pwc-archive/papers-with-abstracts huggingface dataset:
Leveraging ASR Pretrained Conformers for Speaker Verification through Transfer Learning and Knowledge Distillation
Authors: Danwei Cai, Ming Li
Date: 2023-09-06 00:00:00
Tasks: Knowledge Distillation, Speaker Verification, Transfer Learning

This paper explores the use of ASR-pretrained Conformers for speaker verification, leveraging their strengths in modeling speech signals. We introduce three strategies: (1) Transfer learning to initialize the speaker embedding network, improving generalization and reducing overfitting. (2) Knowledge distillation to train a more flexible speaker verification model, incorporating frame-level ASR loss as an auxiliary task. (3) A lightweight speaker adaptor for efficient feature conversion without altering the original ASR Conformer, allowing parallel ASR and speaker verification. Experiments on VoxCeleb show significant improvements: transfer learning yields a 0.48% EER, knowledge distillation results in a 0.43% EER, and the speaker adaptor approach, with just an added 4.92M parameters to a 130.94M-parameter model, achieves a 0.57% EER. Overall, our methods effectively transfer ASR capabilities to speaker verification tasks.
AGMDT: Virtual Staining of Renal Histology Images with Adjacency-Guided Multi-Domain Transfer
Authors: Tao Ma, Chao Zhang, Min Lu, Lin Luo
Date: 2023-09-12 00:00:00
Tasks: Graph Matching, Style Transfer, Virtual Staining

Renal pathology, as the gold standard of kidney disease diagnosis, requires doctors to analyze a series of tissue slices stained by H&E staining and special staining like Masson, PASM, and PAS, respectively. These special staining methods are costly, time-consuming, and hard to standardize for wide use especially in primary hospitals. Advances of supervised learning methods have enabled the virtually conversion of H&E images into special staining images, but achieving pixel-to-pixel alignment for training remains challenging. In contrast, unsupervised learning methods regarding different stains as different style transfer domains can utilize unpaired data, but they ignore the spatial inter-domain correlations and thus decrease the trustworthiness of structural details for diagnosis. In this paper, we propose a novel virtual staining framework AGMDT to translate images into other domains by avoiding pixel-level alignment and meanwhile utilizing the correlations among adjacent tissue slices. We first build a high-quality multi-domain renal histological dataset where each specimen case comprises a series of slices stained in various ways. Based on it, the proposed framework AGMDT discovers patch-level aligned pairs across the serial slices of multi-domains through glomerulus detection and bipartite graph matching, and utilizes such correlations to supervise the end-to-end model for multi-domain staining transformation. Experimental results show that the proposed AGMDT achieves a good balance between the precise pixel-level alignment and unpaired domain transfer by exploiting correlations across multi-domain serial pathological slices, and outperforms the state-of-the-art methods in both quantitative measure and morphological details.
ssVERDICT: Self-Supervised VERDICT-MRI for Enhanced Prostate Tumour Characterisation
Authors: Snigdha Sen, Saurabh Singh, Hayley Pye, Caroline M. Moore, Hayley Whitaker, Shonit Punwani, David Atkinson, Eleftheria Panagiotaki, Paddy J. Slator
Date: 2023-09-12 00:00:00
Tasks: Diffusion  MRI, Self-Supervised Learning

Purpose: Demonstrating and assessing self-supervised machine learning fitting of the VERDICT (Vascular, Extracellular and Restricted DIffusion for Cytometry in Tumours) model for prostate. Methods: We derive a self-supervised neural network for fitting VERDICT (ssVERDICT) that estimates parameter maps without training data. We compare the performance of ssVERDICT to two established baseline methods for fitting diffusion MRI models: conventional nonlinear least squares (NLLS) and supervised deep learning. We do this quantitatively on simulated data, by comparing the Pearson's correlation coefficient, mean-squared error (MSE), bias, and variance with respect to the simulated ground truth. We also calculate in vivo parameter maps on a cohort of 20 prostate cancer patients and compare the methods' performance in discriminating benign from cancerous tissue via Wilcoxon's signed-rank test. Results: In simulations, ssVERDICT outperforms the baseline methods (NLLS and supervised DL) in estimating all the parameters from the VERDICT prostate model in terms of Pearson's correlation coefficient, bias, and MSE. In vivo, ssVERDICT shows stronger lesion conspicuity across all parameter maps, and improves discrimination between benign and cancerous tissue over the baseline methods. Conclusion: ssVERDICT significantly outperforms state-of-the-art methods for VERDICT model fitting, and shows for the first time, fitting of a complex three-compartment biophysical model with machine learning without the requirement of explicit training labels.
Improving Generalization Capability of Deep Learning-Based Nuclei Instance Segmentation by Non-deterministic Train Time and Deterministic Test Time Stain Normalization
Authors: Amirreza Mahbod, Georg Dorffner, Isabella Ellinger, Ramona Woitek, Sepideh Hatamikia
Date: 2023-09-12 00:00:00
Tasks: Instance Segmentation, Segmentation, Semantic Segmentation

With the advent of digital pathology and microscopic systems that can scan and save whole slide histological images automatically, there is a growing trend to use computerized methods to analyze acquired images. Among different histopathological image analysis tasks, nuclei instance segmentation plays a fundamental role in a wide range of clinical and research applications. While many semi- and fully-automatic computerized methods have been proposed for nuclei instance segmentation, deep learning (DL)-based approaches have been shown to deliver the best performances. However, the performance of such approaches usually degrades when tested on unseen datasets. In this work, we propose a novel method to improve the generalization capability of a DL-based automatic segmentation approach. Besides utilizing one of the state-of-the-art DL-based models as a baseline, our method incorporates non-deterministic train time and deterministic test time stain normalization, and ensembling to boost the segmentation performance. We trained the model with one single training set and evaluated its segmentation performance on seven test datasets. Our results show that the proposed method provides up to 4.9%, 5.4%, and 5.9% better average performance in segmenting nuclei based on Dice score, aggregated Jaccard index, and panoptic quality score, respectively, compared to the baseline segmentation model.
A robust synthetic data generation framework for machine learning in High-Resolution Transmission Electron Microscopy (HRTEM)
Authors: Luis Rangel DaCosta, Katherine Sytwu, Catherine Groschner, Mary Scott
Date: 2023-09-12 00:00:00
Tasks: Synthetic Data Generation

Machine learning techniques are attractive options for developing highly-accurate automated analysis tools for nanomaterials characterization, including high-resolution transmission electron microscopy (HRTEM). However, successfully implementing such machine learning tools can be difficult due to the challenges in procuring sufficiently large, high-quality training datasets from experiments. In this work, we introduce Construction Zone, a Python package for rapidly generating complex nanoscale atomic structures, and develop an end-to-end workflow for creating large simulated databases for training neural networks. Construction Zone enables fast, systematic sampling of realistic nanomaterial structures, and can be used as a random structure generator for simulated databases, which is important for generating large, diverse synthetic datasets. Using HRTEM imaging as an example, we train a series of neural networks on various subsets of our simulated databases to segment nanoparticles and holistically study the data curation process to understand how various aspects of the curated simulated data -- including simulation fidelity, the distribution of atomic structures, and the distribution of imaging conditions -- affect model performance across several experimental benchmarks. Using our results, we are able to achieve state-of-the-art segmentation performance on experimental HRTEM images of nanoparticles from several experimental benchmarks and, further, we discuss robust strategies for consistently achieving high performance with machine learning in experimental settings using purely synthetic data.
A2V: A Semi-Supervised Domain Adaptation Framework for Brain Vessel Segmentation via Two-Phase Training Angiography-to-Venography Translation
Authors: Francesco Galati, Daniele Falcetta, Rosa Cortese, Barbara Casolla, Ferran Prados, Ninon Burgos, Maria A. Zuluaga
Date: 2023-09-12 00:00:00
Tasks: Domain Adaptation, Image Segmentation, Image-to-Image Translation, Segmentation, Semantic Segmentation, Semi-supervised Domain Adaptation

We present a semi-supervised domain adaptation framework for brain vessel segmentation from different image modalities. Existing state-of-the-art methods focus on a single modality, despite the wide range of available cerebrovascular imaging techniques. This can lead to significant distribution shifts that negatively impact the generalization across modalities. By relying on annotated angiographies and a limited number of annotated venographies, our framework accomplishes image-to-image translation and semantic segmentation, leveraging a disentangled and semantically rich latent space to represent heterogeneous data and perform image-level adaptation from source to target domains. Moreover, we reduce the typical complexity of cycle-based architectures and minimize the use of adversarial training, which allows us to build an efficient and intuitive model with stable training. We evaluate our method on magnetic resonance angiographies and venographies. While achieving state-of-the-art performance in the source domain, our method attains a Dice score coefficient in the target domain that is only 8.9% lower, highlighting its promising potential for robust cerebrovascular image segmentation across different modalities.
A new meteor detection application robust to camera movements
Authors: Clara Ciocan, Mathuran Kandeepan, Adrien Cassagne, Jeremie Vaubaillon, Fabian Zander, Lionel Lacassagne
Date: 2023-09-12 00:00:00

This article presents a new tool for the automatic detection of meteors. Fast Meteor Detection Toolbox (FMDT) is able to detect meteor sightings by analyzing videos acquired by cameras onboard weather balloons or within airplane with stabilization. The challenge consists in designing a processing chain composed of simple algorithms, that are robust to the high fluctuation of the videos and that satisfy the constraints on power consumption (10 W) and real-time processing (25 frames per second).
RGB-Guided Resolution Enhancement of IR Images
Authors: Marcel Trammer, Nils Genser, Jürgen Seiler
Date: 2023-09-12 00:00:00
Tasks: Image Super-Resolution, Super-Resolution

This paper introduces a novel method for RGB-Guided Resolution Enhancement of infrared (IR) images called Guided IR Resolution Enhancement (GIRRE). In the area of single image super resolution (SISR) there exists a wide variety of algorithms like interpolation methods or neural networks to improve the spatial resolution of images. In contrast to SISR, even more information can be gathered on the recorded scene when using multiple cameras. In our setup, we are dealing with multi image super resolution, especially with stereo super resolution. We consider a color camera and an IR camera. Current IR sensors have a very low resolution compared to color sensors so that recent color sensors take up 100 times more pixels than IR sensors. To this end, GIRRE increases the spatial resolution of the low-resolution IR image. After that, the upscaled image is filtered with the aid of the high-resolution color image. We show that our method achieves an average PSNR gain of 1.2 dB and at best up to 1.8 dB compared to state-of-the-art methods, which is visually noticeable.
Introducing Shape Prior Module in Diffusion Model for Medical Image Segmentation
Authors: Zhiqing Zhang, Guojia Fan, Tianyong Liu, Nan Li, Yuyang Liu, Ziyu Liu, Canwei Dong, Shoujun Zhou
Date: 2023-09-12 00:00:00
Tasks: Anatomy, Anomaly Detection, Deblurring, Denoising, Image Deblurring, Image Segmentation, Medical Image Segmentation, Segmentation, Semantic Segmentation, Super-Resolution

Medical image segmentation is critical for diagnosing and treating spinal disorders. However, the presence of high noise, ambiguity, and uncertainty makes this task highly challenging. Factors such as unclear anatomical boundaries, inter-class similarities, and irrational annotations contribute to this challenge. Achieving both accurate and diverse segmentation templates is essential to support radiologists in clinical practice. In recent years, denoising diffusion probabilistic modeling (DDPM) has emerged as a prominent research topic in computer vision. It has demonstrated effectiveness in various vision tasks, including image deblurring, super-resolution, anomaly detection, and even semantic representation generation at the pixel level. Despite the robustness of existing diffusion models in visual generation tasks, they still struggle with discrete masks and their various effects. To address the need for accurate and diverse spine medical image segmentation templates, we propose an end-to-end framework called VerseDiff-UNet, which leverages the denoising diffusion probabilistic model (DDPM). Our approach integrates the diffusion model into a standard U-shaped architecture. At each step, we combine the noise-added image with the labeled mask to guide the diffusion direction accurately towards the target region. Furthermore, to capture specific anatomical a priori information in medical images, we incorporate a shape a priori module. This module efficiently extracts structural semantic information from the input spine images. We evaluate our method on a single dataset of spine images acquired through X-ray imaging. Our results demonstrate that VerseDiff-UNet significantly outperforms other state-of-the-art methods in terms of accuracy while preserving the natural features and variations of anatomy.
Deep evidential fusion with uncertainty quantification and contextual discounting for multimodal medical image segmentation
Authors: Ling Huang, Su Ruan, Pierre Decazes, Thierry Denoeux
Date: 2023-09-12 00:00:00
Tasks: Image Segmentation, Medical Image Segmentation, Semantic Segmentation, Uncertainty Quantification

Single-modality medical images generally do not contain enough information to reach an accurate and reliable diagnosis. For this reason, physicians generally diagnose diseases based on multimodal medical images such as, e.g., PET/CT. The effective fusion of multimodal information is essential to reach a reliable decision and explain how the decision is made as well. In this paper, we propose a fusion framework for multimodal medical image segmentation based on deep learning and the Dempster-Shafer theory of evidence. In this framework, the reliability of each single modality image when segmenting different objects is taken into account by a contextual discounting operation. The discounted pieces of evidence from each modality are then combined by Dempster's rule to reach a final decision. Experimental results with a PET-CT dataset with lymphomas and a multi-MRI dataset with brain tumors show that our method outperforms the state-of-the-art methods in accuracy and reliability.
Radiomics Boosts Deep Learning Model for IPMN Classification
Authors: Lanhong Yao, Zheyuan Zhang, Ugur Demir, Elif Keles, Camila Vendrami, Emil Agarunov, Candice Bolan, Ivo Schoots, Marc Bruno, Rajesh Keswani, Frank Miller, Tamas Gonda, Cemal Yazici, Temel Tirkes, Michael Wallace, Concetto Spampinato, Ulas Bagci
Date: 2023-09-11 00:00:00
Tasks: Classification, Decision Making, Deep Learning

Intraductal Papillary Mucinous Neoplasm (IPMN) cysts are pre-malignant pancreas lesions, and they can progress into pancreatic cancer. Therefore, detecting and stratifying their risk level is of ultimate importance for effective treatment planning and disease control. However, this is a highly challenging task because of the diverse and irregular shape, texture, and size of the IPMN cysts as well as the pancreas. In this study, we propose a novel computer-aided diagnosis pipeline for IPMN risk classification from multi-contrast MRI scans. Our proposed analysis framework includes an efficient volumetric self-adapting segmentation strategy for pancreas delineation, followed by a newly designed deep learning-based classification scheme with a radiomics-based predictive approach. We test our proposed decision-fusion model in multi-center data sets of 246 multi-contrast MRI scans and obtain superior performance to the state of the art (SOTA) in this field. Our ablation studies demonstrate the significance of both radiomics and deep learning modules for achieving the new SOTA performance compared to international guidelines and published studies (81.9\% vs 61.3\% in accuracy). Our findings have important implications for clinical decision-making. In a series of rigorous experiments on multi-center data sets (246 MRI scans from five centers), we achieved unprecedented performance (81.9\% accuracy).
Designs and Implementations in Neural Network-based Video Coding
Authors: Yue Li, Junru Li, Chaoyi Lin, Kai Zhang, Li Zhang, Franck Galpin, Thierry Dumas, Hongtao Wang, Muhammed Coban, Jacob Ström, Du Liu, Kenneth Andersson
Date: 2023-09-11 00:00:00
Tasks: Autonomous Driving, Face Recognition, Language Modelling, Large Language Model, Video Compression

The past decade has witnessed the huge success of deep learning in well-known artificial intelligence applications such as face recognition, autonomous driving, and large language model like ChatGPT. Recently, the application of deep learning has been extended to a much wider range, with neural network-based video coding being one of them. Neural network-based video coding can be performed at two different levels: embedding neural network-based (NN-based) coding tools into a classical video compression framework or building the entire compression framework upon neural networks. This paper elaborates some of the recent exploration efforts of JVET (Joint Video Experts Team of ITU-T SG 16 WP 3 and ISO/IEC JTC 1/SC29) in the name of neural network-based video coding (NNVC), falling in the former category. Specifically, this paper discusses two major NN-based video coding technologies, i.e. neural network-based intra prediction and neural network-based in-loop filtering, which have been investigated for several meeting cycles in JVET and finally adopted into the reference software of NNVC. Extensive experiments on top of the NNVC have been conducted to evaluate the effectiveness of the proposed techniques. Compared with VTM-11.0_nnvc, the proposed NN-based coding tools in NNVC-4.0 could achieve {11.94%, 21.86%, 22.59%}, {9.18%, 19.76%, 20.92%}, and {10.63%, 21.56%, 23.02%} BD-rate reductions on average for {Y, Cb, Cr} under random-access, low-delay, and all-intra configurations respectively.
Rice Plant Disease Detection and Diagnosis using Deep Convolutional Neural Networks and Multispectral Imaging
Authors: Yara Ali Alnaggar, Ahmad Sebaq, Karim Amer, ElSayed Naeem, Mohamed ElHelw
Date: 2023-09-11 00:00:00

Rice is considered a strategic crop in Egypt as it is regularly consumed in the Egyptian people's diet. Even though Egypt is the highest rice producer in Africa with a share of 6 million tons per year, it still imports rice to satisfy its local needs due to production loss, especially due to rice disease. Rice blast disease is responsible for 30% loss in rice production worldwide. Therefore, it is crucial to target limiting yield damage by detecting rice crops diseases in its early stages. This paper introduces a public multispectral and RGB images dataset and a deep learning pipeline for rice plant disease detection using multi-modal data. The collected multispectral images consist of Red, Green and Near-Infrared channels and we show that using multispectral along with RGB channels as input archives a higher F1 accuracy compared to using RGB input only.
Robust Physics-based Deep MRI Reconstruction Via Diffusion Purification
Authors: Ismail Alkhouri, Shijun Liang, Rongrong Wang, Qing Qu, Saiprasad Ravishankar
Date: 2023-09-11 00:00:00
Tasks: Adversarial Defense, Image Reconstruction, MRI Reconstruction

Deep learning (DL) techniques have been extensively employed in magnetic resonance imaging (MRI) reconstruction, delivering notable performance enhancements over traditional non-DL methods. Nonetheless, recent studies have identified vulnerabilities in these models during testing, namely, their susceptibility to (\textit{i}) worst-case measurement perturbations and to (\textit{ii}) variations in training/testing settings like acceleration factors and k-space sampling locations. This paper addresses the robustness challenges by leveraging diffusion models. In particular, we present a robustification strategy that improves the resilience of DL-based MRI reconstruction methods by utilizing pretrained diffusion models as noise purifiers. In contrast to conventional robustification methods for DL-based MRI reconstruction, such as adversarial training (AT), our proposed approach eliminates the need to tackle a minimax optimization problem. It only necessitates fine-tuning on purified examples. Our experimental results highlight the efficacy of our approach in mitigating the aforementioned instabilities when compared to leading robustification approaches for deep MRI reconstruction, including AT and randomized smoothing.
LUNet: Deep Learning for the Segmentation of Arterioles and Venules in High Resolution Fundus Images
Authors: Jonathan Fhima, Jan Van Eijgen, Hana Kulenovic, Valérie Debeuf, Marie Vangilbergen, Marie-Isaline Billen, Heloïse Brackenier, Moti Freiman, Ingeborg Stalmans, Joachim A. Behar
Date: 2023-09-11 00:00:00
Tasks: Active Learning, Artery/Veins Retinal Vessel Segmentation, Retinal Vessel Segmentation, Segmentation

The retina is the only part of the human body in which blood vessels can be accessed non-invasively using imaging techniques such as digital fundus images (DFI). The spatial distribution of the retinal microvasculature may change with cardiovascular diseases and thus the eyes may be regarded as a window to our hearts. Computerized segmentation of the retinal arterioles and venules (A/V) is essential for automated microvasculature analysis. Using active learning, we created a new DFI dataset containing 240 crowd-sourced manual A/V segmentations performed by fifteen medical students and reviewed by an ophthalmologist, and developed LUNet, a novel deep learning architecture for high resolution A/V segmentation. LUNet architecture includes a double dilated convolutional block that aims to enhance the receptive field of the model and reduce its parameter count. Furthermore, LUNet has a long tail that operates at high resolution to refine the segmentation. The custom loss function emphasizes the continuity of the blood vessels. LUNet is shown to significantly outperform two state-of-the-art segmentation algorithms on the local test set as well as on four external test sets simulating distribution shifts across ethnicity, comorbidities, and annotators. We make the newly created dataset open access (upon publication).