CNN-on-AWS: Efficient Allocation of Multi-Kernel Applications on Multi-FPGA Platforms

Multi-FPGA platforms, like Amazon AWS F1, can run in the cloud multi-kernel pipelined applications, like Convolutional Neural Networks (CNNs), with excellent performance and lower energy consumption than CPUs or GPUs. We propose a method to efficiently map these applications on multi-FPGA platforms to maximize application throughput. Our methodology finds, for the given resources, the optimal number of parallel instances of each kernel in the pipeline and their allocation to one or more among the available FPGAs. We obtain this by formulating and solving a mixed-integer, non-linear optimization problem, in which we model the performance of each component and the duration of the phases in which the accelerated computation can be split into, namely: 1) data transfer from a host CPU to the DDR memory of each FPGA, 2) data transfer from FPGA DDR to FPGA on-chip memory, 3) kernel computation on the FPGA, 4) data transfer from FPGA on-chip memory to FPGA DDR, 5) data transfer from FPGA DDR to host. Finding the optimal solution using a Mixed-Integer Non-Linear Programming (MINLP) solver is often highly inefficient. Hence, we provide a fast heuristic method that according to our experiments can be much more efficient than the MINLP solver and finds comparable results. For larger problems (more CNN layers), our heuristic method can quickly find (several thousand times faster) much better solutions than the MINLP solver, even if we run the latter for a very long time

Introduction to Medical Imaging Informatics

Medical imaging informatics is a rapidly growing field that combines the principles of medical imaging and informatics to improve the acquisition, management, and interpretation of medical images. This chapter introduces the basic concepts of medical imaging informatics, including image processing, feature engineering, and machine learning. It also discusses the recent advancements in computer vision and deep learning technologies and how they are used to develop new quantitative image markers and prediction models for disease detection, diagnosis, and prognosis prediction. By covering the basic knowledge of medical imaging informatics, this chapter provides a foundation for understanding the role of informatics in medicine and its potential impact on patient care.Comment: 17 pages, 11 figures, 2 tables; Acceptance of the chapter for the Springer book "Data-driven approaches to medical imaging

Performance and Power Optimization of Multi-kernel Applications on Multi-FPGA Platforms

L'abstract è presente nell'allegato / the abstract is in the attachmen

Deep learning in mining biological data

Recent technological advancements in data acquisition tools allowed life scientists to acquire multimodal data from different biological application domains. Categorised in three broad types (i.e., images, signals, and sequences), these data are huge in amount and complex in nature. Mining such enormous amount of data for pattern recognition is a big challenge and requires sophisticated data intensive machine learning techniques. Artificial neural network based learning systems are well known for their pattern recognition capabilities and lately their deep architectures - known as deep learning (DL) - have been successfully applied to solve many complex pattern recognition problems. To investigate how DL - especially its different architectures - has contributed and utilised in the mining of biological data pertaining to those three types, a meta analysis has been performed and the resulting resources have been critically analysed. Focusing on the use of DL to analyse patterns in data from diverse biological domains, this work investigates different DL architectures' applications to these data. This is followed by an exploration of available open access data sources pertaining to the three data types along with popular open source DL tools applicable to these data. Also, comparative investigations of these tools from qualitative, quantitative, and benchmarking perspectives are provided. Finally, some open research challenges in using DL to mine biological data are outlined and a number of possible future perspectives are put forward

Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries

This two-volume set LNCS 12962 and 12963 constitutes the thoroughly refereed proceedings of the 7th International MICCAI Brainlesion Workshop, BrainLes 2021, as well as the RSNA-ASNR-MICCAI Brain Tumor Segmentation (BraTS) Challenge, the Federated Tumor Segmentation (FeTS) Challenge, the Cross-Modality Domain Adaptation (CrossMoDA) Challenge, and the challenge on Quantification of Uncertainties in Biomedical Image Quantification (QUBIQ). These were held jointly at the 23rd Medical Image Computing for Computer Assisted Intervention Conference, MICCAI 2020, in September 2021. The 91 revised papers presented in these volumes were selected form 151 submissions. Due to COVID-19 pandemic the conference was held virtually. This is an open access book