fast Adaptive Task Offloading in Edge Computing Based on Meta Reinforcement Learning (TPDS 2020)
• MLIR: Scaling Compiler Infrastructure for Domain Specific Computation (CGO 2021)
• Hybridization of firefly and Improved Multi-Objective Particle Swarm Optimization algorithm for energy efficient load balancing in Cloud Computing environments (JPDC 2020)
• Collaborate Edge and Cloud Computing With Distributed Deep Learning for Smart City Internet of Things (JIOT 2020)
• Advancing Neuromorphic Computing With Loihi: A Survey of Results and Outlook (JPROC 2021)

Genomics

• A review on genetic algorithm: past, present, and future (Multimed. Tools. Appl. 2021)
• Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm (Nat. 2021)
• rMVP: A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool for Genome-wide Association Study (GPB 2021)
• metaFlye: scalable long-read metagenome assembly using repeat graphs (Nat. 2020)
• The design and construction of reference pangenome graphs with minigraph (Genome Biol. 2020)

Optimization and Scientific Packages

• A Guide to Conquer the Biological Network Era Using Graph Theory (Front. Bioeng. Biotechnol. 2020)
• MOOSE: Enabling massively parallel multiphysics simulation (SoftwareX 2020)
• Palabos: Parallel Lattice Boltzmann Solver (Comput. Math. with Appl. 2021)
• SimAlign: High Quality Word Alignments without Parallel Training Data using Static and Contextualized Embeddings (arXiv 2020)
• GraphAF: a Flow-based Autoregressive Model for Molecular Graph Generation (arXiv 2020)
• SINDy-PI: a robust algorithm for parallel implicit sparse identification of nonlinear dynamics (Proc. R. Soc. A: Math. 2020)
• A parallel global multiobjective framework for optimization: pagmo (JOSS 2020)
• Parallel Bayesian Global Optimization of Expensive Functions (OR 2020)
• TeraChem: A graphical processing unit-accelerated electronic structure package for large-scale ab initio molecular dynamics (Wiley Interdiscip. Rev. Comput. 2020)
• The deal.II finite element library: Design, features, and insights (Comput. Math. with Appl. 2021)

Other Parallelism

• Towards a Complexity Theory of Synchronous Parallel Computation (2023)
• The four dimensions of social network analysis: An overview of research methods, applications, and software tools (Inf. Fusion 2020)
• A comprehensive survey of clustering algorithms: State-of-the-art machine learning applications, taxonomy, challenges, and future research prospects (Eng. Appl. Artif. Intell. 2022)
• Polylogarithmic-time deterministic network decomposition and distributed derandomization (STOC 2020)
• Characteristic Functions on Graphs: Birds of a Feather, from Statistical Descriptors to Parametric Models (CIKM 2020)
• Investigating the performance of exploratory graph analysis and traditional techniques to identify the number of latent factors: A simulation and tutorial (Psychol. Methods 2020)

Other Interesting Papers

• Parallel Rendering with K-Way Replication
• GPU Accelerated Range Trees with Applications
• GPS: A Graph Processing System
• GRECS: Graph Encryption for Approximate Shortest Distance Queries
• A Genetic Algorithm for Shortest Path Routing Problem and the Sizing of Populations
• A Comparison of List Schedules for Parallel Processing Systems
• APPM: Adaptive Parallel Processing Mechanism for Service Function Chains
• Dynamic critical-path scheduling: an effective technique for allocating task graphs to multiprocessors
• Majority-Inverter Graph: A novel data-structure and algorithms for efficient logic optimization
• De novo short read assembly of the human genome

Research Areas in Parallel Algorithms

• Parallel Data Structures, Distributed Hash Tables, De Bruijn Graphs
• Parallel Programming Models, Load Balancing, Scalability, Energy-Efficiency
• Big Data and Distributed Computing, Communication Efficiency, Fault Tolerance
• Hybrid and Heterogeneous Computing, Quantum Parallelism
• Multimodal AI for Human-Robot Interaction (perception, outputs, task-related)
• Multimodal Generative AI (graph generative models, knowledge, molecular, medical/bio data)
• Generative Modelling of Conversational Dynamics (self-supervised, speech patterns, rhythm)
• Physics-based Machine Learning jointly with the MedTech industry
• Underwater Robotics and Machine Learning (multiple autonomous underwater vehicles)
• Understanding Of Biodiversity Dynamics by means of Digital Twins
• Computational Fracture Mechanics (ductile/brittle, nonlocal multiscale, crack propagation)
• Modeling of Sociotechnical Systems, with focus on Road Transport
• Bio-inspired and Nature-inspired Parallel Algorithms
• Computational Biophysics (protein folding, molecular dynamics, drug design)
• Protein Design (biocatalysis, enzyme design, biopolymers, metabolites)

Modeling of Sociotechnical Systems, with focus on Road Transport: How different electrification strategies (battery-electric, fuel cells, electric roads, battery swaps etc) can compete with and complement each other?

Other Research Areas

• Cellulose paper-based materials for power transformers (oil-immersed)
• Detection of Organic Radicals in the Atmosphere (RT mass spectrometry)
• Light-Controllable Fluorescent Proteins in Microscopy (optical bio-imaging)
• BioGlue: Green chemistry for biobased wood adhesives (biopolymers)
• BioGlue: Adhesion mechanisms in biobased wood adhesives (macromolecular materials)
• BioGlue: Biobased wood adhesives for paper applications (surface chemistry)
• Metallurgy of Recycling of Steels (remove tramp elements, pyrometallurgy)
• Industrial (Antisolvent) Crystallization (extract Ni, Mn, Co from mining waste)
• Electroanalytical Chemistry