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Oct 29

De-identification of Patient Notes with Recurrent Neural Networks

Objective: Patient notes in electronic health records (EHRs) may contain critical information for medical investigations. However, the vast majority of medical investigators can only access de-identified notes, in order to protect the confidentiality of patients. In the United States, the Health Insurance Portability and Accountability Act (HIPAA) defines 18 types of protected health information (PHI) that needs to be removed to de-identify patient notes. Manual de-identification is impractical given the size of EHR databases, the limited number of researchers with access to the non-de-identified notes, and the frequent mistakes of human annotators. A reliable automated de-identification system would consequently be of high value. Materials and Methods: We introduce the first de-identification system based on artificial neural networks (ANNs), which requires no handcrafted features or rules, unlike existing systems. We compare the performance of the system with state-of-the-art systems on two datasets: the i2b2 2014 de-identification challenge dataset, which is the largest publicly available de-identification dataset, and the MIMIC de-identification dataset, which we assembled and is twice as large as the i2b2 2014 dataset. Results: Our ANN model outperforms the state-of-the-art systems. It yields an F1-score of 97.85 on the i2b2 2014 dataset, with a recall 97.38 and a precision of 97.32, and an F1-score of 99.23 on the MIMIC de-identification dataset, with a recall 99.25 and a precision of 99.06. Conclusion: Our findings support the use of ANNs for de-identification of patient notes, as they show better performance than previously published systems while requiring no feature engineering.

  • 4 authors
·
Jun 10, 2016

LLMs-in-the-Loop Part 2: Expert Small AI Models for Anonymization and De-identification of PHI Across Multiple Languages

The rise of chronic diseases and pandemics like COVID-19 has emphasized the need for effective patient data processing while ensuring privacy through anonymization and de-identification of protected health information (PHI). Anonymized data facilitates research without compromising patient confidentiality. This paper introduces expert small AI models developed using the LLM-in-the-loop methodology to meet the demand for domain-specific de-identification NER models. These models overcome the privacy risks associated with large language models (LLMs) used via APIs by eliminating the need to transmit or store sensitive data. More importantly, they consistently outperform LLMs in de-identification tasks, offering superior performance and reliability. Our de-identification NER models, developed in eight languages (English, German, Italian, French, Romanian, Turkish, Spanish, and Arabic) achieved f1-micro score averages of 0.966, 0.975, 0.976, 0.970, 0.964, 0.974, 0.978, and 0.953 respectively. These results establish them as the most accurate healthcare anonymization solutions, surpassing existing small models and even general-purpose LLMs such as GPT-4o. While Part-1 of this series introduced the LLM-in-the-loop methodology for bio-medical document translation, this second paper showcases its success in developing cost-effective expert small NER models in de-identification tasks. Our findings lay the groundwork for future healthcare AI innovations, including biomedical entity and relation extraction, demonstrating the value of specialized models for domain-specific challenges.

  • 3 authors
·
Dec 14, 2024

DeID-GPT: Zero-shot Medical Text De-Identification by GPT-4

The digitization of healthcare has facilitated the sharing and re-using of medical data but has also raised concerns about confidentiality and privacy. HIPAA (Health Insurance Portability and Accountability Act) mandates removing re-identifying information before the dissemination of medical records. Thus, effective and efficient solutions for de-identifying medical data, especially those in free-text forms, are highly needed. While various computer-assisted de-identification methods, including both rule-based and learning-based, have been developed and used in prior practice, such solutions still lack generalizability or need to be fine-tuned according to different scenarios, significantly imposing restrictions in wider use. The advancement of large language models (LLM), such as ChatGPT and GPT-4, have shown great potential in processing text data in the medical domain with zero-shot in-context learning, especially in the task of privacy protection, as these models can identify confidential information by their powerful named entity recognition (NER) capability. In this work, we developed a novel GPT4-enabled de-identification framework (``DeID-GPT") to automatically identify and remove the identifying information. Compared to existing commonly used medical text data de-identification methods, our developed DeID-GPT showed the highest accuracy and remarkable reliability in masking private information from the unstructured medical text while preserving the original structure and meaning of the text. This study is one of the earliest to utilize ChatGPT and GPT-4 for medical text data processing and de-identification, which provides insights for further research and solution development on the use of LLMs such as ChatGPT/GPT-4 in healthcare. Codes and benchmarking data information are available at https://github.com/yhydhx/ChatGPT-API.

  • 18 authors
·
Mar 20, 2023

When the signal is in the noise: Exploiting Diffix's Sticky Noise

Anonymized data is highly valuable to both businesses and researchers. A large body of research has however shown the strong limits of the de-identification release-and-forget model, where data is anonymized and shared. This has led to the development of privacy-preserving query-based systems. Based on the idea of "sticky noise", Diffix has been recently proposed as a novel query-based mechanism satisfying alone the EU Article~29 Working Party's definition of anonymization. According to its authors, Diffix adds less noise to answers than solutions based on differential privacy while allowing for an unlimited number of queries. This paper presents a new class of noise-exploitation attacks, exploiting the noise added by the system to infer private information about individuals in the dataset. Our first differential attack uses samples extracted from Diffix in a likelihood ratio test to discriminate between two probability distributions. We show that using this attack against a synthetic best-case dataset allows us to infer private information with 89.4% accuracy using only 5 attributes. Our second cloning attack uses dummy conditions that conditionally strongly affect the output of the query depending on the value of the private attribute. Using this attack on four real-world datasets, we show that we can infer private attributes of at least 93% of the users in the dataset with accuracy between 93.3% and 97.1%, issuing a median of 304 queries per user. We show how to optimize this attack, targeting 55.4% of the users and achieving 91.7% accuracy, using a maximum of only 32 queries per user. Our attacks demonstrate that adding data-dependent noise, as done by Diffix, is not sufficient to prevent inference of private attributes. We furthermore argue that Diffix alone fails to satisfy Art. 29 WP's definition of anonymization. [...]

  • 5 authors
·
Apr 18, 2018

Fidelity and Privacy of Synthetic Medical Data

The digitization of medical records ushered in a new era of big data to clinical science, and with it the possibility that data could be shared, to multiply insights beyond what investigators could abstract from paper records. The need to share individual-level medical data to accelerate innovation in precision medicine continues to grow, and has never been more urgent, as scientists grapple with the COVID-19 pandemic. However, enthusiasm for the use of big data has been tempered by a fully appropriate concern for patient autonomy and privacy. That is, the ability to extract private or confidential information about an individual, in practice, renders it difficult to share data, since significant infrastructure and data governance must be established before data can be shared. Although HIPAA provided de-identification as an approved mechanism for data sharing, linkage attacks were identified as a major vulnerability. A variety of mechanisms have been established to avoid leaking private information, such as field suppression or abstraction, strictly limiting the amount of information that can be shared, or employing mathematical techniques such as differential privacy. Another approach, which we focus on here, is creating synthetic data that mimics the underlying data. For synthetic data to be a useful mechanism in support of medical innovation and a proxy for real-world evidence, one must demonstrate two properties of the synthetic dataset: (1) any analysis on the real data must be matched by analysis of the synthetic data (statistical fidelity) and (2) the synthetic data must preserve privacy, with minimal risk of re-identification (privacy guarantee). In this paper we propose a framework for quantifying the statistical fidelity and privacy preservation properties of synthetic datasets and demonstrate these metrics for synthetic data generated by Syntegra technology.

  • 2 authors
·
Jan 18, 2021

Vehicle Energy Dataset (VED), A Large-scale Dataset for Vehicle Energy Consumption Research

We present Vehicle Energy Dataset (VED), a novel large-scale dataset of fuel and energy data collected from 383 personal cars in Ann Arbor, Michigan, USA. This open dataset captures GPS trajectories of vehicles along with their time-series data of fuel, energy, speed, and auxiliary power usage. A diverse fleet consisting of 264 gasoline vehicles, 92 HEVs, and 27 PHEV/EVs drove in real-world from Nov, 2017 to Nov, 2018, where the data were collected through onboard OBD-II loggers. Driving scenarios range from highways to traffic-dense downtown area in various driving conditions and seasons. In total, VED accumulates approximately 374,000 miles. We discuss participant privacy protection and develop a method to de-identify personally identifiable information while preserving the quality of the data. After the de-identification, we conducted case studies on the dataset to investigate the impacts of factors known to affect fuel economy and identify energy-saving opportunities that hybrid-electric vehicles and eco-driving techniques can provide. The case studies are supplemented with a number of examples to demonstrate how VED can be utilized for vehicle energy and behavior studies. Potential research opportunities include data-driven vehicle energy consumption modeling, driver behavior modeling, machine and deep learning, calibration of traffic simulators, optimal route choice modeling, prediction of human driver behaviors, and decision making of self-driving cars. We believe that VED can be an instrumental asset to the development of future automotive technologies. The dataset can be accessed at https://github.com/gsoh/VED.

  • 3 authors
·
Apr 19, 2019

CheXpert Plus: Augmenting a Large Chest X-ray Dataset with Text Radiology Reports, Patient Demographics and Additional Image Formats

Since the release of the original CheXpert paper five years ago, CheXpert has become one of the most widely used and cited clinical AI datasets. The emergence of vision language models has sparked an increase in demands for sharing reports linked to CheXpert images, along with a growing interest among AI fairness researchers in obtaining demographic data. To address this, CheXpert Plus serves as a new collection of radiology data sources, made publicly available to enhance the scaling, performance, robustness, and fairness of models for all subsequent machine learning tasks in the field of radiology. CheXpert Plus is the largest text dataset publicly released in radiology, with a total of 36 million text tokens, including 13 million impression tokens. To the best of our knowledge, it represents the largest text de-identification effort in radiology, with almost 1 million PHI spans anonymized. It is only the second time that a large-scale English paired dataset has been released in radiology, thereby enabling, for the first time, cross-institution training at scale. All reports are paired with high-quality images in DICOM format, along with numerous image and patient metadata covering various clinical and socio-economic groups, as well as many pathology labels and RadGraph annotations. We hope this dataset will boost research for AI models that can further assist radiologists and help improve medical care. Data is available at the following URL: https://stanfordaimi.azurewebsites.net/datasets/5158c524-d3ab-4e02-96e9-6ee9efc110a1 Models are available at the following URL: https://github.com/Stanford-AIMI/chexpert-plus

  • 9 authors
·
May 29, 2024

The Text Anonymization Benchmark (TAB): A Dedicated Corpus and Evaluation Framework for Text Anonymization

We present a novel benchmark and associated evaluation metrics for assessing the performance of text anonymization methods. Text anonymization, defined as the task of editing a text document to prevent the disclosure of personal information, currently suffers from a shortage of privacy-oriented annotated text resources, making it difficult to properly evaluate the level of privacy protection offered by various anonymization methods. This paper presents TAB (Text Anonymization Benchmark), a new, open-source annotated corpus developed to address this shortage. The corpus comprises 1,268 English-language court cases from the European Court of Human Rights (ECHR) enriched with comprehensive annotations about the personal information appearing in each document, including their semantic category, identifier type, confidential attributes, and co-reference relations. Compared to previous work, the TAB corpus is designed to go beyond traditional de-identification (which is limited to the detection of predefined semantic categories), and explicitly marks which text spans ought to be masked in order to conceal the identity of the person to be protected. Along with presenting the corpus and its annotation layers, we also propose a set of evaluation metrics that are specifically tailored towards measuring the performance of text anonymization, both in terms of privacy protection and utility preservation. We illustrate the use of the benchmark and the proposed metrics by assessing the empirical performance of several baseline text anonymization models. The full corpus along with its privacy-oriented annotation guidelines, evaluation scripts and baseline models are available on: https://github.com/NorskRegnesentral/text-anonymisation-benchmark

  • 6 authors
·
Jan 25, 2022

Vec-Tok Speech: speech vectorization and tokenization for neural speech generation

Language models (LMs) have recently flourished in natural language processing and computer vision, generating high-fidelity texts or images in various tasks. In contrast, the current speech generative models are still struggling regarding speech quality and task generalization. This paper presents Vec-Tok Speech, an extensible framework that resembles multiple speech generation tasks, generating expressive and high-fidelity speech. Specifically, we propose a novel speech codec based on speech vectors and semantic tokens. Speech vectors contain acoustic details contributing to high-fidelity speech reconstruction, while semantic tokens focus on the linguistic content of speech, facilitating language modeling. Based on the proposed speech codec, Vec-Tok Speech leverages an LM to undertake the core of speech generation. Moreover, Byte-Pair Encoding (BPE) is introduced to reduce the token length and bit rate for lower exposure bias and longer context coverage, improving the performance of LMs. Vec-Tok Speech can be used for intra- and cross-lingual zero-shot voice conversion (VC), zero-shot speaking style transfer text-to-speech (TTS), speech-to-speech translation (S2ST), speech denoising, and speaker de-identification and anonymization. Experiments show that Vec-Tok Speech, built on 50k hours of speech, performs better than other SOTA models. Code will be available at https://github.com/BakerBunker/VecTok .

  • 8 authors
·
Oct 11, 2023

Causal de Finetti: On the Identification of Invariant Causal Structure in Exchangeable Data

Learning causal structure from observational data often assumes that we observe independent and identically distributed (i.\,i.\,d) data. The traditional approach aims to find a graphical representation that encodes the same set of conditional independence relationships as those present in the observed distribution. It is known that under i.\,i.\,d assumption, even with infinite data, there is a limit to how fine-grained a causal structure we can identify. To overcome this limitation, recent work has explored using data originating from different, related environments to learn richer causal structure. These approaches implicitly rely on the independent causal mechanisms (ICM) principle, which postulates that the mechanism giving rise to an effect given its causes and the mechanism which generates the causes do not inform or influence each other. Thus, components of the causal model can independently change from environment to environment. Despite its wide application in machine learning and causal inference, there is a lack of statistical formalization of the ICM principle and how it enables identification of richer causal structures from grouped data. Here we present new causal de Finetti theorems which offer a first statistical formalization of ICM principle and show how causal structure identification is possible from exchangeable data. Our work provides theoretical justification for a broad range of techniques leveraging multi-environment data to learn causal structure.

  • 4 authors
·
Mar 29, 2022

Keypoint Promptable Re-Identification

Occluded Person Re-Identification (ReID) is a metric learning task that involves matching occluded individuals based on their appearance. While many studies have tackled occlusions caused by objects, multi-person occlusions remain less explored. In this work, we identify and address a critical challenge overlooked by previous occluded ReID methods: the Multi-Person Ambiguity (MPA) arising when multiple individuals are visible in the same bounding box, making it impossible to determine the intended ReID target among the candidates. Inspired by recent work on prompting in vision, we introduce Keypoint Promptable ReID (KPR), a novel formulation of the ReID problem that explicitly complements the input bounding box with a set of semantic keypoints indicating the intended target. Since promptable re-identification is an unexplored paradigm, existing ReID datasets lack the pixel-level annotations necessary for prompting. To bridge this gap and foster further research on this topic, we introduce Occluded-PoseTrack ReID, a novel ReID dataset with keypoints labels, that features strong inter-person occlusions. Furthermore, we release custom keypoint labels for four popular ReID benchmarks. Experiments on person retrieval, but also on pose tracking, demonstrate that our method systematically surpasses previous state-of-the-art approaches on various occluded scenarios. Our code, dataset and annotations are available at https://github.com/VlSomers/keypoint_promptable_reidentification.

  • 3 authors
·
Jul 25, 2024

MassSpecGym: A benchmark for the discovery and identification of molecules

The discovery and identification of molecules in biological and environmental samples is crucial for advancing biomedical and chemical sciences. Tandem mass spectrometry (MS/MS) is the leading technique for high-throughput elucidation of molecular structures. However, decoding a molecular structure from its mass spectrum is exceptionally challenging, even when performed by human experts. As a result, the vast majority of acquired MS/MS spectra remain uninterpreted, thereby limiting our understanding of the underlying (bio)chemical processes. Despite decades of progress in machine learning applications for predicting molecular structures from MS/MS spectra, the development of new methods is severely hindered by the lack of standard datasets and evaluation protocols. To address this problem, we propose MassSpecGym -- the first comprehensive benchmark for the discovery and identification of molecules from MS/MS data. Our benchmark comprises the largest publicly available collection of high-quality labeled MS/MS spectra and defines three MS/MS annotation challenges: de novo molecular structure generation, molecule retrieval, and spectrum simulation. It includes new evaluation metrics and a generalization-demanding data split, therefore standardizing the MS/MS annotation tasks and rendering the problem accessible to the broad machine learning community. MassSpecGym is publicly available at https://github.com/pluskal-lab/MassSpecGym.

  • 30 authors
·
Oct 30, 2024

SoccerNet Game State Reconstruction: End-to-End Athlete Tracking and Identification on a Minimap

Tracking and identifying athletes on the pitch holds a central role in collecting essential insights from the game, such as estimating the total distance covered by players or understanding team tactics. This tracking and identification process is crucial for reconstructing the game state, defined by the athletes' positions and identities on a 2D top-view of the pitch, (i.e. a minimap). However, reconstructing the game state from videos captured by a single camera is challenging. It requires understanding the position of the athletes and the viewpoint of the camera to localize and identify players within the field. In this work, we formalize the task of Game State Reconstruction and introduce SoccerNet-GSR, a novel Game State Reconstruction dataset focusing on football videos. SoccerNet-GSR is composed of 200 video sequences of 30 seconds, annotated with 9.37 million line points for pitch localization and camera calibration, as well as over 2.36 million athlete positions on the pitch with their respective role, team, and jersey number. Furthermore, we introduce GS-HOTA, a novel metric to evaluate game state reconstruction methods. Finally, we propose and release an end-to-end baseline for game state reconstruction, bootstrapping the research on this task. Our experiments show that GSR is a challenging novel task, which opens the field for future research. Our dataset and codebase are publicly available at https://github.com/SoccerNet/sn-gamestate.

  • 14 authors
·
Apr 17, 2024

Euclid Quick Data Release (Q1). Active galactic nuclei identification using diffusion-based inpainting of Euclid VIS images

Light emission from galaxies exhibit diverse brightness profiles, influenced by factors such as galaxy type, structural features and interactions with other galaxies. Elliptical galaxies feature more uniform light distributions, while spiral and irregular galaxies have complex, varied light profiles due to their structural heterogeneity and star-forming activity. In addition, galaxies with an active galactic nucleus (AGN) feature intense, concentrated emission from gas accretion around supermassive black holes, superimposed on regular galactic light, while quasi-stellar objects (QSO) are the extreme case of the AGN emission dominating the galaxy. The challenge of identifying AGN and QSO has been discussed many times in the literature, often requiring multi-wavelength observations. This paper introduces a novel approach to identify AGN and QSO from a single image. Diffusion models have been recently developed in the machine-learning literature to generate realistic-looking images of everyday objects. Utilising the spatial resolving power of the Euclid VIS images, we created a diffusion model trained on one million sources, without using any source pre-selection or labels. The model learns to reconstruct light distributions of normal galaxies, since the population is dominated by them. We condition the prediction of the central light distribution by masking the central few pixels of each source and reconstruct the light according to the diffusion model. We further use this prediction to identify sources that deviate from this profile by examining the reconstruction error of the few central pixels regenerated in each source's core. Our approach, solely using VIS imaging, features high completeness compared to traditional methods of AGN and QSO selection, including optical, near-infrared, mid-infrared, and X-rays.

  • 274 authors
·
Mar 19

Étude cognitive des processus de construction d'une requête dans un système de gestion de connaissances médicales

This article presents the Cogni-CISMeF project, which aims at improving medical information search in the CISMeF system (Catalog and Index of French-language health resources) by including a conversational agent to interact with the user in natural language. To study the cognitive processes involved during the information search, a bottom-up methodology was adopted. Experimentation has been set up to obtain human dialogs between a user (playing the role of patient) dealing with medical information search and a CISMeF expert refining the request. The analysis of these dialogs underlined the use of discursive evidence: vocabulary, reformulation, implicit or explicit expression of user intentions, conversational sequences, etc. A model of artificial agent is proposed. It leads the user in its information search by proposing to him examples, assistance and choices. This model was implemented and integrated in the CISMeF system. ---- Cet article d\'ecrit le projet Cogni-CISMeF qui propose un module de dialogue Homme-Machine \`a int\'egrer dans le syst\`eme d'indexation de connaissances m\'edicales CISMeF (Catalogue et Index des Sites M\'edicaux Francophones). Nous avons adopt\'e une d\'emarche de mod\'elisation cognitive en proc\'edant \`a un recueil de corpus de dialogues entre un utilisateur (jouant le r\^ole d'un patient) d\'esirant une information m\'edicale et un expert CISMeF af inant cette demande pour construire la requ\^ete. Nous avons analys\'e la structure des dialogues ainsi obtenus et avons \'etudi\'e un certain nombre d'indices discursifs : vocabulaire employ\'e, marques de reformulation, commentaires m\'eta et \'epilinguistiques, expression implicite ou explicite des intentions de l'utilisateur, encha\^inement conversationnel, etc. De cette analyse, nous avons construit un mod\`ele d'agent artificiel dot\'e de capacit\'es cognitives capables d'aider l'utilisateur dans sa t\^ache de recherche d'information. Ce mod\`ele a \'et\'e impl\'ement\'e et int\'egr\'e dans le syst\`eme CISMeF.

  • 5 authors
·
Feb 10, 2014

LoRA-BERT: a Natural Language Processing Model for Robust and Accurate Prediction of long non-coding RNAs

Long non-coding RNAs (lncRNAs) serve as crucial regulators in numerous biological processes. Although they share sequence similarities with messenger RNAs (mRNAs), lncRNAs perform entirely different roles, providing new avenues for biological research. The emergence of next-generation sequencing technologies has greatly advanced the detection and identification of lncRNA transcripts and deep learning-based approaches have been introduced to classify long non-coding RNAs (lncRNAs). These advanced methods have significantly enhanced the efficiency of identifying lncRNAs. However, many of these methods are devoid of robustness and accuracy due to the extended length of the sequences involved. To tackle this issue, we have introduced a novel pre-trained bidirectional encoder representation called LoRA-BERT. LoRA-BERT is designed to capture the importance of nucleotide-level information during sequence classification, leading to more robust and satisfactory outcomes. In a comprehensive comparison with commonly used sequence prediction tools, we have demonstrated that LoRA-BERT outperforms them in terms of accuracy and efficiency. Our results indicate that, when utilizing the transformer model, LoRA-BERT achieves state-of-the-art performance in predicting both lncRNAs and mRNAs for human and mouse species. Through the utilization of LoRA-BERT, we acquire valuable insights into the traits of lncRNAs and mRNAs, offering the potential to aid in the comprehension and detection of diseases linked to lncRNAs in humans.

  • 5 authors
·
Nov 11, 2024

Möbius Transform for Mitigating Perspective Distortions in Representation Learning

Perspective distortion (PD) causes unprecedented changes in shape, size, orientation, angles, and other spatial relationships of visual concepts in images. Precisely estimating camera intrinsic and extrinsic parameters is a challenging task that prevents synthesizing perspective distortion. Non-availability of dedicated training data poses a critical barrier to developing robust computer vision methods. Additionally, distortion correction methods make other computer vision tasks a multi-step approach and lack performance. In this work, we propose mitigating perspective distortion (MPD) by employing a fine-grained parameter control on a specific family of M\"obius transform to model real-world distortion without estimating camera intrinsic and extrinsic parameters and without the need for actual distorted data. Also, we present a dedicated perspectively distorted benchmark dataset, ImageNet-PD, to benchmark the robustness of deep learning models against this new dataset. The proposed method outperforms existing benchmarks, ImageNet-E and ImageNet-X. Additionally, it significantly improves performance on ImageNet-PD while consistently performing on standard data distribution. Notably, our method shows improved performance on three PD-affected real-world applications crowd counting, fisheye image recognition, and person re-identification and one PD-affected challenging CV task: object detection. The source code, dataset, and models are available on the project webpage at https://prakashchhipa.github.io/projects/mpd.

  • 6 authors
·
Mar 7, 2024

ISLES 2024: The first longitudinal multimodal multi-center real-world dataset in (sub-)acute stroke

Stroke remains a leading cause of global morbidity and mortality, placing a heavy socioeconomic burden. Over the past decade, advances in endovascular reperfusion therapy and the use of CT and MRI imaging for treatment guidance have significantly improved patient outcomes and are now standard in clinical practice. To develop machine learning algorithms that can extract meaningful and reproducible models of brain function for both clinical and research purposes from stroke images - particularly for lesion identification, brain health quantification, and prognosis - large, diverse, and well-annotated public datasets are essential. While only a few datasets with (sub-)acute stroke data were previously available, several large, high-quality datasets have recently been made publicly accessible. However, these existing datasets include only MRI data. In contrast, our dataset is the first to offer comprehensive longitudinal stroke data, including acute CT imaging with angiography and perfusion, follow-up MRI at 2-9 days, as well as acute and longitudinal clinical data up to a three-month outcome. The dataset includes a training dataset of n = 150 and a test dataset of n = 100 scans. Training data is publicly available, while test data will be used exclusively for model validation. We are making this dataset available as part of the 2024 edition of the Ischemic Stroke Lesion Segmentation (ISLES) challenge (https://www.isles-challenge.org/), which continuously aims to establish benchmark methods for acute and sub-acute ischemic stroke lesion segmentation, aiding in creating open stroke imaging datasets and evaluating cutting-edge image processing algorithms.

  • 18 authors
·
Aug 20, 2024

Event Extraction in Basque: Typologically motivated Cross-Lingual Transfer-Learning Analysis

Cross-lingual transfer-learning is widely used in Event Extraction for low-resource languages and involves a Multilingual Language Model that is trained in a source language and applied to the target language. This paper studies whether the typological similarity between source and target languages impacts the performance of cross-lingual transfer, an under-explored topic. We first focus on Basque as the target language, which is an ideal target language because it is typologically different from surrounding languages. Our experiments on three Event Extraction tasks show that the shared linguistic characteristic between source and target languages does have an impact on transfer quality. Further analysis of 72 language pairs reveals that for tasks that involve token classification such as entity and event trigger identification, common writing script and morphological features produce higher quality cross-lingual transfer. In contrast, for tasks involving structural prediction like argument extraction, common word order is the most relevant feature. In addition, we show that when increasing the training size, not all the languages scale in the same way in the cross-lingual setting. To perform the experiments we introduce EusIE, an event extraction dataset for Basque, which follows the Multilingual Event Extraction dataset (MEE). The dataset and code are publicly available.

  • 5 authors
·
Apr 9, 2024

WILD: a new in-the-Wild Image Linkage Dataset for synthetic image attribution

Synthetic image source attribution is an open challenge, with an increasing number of image generators being released yearly. The complexity and the sheer number of available generative techniques, as well as the scarcity of high-quality open source datasets of diverse nature for this task, make training and benchmarking synthetic image source attribution models very challenging. WILD is a new in-the-Wild Image Linkage Dataset designed to provide a powerful training and benchmarking tool for synthetic image attribution models. The dataset is built out of a closed set of 10 popular commercial generators, which constitutes the training base of attribution models, and an open set of 10 additional generators, simulating a real-world in-the-wild scenario. Each generator is represented by 1,000 images, for a total of 10,000 images in the closed set and 10,000 images in the open set. Half of the images are post-processed with a wide range of operators. WILD allows benchmarking attribution models in a wide range of tasks, including closed and open set identification and verification, and robust attribution with respect to post-processing and adversarial attacks. Models trained on WILD are expected to benefit from the challenging scenario represented by the dataset itself. Moreover, an assessment of seven baseline methodologies on closed and open set attribution is presented, including robustness tests with respect to post-processing.

  • 17 authors
·
Apr 28

CAMELTrack: Context-Aware Multi-cue ExpLoitation for Online Multi-Object Tracking

Online multi-object tracking has been recently dominated by tracking-by-detection (TbD) methods, where recent advances rely on increasingly sophisticated heuristics for tracklet representation, feature fusion, and multi-stage matching. The key strength of TbD lies in its modular design, enabling the integration of specialized off-the-shelf models like motion predictors and re-identification. However, the extensive usage of human-crafted rules for temporal associations makes these methods inherently limited in their ability to capture the complex interplay between various tracking cues. In this work, we introduce CAMEL, a novel association module for Context-Aware Multi-Cue ExpLoitation, that learns resilient association strategies directly from data, breaking free from hand-crafted heuristics while maintaining TbD's valuable modularity. At its core, CAMEL employs two transformer-based modules and relies on a novel association-centric training scheme to effectively model the complex interactions between tracked targets and their various association cues. Unlike end-to-end detection-by-tracking approaches, our method remains lightweight and fast to train while being able to leverage external off-the-shelf models. Our proposed online tracking pipeline, CAMELTrack, achieves state-of-the-art performance on multiple tracking benchmarks. Our code is available at https://github.com/TrackingLaboratory/CAMELTrack.

  • 5 authors
·
May 2

SoccerNet 2023 Challenges Results

The SoccerNet 2023 challenges were the third annual video understanding challenges organized by the SoccerNet team. For this third edition, the challenges were composed of seven vision-based tasks split into three main themes. The first theme, broadcast video understanding, is composed of three high-level tasks related to describing events occurring in the video broadcasts: (1) action spotting, focusing on retrieving all timestamps related to global actions in soccer, (2) ball action spotting, focusing on retrieving all timestamps related to the soccer ball change of state, and (3) dense video captioning, focusing on describing the broadcast with natural language and anchored timestamps. The second theme, field understanding, relates to the single task of (4) camera calibration, focusing on retrieving the intrinsic and extrinsic camera parameters from images. The third and last theme, player understanding, is composed of three low-level tasks related to extracting information about the players: (5) re-identification, focusing on retrieving the same players across multiple views, (6) multiple object tracking, focusing on tracking players and the ball through unedited video streams, and (7) jersey number recognition, focusing on recognizing the jersey number of players from tracklets. Compared to the previous editions of the SoccerNet challenges, tasks (2-3-7) are novel, including new annotations and data, task (4) was enhanced with more data and annotations, and task (6) now focuses on end-to-end approaches. More information on the tasks, challenges, and leaderboards are available on https://www.soccer-net.org. Baselines and development kits can be found on https://github.com/SoccerNet.

  • 102 authors
·
Sep 12, 2023

Sloan Digital Sky Survey IV: Mapping the Milky Way, Nearby Galaxies, and the Distant Universe

We describe the Sloan Digital Sky Survey IV (SDSS-IV), a project encompassing three major spectroscopic programs. The Apache Point Observatory Galactic Evolution Experiment 2 (APOGEE-2) is observing hundreds of thousands of Milky Way stars at high resolution and high signal-to-noise ratio in the near-infrared. The Mapping Nearby Galaxies at Apache Point Observatory (MaNGA) survey is obtaining spatially-resolved spectroscopy for thousands of nearby galaxies (median redshift of z = 0.03). The extended Baryon Oscillation Spectroscopic Survey (eBOSS) is mapping the galaxy, quasar, and neutral gas distributions between redshifts z = 0.6 and 3.5 to constrain cosmology using baryon acoustic oscillations, redshift space distortions, and the shape of the power spectrum. Within eBOSS, we are conducting two major subprograms: the SPectroscopic IDentification of eROSITA Sources (SPIDERS), investigating X-ray AGN and galaxies in X-ray clusters, and the Time Domain Spectroscopic Survey (TDSS), obtaining spectra of variable sources. All programs use the 2.5-meter Sloan Foundation Telescope at Apache Point Observatory; observations there began in Summer 2014. APOGEE-2 also operates a second near-infrared spectrograph at the 2.5-meter du Pont Telescope at Las Campanas Observatory, with observations beginning in early 2017. Observations at both facilities are scheduled to continue through 2020. In keeping with previous SDSS policy, SDSS-IV provides regularly scheduled public data releases; the first one, Data Release 13, was made available in July 2016.

  • 353 authors
·
Feb 28, 2017

KVQ: Kwai Video Quality Assessment for Short-form Videos

Short-form UGC video platforms, like Kwai and TikTok, have been an emerging and irreplaceable mainstream media form, thriving on user-friendly engagement, and kaleidoscope creation, etc. However, the advancing content-generation modes, e.g., special effects, and sophisticated processing workflows, e.g., de-artifacts, have introduced significant challenges to recent UGC video quality assessment: (i) the ambiguous contents hinder the identification of quality-determined regions. (ii) the diverse and complicated hybrid distortions are hard to distinguish. To tackle the above challenges and assist in the development of short-form videos, we establish the first large-scale Kaleidoscope short Video database for Quality assessment, termed KVQ, which comprises 600 user-uploaded short videos and 3600 processed videos through the diverse practical processing workflows, including pre-processing, transcoding, and enhancement. Among them, the absolute quality score of each video and partial ranking score among indistinguishable samples are provided by a team of professional researchers specializing in image processing. Based on this database, we propose the first short-form video quality evaluator, i.e., KSVQE, which enables the quality evaluator to identify the quality-determined semantics with the content understanding of large vision language models (i.e., CLIP) and distinguish the distortions with the distortion understanding module. Experimental results have shown the effectiveness of KSVQE on our KVQ database and popular VQA databases.

  • 9 authors
·
Feb 11, 2024

Person Re-identification by Contour Sketch under Moderate Clothing Change

Person re-identification (re-id), the process of matching pedestrian images across different camera views, is an important task in visual surveillance. Substantial development of re-id has recently been observed, and the majority of existing models are largely dependent on color appearance and assume that pedestrians do not change their clothes across camera views. This limitation, however, can be an issue for re-id when tracking a person at different places and at different time if that person (e.g., a criminal suspect) changes his/her clothes, causing most existing methods to fail, since they are heavily relying on color appearance and thus they are inclined to match a person to another person wearing similar clothes. In this work, we call the person re-id under clothing change the "cross-clothes person re-id". In particular, we consider the case when a person only changes his clothes moderately as a first attempt at solving this problem based on visible light images; that is we assume that a person wears clothes of a similar thickness, and thus the shape of a person would not change significantly when the weather does not change substantially within a short period of time. We perform cross-clothes person re-id based on a contour sketch of person image to take advantage of the shape of the human body instead of color information for extracting features that are robust to moderate clothing change. Due to the lack of a large-scale dataset for cross-clothes person re-id, we contribute a new dataset that consists of 33698 images from 221 identities. Our experiments illustrate the challenges of cross-clothes person re-id and demonstrate the effectiveness of our proposed method.

  • 3 authors
·
Feb 6, 2020

Large-scale Training Data Search for Object Re-identification

We consider a scenario where we have access to the target domain, but cannot afford on-the-fly training data annotation, and instead would like to construct an alternative training set from a large-scale data pool such that a competitive model can be obtained. We propose a search and pruning (SnP) solution to this training data search problem, tailored to object re-identification (re-ID), an application aiming to match the same object captured by different cameras. Specifically, the search stage identifies and merges clusters of source identities which exhibit similar distributions with the target domain. The second stage, subject to a budget, then selects identities and their images from the Stage I output, to control the size of the resulting training set for efficient training. The two steps provide us with training sets 80\% smaller than the source pool while achieving a similar or even higher re-ID accuracy. These training sets are also shown to be superior to a few existing search methods such as random sampling and greedy sampling under the same budget on training data size. If we release the budget, training sets resulting from the first stage alone allow even higher re-ID accuracy. We provide interesting discussions on the specificity of our method to the re-ID problem and particularly its role in bridging the re-ID domain gap. The code is available at https://github.com/yorkeyao/SnP.

  • 4 authors
·
Mar 28, 2023

Large-Scale Spatio-Temporal Person Re-identification: Algorithms and Benchmark

Person re-identification (re-ID) in the scenario with large spatial and temporal spans has not been fully explored. This is partially because that, existing benchmark datasets were mainly collected with limited spatial and temporal ranges, e.g., using videos recorded in a few days by cameras in a specific region of the campus. Such limited spatial and temporal ranges make it hard to simulate the difficulties of person re-ID in real scenarios. In this work, we contribute a novel Large-scale Spatio-Temporal LaST person re-ID dataset, including 10,862 identities with more than 228k images. Compared with existing datasets, LaST presents more challenging and high-diversity re-ID settings, and significantly larger spatial and temporal ranges. For instance, each person can appear in different cities or countries, and in various time slots from daytime to night, and in different seasons from spring to winter. To our best knowledge, LaST is a novel person re-ID dataset with the largest spatio-temporal ranges. Based on LaST, we verified its challenge by conducting a comprehensive performance evaluation of 14 re-ID algorithms. We further propose an easy-to-implement baseline that works well on such challenging re-ID setting. We also verified that models pre-trained on LaST can generalize well on existing datasets with short-term and cloth-changing scenarios. We expect LaST to inspire future works toward more realistic and challenging re-ID tasks. More information about the dataset is available at https://github.com/shuxjweb/last.git.

  • 7 authors
·
May 31, 2021

DocXPand-25k: a large and diverse benchmark dataset for identity documents analysis

Identity document (ID) image analysis has become essential for many online services, like bank account opening or insurance subscription. In recent years, much research has been conducted on subjects like document localization, text recognition and fraud detection, to achieve a level of accuracy reliable enough to automatize identity verification. However, there are only a few available datasets to benchmark ID analysis methods, mainly because of privacy restrictions, security requirements and legal reasons. In this paper, we present the DocXPand-25k dataset, which consists of 24,994 richly labeled IDs images, generated using custom-made vectorial templates representing nine fictitious ID designs, including four identity cards, two residence permits and three passports designs. These synthetic IDs feature artificially generated personal information (names, dates, identifiers, faces, barcodes, ...), and present a rich diversity in the visual layouts and textual contents. We collected about 5.8k diverse backgrounds coming from real-world photos, scans and screenshots of IDs to guarantee the variety of the backgrounds. The software we wrote to generate these images has been published (https://github.com/QuickSign/docxpand/) under the terms of the MIT license, and our dataset has been published (https://github.com/QuickSign/docxpand/releases/tag/v1.0.0) under the terms of the CC-BY-NC-SA 4.0 License.

  • 5 authors
·
Jul 30, 2024

The P-DESTRE: A Fully Annotated Dataset for Pedestrian Detection, Tracking, Re-Identification and Search from Aerial Devices

Over the last decades, the world has been witnessing growing threats to the security in urban spaces, which has augmented the relevance given to visual surveillance solutions able to detect, track and identify persons of interest in crowds. In particular, unmanned aerial vehicles (UAVs) are a potential tool for this kind of analysis, as they provide a cheap way for data collection, cover large and difficult-to-reach areas, while reducing human staff demands. In this context, all the available datasets are exclusively suitable for the pedestrian re-identification problem, in which the multi-camera views per ID are taken on a single day, and allows the use of clothing appearance features for identification purposes. Accordingly, the main contributions of this paper are two-fold: 1) we announce the UAV-based P-DESTRE dataset, which is the first of its kind to provide consistent ID annotations across multiple days, making it suitable for the extremely challenging problem of person search, i.e., where no clothing information can be reliably used. Apart this feature, the P-DESTRE annotations enable the research on UAV-based pedestrian detection, tracking, re-identification and soft biometric solutions; and 2) we compare the results attained by state-of-the-art pedestrian detection, tracking, reidentification and search techniques in well-known surveillance datasets, to the effectiveness obtained by the same techniques in the P-DESTRE data. Such comparison enables to identify the most problematic data degradation factors of UAV-based data for each task, and can be used as baselines for subsequent advances in this kind of technology. The dataset and the full details of the empirical evaluation carried out are freely available at http://p-destre.di.ubi.pt/.

  • 5 authors
·
Apr 6, 2020

Clothes-Changing Person Re-Identification with Feasibility-Aware Intermediary Matching

Current clothes-changing person re-identification (re-id) approaches usually perform retrieval based on clothes-irrelevant features, while neglecting the potential of clothes-relevant features. However, we observe that relying solely on clothes-irrelevant features for clothes-changing re-id is limited, since they often lack adequate identity information and suffer from large intra-class variations. On the contrary, clothes-relevant features can be used to discover same-clothes intermediaries that possess informative identity clues. Based on this observation, we propose a Feasibility-Aware Intermediary Matching (FAIM) framework to additionally utilize clothes-relevant features for retrieval. Firstly, an Intermediary Matching (IM) module is designed to perform an intermediary-assisted matching process. This process involves using clothes-relevant features to find informative intermediates, and then using clothes-irrelevant features of these intermediates to complete the matching. Secondly, in order to reduce the negative effect of low-quality intermediaries, an Intermediary-Based Feasibility Weighting (IBFW) module is designed to evaluate the feasibility of intermediary matching process by assessing the quality of intermediaries. Extensive experiments demonstrate that our method outperforms state-of-the-art methods on several widely-used clothes-changing re-id benchmarks.

  • 7 authors
·
Apr 15, 2024

AnyMaker: Zero-shot General Object Customization via Decoupled Dual-Level ID Injection

Text-to-image based object customization, aiming to generate images with the same identity (ID) as objects of interest in accordance with text prompts and reference images, has made significant progress. However, recent customizing research is dominated by specialized tasks, such as human customization or virtual try-on, leaving a gap in general object customization. To this end, we introduce AnyMaker, an innovative zero-shot object customization framework capable of generating general objects with high ID fidelity and flexible text editability. The efficacy of AnyMaker stems from its novel general ID extraction, dual-level ID injection, and ID-aware decoupling. Specifically, the general ID extraction module extracts sufficient ID information with an ensemble of self-supervised models to tackle the diverse customization tasks for general objects. Then, to provide the diffusion UNet with the extracted ID as much while not damaging the text editability in the generation process, we design a global-local dual-level ID injection module, in which the global-level semantic ID is injected into text descriptions while the local-level ID details are injected directly into the model through newly added cross-attention modules. In addition, we propose an ID-aware decoupling module to disentangle ID-related information from non-ID elements in the extracted representations for high-fidelity generation of both identity and text descriptions. To validate our approach and boost the research of general object customization, we create the first large-scale general ID dataset, Multi-Category ID-Consistent (MC-IDC) dataset, with 315k text-image samples and 10k categories. Experiments show that AnyMaker presents remarkable performance in general object customization and outperforms specialized methods in corresponding tasks. Code and dataset will be released soon.

  • 10 authors
·
Jun 17, 2024