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2023 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2023

作者： Hu, Zhipeng Li, Gaoshi Wu, Jingli Luo, Xinlong Liu, Jiafei Peng, Wei Zhu, Xiaoshu Guangxi Normal University Key Lab of Education Blockchain and Intelligent Technology Ministry of Education Guilin541004 China Guangxi Normal University Guangxi Key Lab of Multi-Source Information Mining & Security Guilin541004 China Guangxi Normal University College of Computer Science and Engineering Guilin541004 China Kunming University of Science and Technology Faculty of Information Engineering and Automation Kunming650500 China Guilin University of Electronic Science and Technology School of Computer and Information Security & School of Software Engineering Guilin China

ISBN: (纸本)9798350337488

Essential proteins play an essential role in cell survival and replication. Currently, more and more computational methods are developed to identify essential proteins, which overcome the time-consuming, costly and inefficient shortcomings with biological experimental methods. In order to improve the recognition rate, some new methods by fusing multiple features are developed, but they seldom consider the connection among features. After analyzing a large number of methods based on multi-feature fusion, a weak consensus model to fuse features is proposed in this paper. Then, this paper uses the weak consensus model to fuse protein-protein interaction network, gene expression data, and orthologous data, thus proposing a new method, WOL. Then experiments are performed on one *** dataset. The results show that compared with WDC, PeC, ION, JDC, NCCO and E_POC, WOL has a higher recognition rate. © 2023 IEEE.

关键词： Essential proteins orthologous data protein-protein interaction weak consensus model

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Muffin: Testing Deep Learning Libraries via Neural Architecture Fuzzing

arXiv

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arXiv 2022年

作者： Gu, Jiazhen Luo, Xuchuan Zhou, Yangfan Wang, Xin School of Computer Science Fudan University Shanghai Key Lab. of Intelligent Information Processing Shanghai China

Deep learning (DL) techniques are proven effective in many challenging tasks, and become widely-adopted in practice. However, previous work has shown that DL libraries, the basis of building and executing DL models, contain bugs and can cause severe consequences. Unfortunately, existing testing approaches still cannot comprehensively exercise DL libraries. They utilize existing trained models and only detect bugs in model inference phase. In this work we propose Muffin to address these issues. To this end, Muffin applies a specifically-designed model fuzzing approach, which allows it to generate diverse DL models to explore the target library, instead of relying only on existing trained models. Muffin makes differential testing feasible in the model training phase by tailoring a set of metrics to measure the inconsistencies between different DL libraries. In this way, Muffin can best exercise the library code to detect more bugs. To evaluate the effectiveness of Muffin, we conduct experiments on three widely-used DL libraries. The results demonstrate that Muffin can detect 39 new bugs in the latest release versions of popular DL libraries, including Tensorflow, CNTK, and Theano. Copyright © 2022, The Authors. All rights reserved.

关键词： Libraries

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CCMusic: An Open and Diverse Database for Chinese Music information Retrieval Research

arXiv

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arXiv 2025年

作者： Zhou, Monan Xu, Shenyang Liu, Zhaorui Wang, Zhaowen Yu, Feng Li, Wei Han, Baoqiang Department of Musicology China Conservatory of Music Beijing China Department of Music AI and Information Technology Central Conservatory of Music Beijing China School of Computer Science and Technology Fudan University Shanghai China Shanghai Key Laboratory of Intelligent Information Processing Fudan University Shanghai China

Data are crucial in various computer-related fields, including music information retrieval (MIR), an interdisciplinary area bridging computer science and music. This paper introduces CCMusic, an open and diverse database comprising multiple datasets specifically designed for tasks related to Chinese music, highlighting our focus on this culturally rich domain. The database integrates both published and unpublished datasets, with steps taken such as data cleaning, label refinement, and data structure unification to ensure data consistency and create ready-to-use versions. We conduct benchmark evaluations for all datasets using a unified evaluation framework developed specifically for this purpose. This publicly available framework supports both classification and detection tasks, ensuring standardized and reproducible results across all datasets. The database is hosted on HuggingFace and ModelScope, two open and multifunctional data and model hosting platforms, ensuring ease of accessibility and usability. © 2025, CC BY.

关键词： information retrieval

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Optical Character Recognition Using Optimized Convolutional Networks*

Optical Character Recognition Using Optimized Convolutional ...

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International Conference on Fog and Mobile Edge Computing (FMEC)

作者： Anum Nawaz Muhammad Irfan Tomi Westerlund Shanghai Key Laboratory of Intelligent Information Processing School of Computer ScienceFudan University Shanghai China Turku Intelligent and Embedded Robotic Systems Lab Faculty of Technology University of Turku Turku Finland

Optical Character Recognition (OCR) has been a prominent area of research in pattern recognition for several decades, owing to its broad application potential in smart living. To improve offline OCR on mobile devices with limited computing resource, we have optimized Convolutional Neural Networks (CNNs) to efficiently detect text using minimal resources. To achieve this, we employed two distinct pretrained CNN models, namely AlexNet and Inception-V3, for feature extraction. Leveraging these models' unique characteristics and capabilities to extract diverse features, we aimed to enhance the classifier's accuracy. This, in turn, facilitates the development of an efficient edge-device application for faster and higher-quality OCR. Experimental results demonstrate that our proposed optimized algorithm outperforms existing CNN-based methods in the field of OCR, particularly in the categorization and detection of handwritten digits and character recognition. The conducted research yielded impressive accuracy results, with up to 97% accuracy on the MNIST dataset and 95.5% accuracy on the NIST dataset.

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Dissecting the Applicability of HTTP/3 in Content Delivery Networks

Dissecting the Applicability of HTTP/3 in Content Delivery N...

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International Conference on Distributed Computing Systems

作者： Mengying Zhou Yang Chen Shihan Lin Xin Wang Bingyang Liu Aaron Yi Ding Shanghai Key Lab of Intelligent Information Processing School of Computer Science Fudan University China Huawei Technologies Co. Ltd. China Department of Engineering Systems and Services Delft University of Technology The Netherlands

ISBN: (数字)9798350386059

ISBN: (纸本)9798350386066

HTTP/3 (H3) has experienced significant growth and extensive adoption in various scenarios, especially in Content Delivery Networks (CDNs). Over the past few years, there have been numerous insightful studies on its deployment in industrial CDNs. However, these studies often separately analyze H3 and CDN, overlooking their synergistic integration. In this work, we explore the applicability of H3 in CDN from a holistic perspective. We analyze 325 websites hosted by seven CDN providers and identify three key characteristics where CDN align perfectly with H3's strengths. Firstly, CDN resources dominate the composition of webpages, where enabling H3 can amplify H3's benefits in connection acceleration. Secondly, CDN providers also exhibit a dominant characteristic, with the majority of CDN resources hosted by a few large providers. This phenomenon makes different webpages share the same provider. When browsing consecutively, H3 helps to skip the connection phase by resuming the connections to the same CDN provider across pages. Thirdly, H3 mitigates the congestion problem on webpages serving multiple CDN resources. This work provides a deeper insight into the applicability of H3 in large-scale distributed systems like CDNs, holding promise for informing the development and optimization of industrial H3.

关键词： Content distribution networks Distributed computing Optimization

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Reversible Data Hiding for 3D Mesh Model Based on Block Modulus Encryption and Multi-MSB Prediction 10th

Reversible Data Hiding for 3D Mesh Model Based on Block Modu...

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10th International Conference of Pioneering computer Scientists, Engineers and Educators, ICPCSEE 2024

作者： Fu, Zihao Gao, Yang Lyu, Wanli Key Lab of Intelligent Computing and Signal Processing of Ministry of Education School of Computer Science and Technology Anhui University Hefei230601 China

ISBN: (纸本)9789819787456

Reversible data hiding in encrypted domain (RDH-ED) fortifies data security and privacy safeguards while upholding the original data’s integrity and accessibility. Current research on RDH-ED focuses on 2D images, while research on 3D mesh models is still immature. This paper introduces an RDH-ED method using block modulus encryption and multi-MSB prediction. Initially, the original mesh model is partitioned into non-overlapping subblocks of equal size, and then the vertices in each subblock are encrypted with the same key for additive modulus encryption, ensuring that the spatial correlation present in the original mesh subblocks remains preserved within the encrypted subblocks. Subsequently, the subblocks are disrupted one by one using the 3D Arnold Transform to enhance security. The vertices in each embeddable subblock are divided into a reference vertex and several embeddable vertices, where the multi-MSB prediction strategy is employed to allocate embedding room for each embeddable vertex. Finally, the secret information is embedded into the allocated room. Since the proposed method almost completely preserves the spatial correlation within each subblock, the achieved embedding rate surpasses that of all previous outstanding methods that rely on vacating room after encryption (VRAE). The experimental findings demonstrate that the proposed approach achieves an average embedding rate of 45.55 bits per vertex (bpv), surpassing the state-of-the-art method that achieves 25.63 bpv. © The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2024.

关键词： Mesh generation

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Vocabulary-informed Zero-shot and Open-set Learning

arXiv

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arXiv 2023年

作者： Fu, Yanwei Wang, Xiaomei Dong, Hanze Jiang, Yu-Gang Wang, Meng Xue, Xiangyang Sigal, Leonid The School of Data Science Fudan University Shanghai China The School of Computer Science Shanghai Key Lab of Intelligent Information Processing Fudan University China AITRICS Korea Republic of The School of Computer and Information Science Hefei University of Technology Hefei China The Department of Computer Science University of British Columbia BC Canada

Despite significant progress in object categorization, in recent years, a number of important challenges remain;mainly, the ability to learn from limited labeled data and to recognize object classes within large, potentially open, set of labels. Zero-shot learning is one way of addressing these challenges, but it has only been shown to work with limited sized class vocabularies and typically requires separation between supervised and unsupervised classes, allowing former to inform the latter but not vice versa. We propose the notion of vocabulary-informed learning to alleviate the above mentioned challenges and address problems of supervised, zero-shot, generalized zero-shot and open set recognition using a unified framework. Specifically, we propose a weighted maximum margin framework for semantic manifold-based recognition that incorporates distance constraints from (both supervised and unsupervised) vocabulary atoms. Distance constraints ensure that labeled samples are projected closer to their correct prototypes, in the embedding space, than to others. We illustrate that resulting model shows improvements in supervised, zero-shot, generalized zero-shot, and large open set recognition, with up to 310K class vocabulary on Animal with Attributes and ImageNet datasets. Copyright © 2023, The Authors. All rights reserved.

关键词： Zero-shot learning

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A deep learning system for predicting time to progression of diabetic retinopathy

引用

NATURE MEDICINE 2024年第2期30卷 358-359页

作者： [Anonymous] Shanghai Belt and Road International Joint Laboratory for Intelligent Prevention and Treatment of Metabolic Disorders Department of Computer Science and Engineering School of Electronic Information and Electrical Engineering Shanghai Jiao Tong University Department of Endocrinology and Metabolism Shanghai Sixth People’s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine Shanghai Diabetes Institute Shanghai Clinical Center for Diabetes Shanghai China MOE Key Laboratory of AI School of Electronic Information and Electrical Engineering Shanghai Jiao Tong University Shanghai China Department of Ophthalmology Huadong Sanatorium Wuxi China Department of Ophthalmology Shanghai Sixth People’s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine Shanghai China Department of Ophthalmology and Visual Sciences The Chinese University of Hong Kong Hong Kong China Singapore Eye Research Institute Singapore National Eye Centre Singapore Singapore Department of Computer Science and Engineering The Hong Kong University of Science and Technology Hong Kong China Department of Chemical and Biological Engineering The Hong Kong University of Science and Technology Hong Kong China State Key Laboratory of Ophthalmology Zhongshan Ophthalmic Center Sun Yat-sen University Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science Guangzhou China Department of Ophthalmology Peking Union Medical College Hospital Peking Union Medical College Chinese Academy of Medical Sciences Beijing China Medical Records and Statistics Office Shanghai Sixth People’s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine Shanghai China Department of Geriatrics Tongji Hospital Tongji Medical College Huazhong University of Science and Technology Wuhan China National Engineering Research Center for Big Data Technology and System Services Computing Technology and System Lab Cluster and Grid Computing Lab School of Computer Science and Tech

We developed and validated a deep learning system (termed DeepDR Plus) in a diverse, multiethnic, multi-country dataset to predict personalized risk and time to progression of diabetic retinopathy. We show that DeepDR Plus can be integrated into the clinical workflow to promote individualized intervention strategies for the management of diabetic retinopathy.

关键词： Diabetes complications Machine learning Predictive markers

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Selection of Cancer Biomarkers from Microarray Gene Expression Data Utilizing the Bi-Objective Optimization Method

Selection of Cancer Biomarkers from Microarray Gene Expressi...

引用

2023 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2023

作者： Jiang, Hanjing Lin, Jianqing Zhu, Huachao Huang, Yabing Huazhong University of Science and Technology Key Lab. of Image Information Processing and Intelligent Control of Education Ministry of China Institute of Artificial Intelligence School of Artificial Intelligence and Automation Wuhan430074 China Wuhan University School of Computer Science Wuhan430064 China Renmin Hospital of Wuhan University Department of Pathology Wuhan430060 China

ISBN: (纸本)9798350337488

Cancer-associated biomarker genes play an indispensable role in the intricate tapestry of cancer development and manifestation. The expression of biomarkers in different types of tumor cells has beneficial implications for shedding light on the development of various cancers, guiding clinical diagnosis, and treatment. Microarray technology enables the expression levels of thousands of genes in samples to be sequenced simultaneously. However, sparse and high-dimensional microarray data present a formidable challenge in identifying biomarker genes. This study presents EREF-NSGA2, a novel method for cancer biomarker selection from microarray data, employing a hybrid gene selection approach. Firstly, the combination of the wrapper and embedded gene selection methods is proposed to filter the microarray data, which efficiently decreases the search space of the algorithm. After that, the improved NSGA-II algorithm is used to search the genes subset obtained from the previous step to reach the optimal subset of cancer biomarker genes. The proposed EREF-NSGA2 is compared with other reported methods on six cancer benchmark gene expression datasets. A detailed biological analysis is performed to analyze the relationship between the selected genes and the cancer data sets they belong to. To summarize, EREF-NSGA2 proves its effectiveness in selecting a feature subset comprising the fewest genes while maintaining the highest classification accuracy. © 2023 IEEE.

关键词： Bi-objective optimization Cancer biomarker Gene selection NSGA-II

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Point, Segment and Count: A Generalized Framework for Object Counting

Point, Segment and Count: A Generalized Framework for Object...

引用

Conference on computer Vision and Pattern Recognition (CVPR)

作者： Zhizhong Huang Mingliang Dai Yi Zhang Junping Zhang Hongming Shan Shanghai Key Lab of Intelligent Information Processing School of Computer Science Fudan University Shanghai China School of Cyber Science and Engineering Sichuan University Chengdu China Frontiers Center for Brain Science Key Laboratory of Computational Neuroscience and Brain-Inspired Intelligence Institute of Science and Technology for Brain-inspired Intelligence & MOE Fudan University Shanghai China

ISBN: (数字)9798350353006

ISBN: (纸本)9798350353013

Class-agnostic object counting aims to count all objects in an image with respect to example boxes or class names, a.k.a few-shot and zero-shot counting. In this paper, we propose a generalized framework for both few-shot and zero-shot object counting based on detection. Our framework combines the superior advantages of two foundation models without compromising their zero-shot capability: (i) SAM to segment all possible objects as mask proposals, and (ii) CLIP to classify proposals to obtain accurate object counts. However, this strategy meets the obstacles of efficiency over-head and the small crowded objects that cannot be localized and distinguished. To address these issues, our framework, termed PseCo, follows three steps: point, segment, and count. Specifically, we first propose a class-agnostic object localization to provide accurate but least point prompts for SAM, which consequently not only reduces computation costs but also avoids missing small objects. Furthermore, we propose a generalized object classification that leverages CLIP image/text embeddings as the classifier, following a hierarhical knowledge distillation to obtain discriminative classifications among hierarchical mask proposals. Extensive experimental results on FSC-147, COCO, and LVIS demonstrate that PseCo achieves state-of-the-art performance in both few-shot/zero-shot object counting/detection.

关键词： Location awareness Image segmentation computer vision Accuracy Costs Power capacitors Pattern recognition

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