pwc-archive/papers-with-abstracts huggingface dataset:
Diffusion Models for Counterfactual Generation and Anomaly Detection in Brain Images
Authors: Alessandro Fontanella, Grant Mair, Joanna Wardlaw, Emanuele Trucco, Amos Storkey
Date: 2023-08-03 00:00:00
Tasks: Anatomy, Anomaly Detection, counterfactual, Denoising, Lesion Segmentation, Segmentation

Segmentation masks of pathological areas are useful in many medical applications, such as brain tumour and stroke management. Moreover, healthy counterfactuals of diseased images can be used to enhance radiologists' training files and to improve the interpretability of segmentation models. In this work, we present a weakly supervised method to generate a healthy version of a diseased image and then use it to obtain a pixel-wise anomaly map. To do so, we start by considering a saliency map that approximately covers the pathological areas, obtained with ACAT. Then, we propose a technique that allows to perform targeted modifications to these regions, while preserving the rest of the image. In particular, we employ a diffusion model trained on healthy samples and combine Denoising Diffusion Probabilistic Model (DDPM) and Denoising Diffusion Implicit Model (DDIM) at each step of the sampling process. DDPM is used to modify the areas affected by a lesion within the saliency map, while DDIM guarantees reconstruction of the normal anatomy outside of it. The two parts are also fused at each timestep, to guarantee the generation of a sample with a coherent appearance and a seamless transition between edited and unedited parts. We verify that when our method is applied to healthy samples, the input images are reconstructed without significant modifications. We compare our approach with alternative weakly supervised methods on the task of brain lesion segmentation, achieving the highest mean Dice and IoU scores among the models considered.
UGainS: Uncertainty Guided Anomaly Instance Segmentation
Authors: Alexey Nekrasov, Alexander Hermans, Lars Kuhnert, Bastian Leibe
Date: 2023-08-03 00:00:00
Tasks: Anomaly Detection, Anomaly Instance Segmentation, Anomaly Segmentation, Autonomous Driving, Instance Segmentation, Object Detection, Segmentation, Semantic Segmentation

A single unexpected object on the road can cause an accident or may lead to injuries. To prevent this, we need a reliable mechanism for finding anomalous objects on the road. This task, called anomaly segmentation, can be a stepping stone to safe and reliable autonomous driving. Current approaches tackle anomaly segmentation by assigning an anomaly score to each pixel and by grouping anomalous regions using simple heuristics. However, pixel grouping is a limiting factor when it comes to evaluating the segmentation performance of individual anomalous objects. To address the issue of grouping multiple anomaly instances into one, we propose an approach that produces accurate anomaly instance masks. Our approach centers on an out-of-distribution segmentation model for identifying uncertain regions and a strong generalist segmentation model for anomaly instances segmentation. We investigate ways to use uncertain regions to guide such a segmentation model to perform segmentation of anomalous instances. By incorporating strong object priors from a generalist model we additionally improve the per-pixel anomaly segmentation performance. Our approach outperforms current pixel-level anomaly segmentation methods, achieving an AP of 80.08% and 88.98% on the Fishyscapes Lost and Found and the RoadAnomaly validation sets respectively. Project page: https://vision.rwth-aachen.de/ugains
ETran: Energy-Based Transferability Estimation
Authors: Mohsen Gholami, Mohammad Akbari, Xinglu Wang, Behnam Kamranian, Yong Zhang
Date: 2023-08-03 00:00:00
Proceeding: ICCV 2023 1
Tasks: Classification, image-classification, Image Classification, Object, object-detection, Object Detection, regression, Transferability

This paper addresses the problem of ranking pre-trained models for object detection and image classification. Selecting the best pre-trained model by fine-tuning is an expensive and time-consuming task. Previous works have proposed transferability estimation based on features extracted by the pre-trained models. We argue that quantifying whether the target dataset is in-distribution (IND) or out-of-distribution (OOD) for the pre-trained model is an important factor in the transferability estimation. To this end, we propose ETran, an energy-based transferability assessment metric, which includes three scores: 1) energy score, 2) classification score, and 3) regression score. We use energy-based models to determine whether the target dataset is OOD or IND for the pre-trained model. In contrast to the prior works, ETran is applicable to a wide range of tasks including classification, regression, and object detection (classification+regression). This is the first work that proposes transferability estimation for object detection task. Our extensive experiments on four benchmarks and two tasks show that ETran outperforms previous works on object detection and classification benchmarks by an average of 21% and 12%, respectively, and achieves SOTA in transferability assessment.
Explainable unsupervised multi-modal image registration using deep networks
Authors: Chengjia Wang, Giorgos Papanastasiou
Date: 2023-08-03 00:00:00
Tasks: Decision Making, image-classification, Image Classification, Image Registration

Clinical decision making from magnetic resonance imaging (MRI) combines complementary information from multiple MRI sequences (defined as 'modalities'). MRI image registration aims to geometrically 'pair' diagnoses from different modalities, time points and slices. Both intra- and inter-modality MRI registration are essential components in clinical MRI settings. Further, an MRI image processing pipeline that can address both afine and non-rigid registration is critical, as both types of deformations may be occuring in real MRI data scenarios. Unlike image classification, explainability is not commonly addressed in image registration deep learning (DL) methods, as it is challenging to interpet model-data behaviours against transformation fields. To properly address this, we incorporate Grad-CAM-based explainability frameworks in each major component of our unsupervised multi-modal and multi-organ image registration DL methodology. We previously demonstrated that we were able to reach superior performance (against the current standard Syn method). In this work, we show that our DL model becomes fully explainable, setting the framework to generalise our approach on further medical imaging data.
Predicting Ki67, ER, PR, and HER2 Statuses from H&E-stained Breast Cancer Images
Authors: Amir Akbarnejad, Nilanjan Ray, Penny J. Barnes, Gilbert Bigras
Date: 2023-08-03 00:00:00
Tasks: Binary Classification

Despite the advances in machine learning and digital pathology, it is not yet clear if machine learning methods can accurately predict molecular information merely from histomorphology. In a quest to answer this question, we built a large-scale dataset (185538 images) with reliable measurements for Ki67, ER, PR, and HER2 statuses. The dataset is composed of mirrored images of H\&E and corresponding images of immunohistochemistry (IHC) assays (Ki67, ER, PR, and HER2. These images are mirrored through registration. To increase reliability, individual pairs were inspected and discarded if artifacts were present (tissue folding, bubbles, etc). Measurements for Ki67, ER and PR were determined by calculating H-Score from image analysis. HER2 measurement is based on binary classification: 0 and 1+ (IHC scores representing a negative subset) vs 3+ (IHC score positive subset). Cases with IHC equivocal score (2+) were excluded. We show that a standard ViT-based pipeline can achieve prediction performances around 90% in terms of Area Under the Curve (AUC) when trained with a proper labeling protocol. Finally, we shed light on the ability of the trained classifiers to localize relevant regions, which encourages future work to improve the localizations. Our proposed dataset is publicly available: https://ihc4bc.github.io/
CartiMorph: a framework for automated knee articular cartilage morphometrics
Authors: Yongcheng Yao, Junru Zhong, Liping Zhang, Sheheryar Khan, Weitian Chen
Date: 2023-08-03 00:00:00
Tasks: Image Registration, Segmentation

We introduce CartiMorph, a framework for automated knee articular cartilage morphometrics. It takes an image as input and generates quantitative metrics for cartilage subregions, including the percentage of full-thickness cartilage loss (FCL), mean thickness, surface area, and volume. CartiMorph leverages the power of deep learning models for hierarchical image feature representation. Deep learning models were trained and validated for tissue segmentation, template construction, and template-to-image registration. We established methods for surface-normal-based cartilage thickness mapping, FCL estimation, and rule-based cartilage parcellation. Our cartilage thickness map showed less error in thin and peripheral regions. We evaluated the effectiveness of the adopted segmentation model by comparing the quantitative metrics obtained from model segmentation and those from manual segmentation. The root-mean-squared deviation of the FCL measurements was less than 8%, and strong correlations were observed for the mean thickness (Pearson's correlation coefficient $\rho \in [0.82,0.97]$), surface area ($\rho \in [0.82,0.98]$) and volume ($\rho \in [0.89,0.98]$) measurements. We compared our FCL measurements with those from a previous study and found that our measurements deviated less from the ground truths. We observed superior performance of the proposed rule-based cartilage parcellation method compared with the atlas-based approach. CartiMorph has the potential to promote imaging biomarkers discovery for knee osteoarthritis.
RealCQA: Scientific Chart Question Answering as a Test-bed for First-Order Logic
Authors: Saleem Ahmed, Bhavin Jawade, Shubham Pandey, Srirangaraj Setlur, Venu Govindaraju
Date: 2023-08-03 00:00:00
Tasks: Chart Question Answering, Formal Logic, Question Answering, Visual Question Answering

We present a comprehensive study of chart visual question-answering(QA) task, to address the challenges faced in comprehending and extracting data from chart visualizations within documents. Despite efforts to tackle this problem using synthetic charts, solutions are limited by the shortage of annotated real-world data. To fill this gap, we introduce a benchmark and dataset for chart visual QA on real-world charts, offering a systematic analysis of the task and a novel taxonomy for template-based chart question creation. Our contribution includes the introduction of a new answer type, 'list', with both ranked and unranked variations. Our study is conducted on a real-world chart dataset from scientific literature, showcasing higher visual complexity compared to other works. Our focus is on template-based QA and how it can serve as a standard for evaluating the first-order logic capabilities of models. The results of our experiments, conducted on a real-world out-of-distribution dataset, provide a robust evaluation of large-scale pre-trained models and advance the field of chart visual QA and formal logic verification for neural networks in general.
RegionBLIP: A Unified Multi-modal Pre-training Framework for Holistic and Regional Comprehension
Authors: Qiang Zhou, Chaohui Yu, Shaofeng Zhang, Sitong Wu, Zhibing Wang, Fan Wang
Date: 2023-08-03 00:00:00
Tasks: Image Comprehension

In this work, we investigate extending the comprehension of Multi-modal Large Language Models (MLLMs) to regional objects. To this end, we propose to extract features corresponding to regional objects as soft prompts for LLM, which provides a straightforward and scalable approach and eliminates the need for LLM fine-tuning. To effectively extract regional features from regular image features and irregular point cloud features, we present a novel and unified position-assisted feature extraction module. Furthermore, training an MLLM from scratch is highly time-consuming. Thus, we propose incrementally extending existing pre-trained MLLMs to comprehend more modalities and the regional objects of those modalities. Specifically, we freeze the Q-Former from BLIP-2, an impressive MLLM, and optimize the modality-specific Lora parameters in Q-Former and LLM for each newly introduced modality. The freezing of the Q-Former eliminates the need for extensive pre-training on massive image-text data. The freezed Q-Former pre-trained from massive image-text data is also beneficial for the pre-training on image-region-text data. We name our framework RegionBLIP. We pre-train RegionBLIP on image-region-text, point-cloud-text, and point-cloud-region-text data. Experimental results verify that \Ours{} can preserve the image comprehension capability of BILP-2 and further gain a comprehension of the newly introduced point cloud modality and regional objects. The Data, Code, and Pre-trained models will be available at https://github.com/mightyzau/RegionBLIP.
A Multidimensional Analysis of Social Biases in Vision Transformers
Authors: Jannik Brinkmann, Paul Swoboda, Christian Bartelt
Date: 2023-08-03 00:00:00
Proceeding: ICCV 2023 1
Tasks: counterfactual, Fairness

The embedding spaces of image models have been shown to encode a range of social biases such as racism and sexism. Here, we investigate specific factors that contribute to the emergence of these biases in Vision Transformers (ViT). Therefore, we measure the impact of training data, model architecture, and training objectives on social biases in the learned representations of ViTs. Our findings indicate that counterfactual augmentation training using diffusion-based image editing can mitigate biases, but does not eliminate them. Moreover, we find that larger models are less biased than smaller models, and that models trained using discriminative objectives are less biased than those trained using generative objectives. In addition, we observe inconsistencies in the learned social biases. To our surprise, ViTs can exhibit opposite biases when trained on the same data set using different self-supervised objectives. Our findings give insights into the factors that contribute to the emergence of social biases and suggests that we could achieve substantial fairness improvements based on model design choices.
Dynamic Token-Pass Transformers for Semantic Segmentation
Authors: Yuang Liu, Qiang Zhou, Jing Wang, Fan Wang, Jun Wang, Wei zhang
Date: 2023-08-03 00:00:00
Tasks: Segmentation, Semantic Segmentation

Vision transformers (ViT) usually extract features via forwarding all the tokens in the self-attention layers from top to toe. In this paper, we introduce dynamic token-pass vision transformers (DoViT) for semantic segmentation, which can adaptively reduce the inference cost for images with different complexity. DoViT gradually stops partial easy tokens from self-attention calculation and keeps the hard tokens forwarding until meeting the stopping criteria. We employ lightweight auxiliary heads to make the token-pass decision and divide the tokens into keeping/stopping parts. With a token separate calculation, the self-attention layers are speeded up with sparse tokens and still work friendly with hardware. A token reconstruction module is built to collect and reset the grouped tokens to their original position in the sequence, which is necessary to predict correct semantic masks. We conduct extensive experiments on two common semantic segmentation tasks, and demonstrate that our method greatly reduces about 40% $\sim$ 60% FLOPs and the drop of mIoU is within 0.8% for various segmentation transformers. The throughput and inference speed of ViT-L/B are increased to more than 2$\times$ on Cityscapes.
TSMD: A Database for Static Color Mesh Quality Assessment Study
Authors: Qi Yang, Joel Jung, Haiqiang Wang, Xiaozhong Xu, Shan Liu
Date: 2023-08-03 00:00:00
Tasks: Diversity

Static meshes with texture map are widely used in modern industrial and manufacturing sectors, attracting considerable attention in the mesh compression community due to its huge amount of data. To facilitate the study of static mesh compression algorithm and objective quality metric, we create the Tencent - Static Mesh Dataset (TSMD) containing 42 reference meshes with rich visual characteristics. 210 distorted samples are generated by the lossy compression scheme developed for the Call for Proposals on polygonal static mesh coding, released on June 23 by the Alliance for Open Media Volumetric Visual Media group. Using processed video sequences, a large-scale, crowdsourcing-based, subjective experiment was conducted to collect subjective scores from 74 viewers. The dataset undergoes analysis to validate its sample diversity and Mean Opinion Scores (MOS) accuracy, establishing its heterogeneous nature and reliability. State-of-the-art objective metrics are evaluated on the new dataset. Pearson and Spearman correlations around 0.75 are reported, deviating from results typically observed on less heterogeneous datasets, demonstrating the need for further development of more robust metrics. The TSMD, including meshes, PVSs, bitstreams, and MOS, is made publicly available at the following location: https://multimedia.tencent.com/resources/tsmd.
Accessibility and Inclusiveness of New Information and Communication Technologies for Disabled Users and Content Creators in the Metaverse
Authors: Dr Petar Radanliev, Professor David De Roure, Dr Peter Novitzky, Dr Ivo Sluganovic
Date: 2023-08-01 00:00:00

Despite the proliferation of Blockchain Metaverse projects, the inclusion of physically disabled individuals in the Metaverse remains distant, with limited standards and regulations in place. However, the article proposes a concept of the Metaverse that leverages emerging technologies, such as Virtual and Augmented Reality, and the Internet of Things, to enable greater engagement of disabled creatives. This approach aims to enhance inclusiveness in the Metaverse landscape. Based on the findings, the paper concludes that the active involvement of physically disabled individuals in the design and development of Metaverse platforms is crucial for promoting inclusivity. The proposed framework for accessibility and inclusiveness in Virtual, Augmented, and Mixed realities of decentralised Metaverses provides a basis for the meaningful participation of disabled creatives. The article emphasises the importance of addressing the mechanisms for art production by individuals with disabilities in the emerging Metaverse landscape. Additionally, it highlights the need for further research and collaboration to establish standards and regulations that facilitate the inclusion of physically disabled individuals in Metaverse projects.
Label Inference Attacks against Node-level Vertical Federated GNNs
Authors: Marco Arazzi, Mauro Conti, Stefanos Koffas, Marina Krcek, Antonino Nocera, Stjepan Picek, Jing Xu
Date: 2023-08-04 00:00:00
Tasks: Federated Learning, Node Classification, Vertical Federated Learning

Federated learning enables collaborative training of machine learning models by keeping the raw data of the involved workers private. Three of its main objectives are to improve the models' privacy, security, and scalability. Vertical Federated Learning (VFL) offers an efficient cross-silo setting where a few parties collaboratively train a model without sharing the same features. In such a scenario, classification labels are commonly considered sensitive information held exclusively by one (active) party, while other (passive) parties use only their local information. Recent works have uncovered important flaws of VFL, leading to possible label inference attacks under the assumption that the attacker has some, even limited, background knowledge on the relation between labels and data. In this work, we are the first (to the best of our knowledge) to investigate label inference attacks on VFL using a zero-background knowledge strategy. To formulate our proposal, we focus on Graph Neural Networks (GNNs) as a target model for the underlying VFL. In particular, we refer to node classification tasks, which are widely studied, and GNNs have shown promising results. Our proposed attack, BlindSage, provides impressive results in the experiments, achieving nearly 100% accuracy in most cases. Even when the attacker has no information about the used architecture or the number of classes, the accuracy remains above 90% in most instances. Finally, we observe that well-known defenses cannot mitigate our attack without affecting the model's performance on the main classification task.
Universal Approximation of Linear Time-Invariant (LTI) Systems through RNNs: Power of Randomness in Reservoir Computing
Authors: Shashank Jere, Lizhong Zheng, Karim Said, Lingjia Liu
Date: 2023-08-04 00:00:00

Recurrent neural networks (RNNs) are known to be universal approximators of dynamic systems under fairly mild and general assumptions. However, RNNs usually suffer from the issues of vanishing and exploding gradients in standard RNN training. Reservoir computing (RC), a special RNN where the recurrent weights are randomized and left untrained, has been introduced to overcome these issues and has demonstrated superior empirical performance especially in scenarios where training samples are extremely limited. On the other hand, the theoretical grounding to support this observed performance has yet been fully developed. In this work, we show that RC can universally approximate a general linear time-invariant (LTI) system. Specifically, we present a clear signal processing interpretation of RC and utilize this understanding in the problem of approximating a generic LTI system. Under this setup, we analytically characterize the optimum probability density function for configuring (instead of training and/or randomly generating) the recurrent weights of the underlying RNN of the RC. Extensive numerical evaluations are provided to validate the optimality of the derived distribution for configuring the recurrent weights of the RC to approximate a general LTI system. Our work results in clear signal processing-based model interpretability of RC and provides theoretical explanation/justification for the power of randomness in randomly generating instead of training RC's recurrent weights. Furthermore, it provides a complete optimum analytical characterization for configuring the untrained recurrent weights, marking an important step towards explainable machine learning (XML) to incorporate domain knowledge for efficient learning.