Arnaud Arindra Adiyoso Setio

Bio: Arnaud Arindra Adiyoso Setio is an academic researcher from Siemens. The author has contributed to research in topics: Supervised learning & Nodule (medicine). The author has an hindex of 14, co-authored 30 publications receiving 8634 citations. Previous affiliations of Arnaud Arindra Adiyoso Setio include Radboud University Nijmegen & Bandung Institute of Technology.

Pulmonary Nodule Detection in CT Images: False Positive Reduction Using Multi-View Convolutional Networks

Abstract: We propose a novel Computer-Aided Detection (CAD) system for pulmonary nodules using multi-view convolutional networks (ConvNets), for which discriminative features are automatically learnt from the training data. The network is fed with nodule candidates obtained by combining three candidate detectors specifically designed for solid, subsolid, and large nodules. For each candidate, a set of 2-D patches from differently oriented planes is extracted. The proposed architecture comprises multiple streams of 2-D ConvNets, for which the outputs are combined using a dedicated fusion method to get the final classification. Data augmentation and dropout are applied to avoid overfitting. On 888 scans of the publicly available LIDC-IDRI dataset, our method reaches high detection sensitivities of 85.4% and 90.1% at 1 and 4 false positives per scan, respectively. An additional evaluation on independent datasets from the ANODE09 challenge and DLCST is performed. We showed that the proposed multi-view ConvNets is highly suited to be used for false positive reduction of a CAD system.

Memory-centric accelerator design for Convolutional Neural Networks

Abstract: In the near future, cameras will be used everywhere as flexible sensors for numerous applications. For mobility and privacy reasons, the required image processing should be local on embedded computer platforms with performance requirements and energy constraints. Dedicated acceleration of Convolutional Neural Networks (CNN) can achieve these targets with enough flexibility to perform multiple vision tasks. A challenging problem for the design of efficient accelerators is the limited amount of external memory bandwidth. We show that the effects of the memory bottleneck can be reduced by a flexible memory hierarchy that supports the complex data access patterns in CNN workload. The efficiency of the on-chip memories is maximized by our scheduler that uses tiling to optimize for data locality. Our design flow ensures that on-chip memory size is minimized, which reduces area and energy usage. The design flow is evaluated by a High Level Synthesis implementation on a Virtex 6 FPGA board. Compared to accelerators with standard scratchpad memories the FPGA resources can be reduced up to 13× while maintaining the same performance. Alternatively, when the same amount of FPGA resources is used our accelerators are up to 11× faster.

Off-the-shelf convolutional neural network features for pulmonary nodule detection in computed tomography scans

Abstract: Convolutional neural networks (CNNs) have emerged as the most powerful technique for a range of different tasks in computer vision. Recent work suggested that CNN features are generic and can be used for classification tasks outside the exact domain for which the networks were trained. In this work we use the features from one such network, OverFeat, trained for object detection in natural images, for nodule detection in computed tomography scans. We use 865 scans from the publicly available LIDC data set, read by four thoracic radiologists. Nodule candidates are generated by a state-of-the-art nodule detection system. We extract 2D sagittal, coronal and axial patches for each nodule candidate and extract 4096 features from the penultimate layer of OverFeat and classify these with linear support vector machines. We show for various configurations that the off-the-shelf CNN features perform surprisingly well, but not as good as the dedicated detection system. When both approaches are combined, significantly better results are obtained than either approach alone. We conclude that CNN features have great potential to be used for detection tasks in volumetric medical data.

A survey on Image Data Augmentation for Deep Learning

Abstract: Deep convolutional neural networks have performed remarkably well on many Computer Vision tasks. However, these networks are heavily reliant on big data to avoid overfitting. Overfitting refers to the phenomenon when a network learns a function with very high variance such as to perfectly model the training data. Unfortunately, many application domains do not have access to big data, such as medical image analysis. This survey focuses on Data Augmentation, a data-space solution to the problem of limited data. Data Augmentation encompasses a suite of techniques that enhance the size and quality of training datasets such that better Deep Learning models can be built using them. The image augmentation algorithms discussed in this survey include geometric transformations, color space augmentations, kernel filters, mixing images, random erasing, feature space augmentation, adversarial training, generative adversarial networks, neural style transfer, and meta-learning. The application of augmentation methods based on GANs are heavily covered in this survey. In addition to augmentation techniques, this paper will briefly discuss other characteristics of Data Augmentation such as test-time augmentation, resolution impact, final dataset size, and curriculum learning. This survey will present existing methods for Data Augmentation, promising developments, and meta-level decisions for implementing Data Augmentation. Readers will understand how Data Augmentation can improve the performance of their models and expand limited datasets to take advantage of the capabilities of big data.

Deep Convolutional Neural Networks for Computer-Aided Detection: CNN Architectures, Dataset Characteristics and Transfer Learning

Abstract: Remarkable progress has been made in image recognition, primarily due to the availability of large-scale annotated datasets and deep convolutional neural networks (CNNs). CNNs enable learning data-driven, highly representative, hierarchical image features from sufficient training data. However, obtaining datasets as comprehensively annotated as ImageNet in the medical imaging domain remains a challenge. There are currently three major techniques that successfully employ CNNs to medical image classification: training the CNN from scratch, using off-the-shelf pre-trained CNN features, and conducting unsupervised CNN pre-training with supervised fine-tuning. Another effective method is transfer learning, i.e., fine-tuning CNN models pre-trained from natural image dataset to medical image tasks. In this paper, we exploit three important, but previously understudied factors of employing deep convolutional neural networks to computer-aided detection problems. We first explore and evaluate different CNN architectures. The studied models contain 5 thousand to 160 million parameters, and vary in numbers of layers. We then evaluate the influence of dataset scale and spatial image context on performance. Finally, we examine when and why transfer learning from pre-trained ImageNet (via fine-tuning) can be useful. We study two specific computer-aided detection (CADe) problems, namely thoraco-abdominal lymph node (LN) detection and interstitial lung disease (ILD) classification. We achieve the state-of-the-art performance on the mediastinal LN detection, and report the first five-fold cross-validation classification results on predicting axial CT slices with ILD categories. Our extensive empirical evaluation, CNN model analysis and valuable insights can be extended to the design of high performance CAD systems for other medical imaging tasks.

In-Datacenter Performance Analysis of a Tensor Processing Unit

Abstract: Many architects believe that major improvements in cost-energy-performance must now come from domain-specific hardware. This paper evaluates a custom ASIC---called a Tensor Processing Unit (TPU)---deployed in datacenters since 2015 that accelerates the inference phase of neural networks (NN). The heart of the TPU is a 65,536 8-bit MAC matrix multiply unit that offers a peak throughput of 92 TeraOps/second (TOPS) and a large (28 MiB) software-managed on-chip memory. The TPU's deterministic execution model is a better match to the 99th-percentile response-time requirement of our NN applications than are the time-varying optimizations of CPUs and GPUs (caches, out-of-order execution, multithreading, multiprocessing, prefetching, ...) that help average throughput more than guaranteed latency. The lack of such features helps explain why, despite having myriad MACs and a big memory, the TPU is relatively small and low power. We compare the TPU to a server-class Intel Haswell CPU and an Nvidia K80 GPU, which are contemporaries deployed in the same datacenters. Our workload, written in the high-level TensorFlow framework, uses production NN applications (MLPs, CNNs, and LSTMs) that represent 95% of our datacenters' NN inference demand. Despite low utilization for some applications, the TPU is on average about 15X - 30X faster than its contemporary GPU or CPU, with TOPS/Watt about 30X - 80X higher. Moreover, using the GPU's GDDR5 memory in the TPU would triple achieved TOPS and raise TOPS/Watt to nearly 70X the GPU and 200X the CPU.