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Bioinformatics Research and Applications

19th International Symposium, ISBRA 2023, Wrocław, Poland, October 9–12, 2023, Proceedings

  • Conference proceedings
  • © 2023

Overview

Editors:
  1. Xuan Guo

    1. University of North Texas, Denton, USA

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  2. Serghei Mangul

    1. University of Southern California, Los Angeles, USA

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  3. Murray Patterson

    1. Georgia State University, Atlanta, USA

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  4. Alexander Zelikovsky

    1. Georgia State University, Atlanta, USA

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Part of the book series: Lecture Notes in Computer Science (LNCS, volume 14248)

Part of the book sub series: Lecture Notes in Bioinformatics (LNBI)

Included in the following conference series:

Conference proceedings info: ISBRA 2023.

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About this book

This book constitutes the refereed proceedings of the 19th International Symposium on Bioinformatics Research and Applications, ISBRA 2023, held in Wrocław, Poland, during October 9–12, 2023.

The 28 full papers and 16 short papers included in this book were carefully reviewed and selected from 89 submissions. They were organized in topical sections as follows: reconciling inconsistent molecular structures from biochemical databases; radiology report generation via visual recalibration and context gating-aware; sequence-based nanobody-antigen binding prediction; and hist2Vec: kernel-based embeddings for biological sequence classification.




Keywords

Table of contents (44 papers)

  1. Front Matter

    Pages i-xiii
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  2. Unveiling the Robustness of Machine Learning Models in Classifying COVID-19 Spike Sequences

    • Sarwan Ali, Pin-Yu Chen, Murray Patterson
    Pages 1-15

  3. Efficient Sequence Embedding for SARS-CoV-2 Variants Classification

    • Sarwan Ali, Usama Sardar, Imdad Ullah Khan, Murray Patterson
    Pages 16-30

  4. On Computing the Jaro Similarity Between Two Strings

    • Joyanta Basak, Ahmed Soliman, Nachiket Deo, Kenneth Haase, Anup Mathur, Krista Park et al.
    Pages 31-44

  5. Identifying miRNA-Disease Associations Based on Simple Graph Convolution with DropMessage and Jumping Knowledge

    • Xuehua Bi, Chunyang Jiang, Cheng Yan, Kai Zhao, Linlin Zhang, Jianxin Wang
    Pages 45-57

  6. Reconciling Inconsistent Molecular Structures from Biochemical Databases

    • Casper Asbjørn Eriksen, Jakob Lykke Andersen, Rolf Fagerberg, Daniel Merkle
    Pages 58-71

  7. Deep Learning Architectures for the Prediction of YY1-Mediated Chromatin Loops

    • Ahtisham Fazeel Abbasi, Muhammad Nabeel Asim, Johan Trygg, Andreas Dengel, Sheraz Ahmed
    Pages 72-84

  8. MPFNet: ECG Arrhythmias Classification Based on Multi-perspective Feature Fusion

    • Yuxia Guan, Ying An, Fengyi Guo, Jianxin Wang
    Pages 85-96

  9. PCPI: Prediction of circRNA and Protein Interaction Using Machine Learning Method

    • Md. Tofazzal Hossain, Md. Selim Reza, Xuelei Li, Yin Peng, Shengzhong Feng, Yanjie Wei
    Pages 97-106

  10. Radiology Report Generation via Visual Recalibration and Context Gating-Aware

    • Xiaodi Hou, Guoming Sang, Zhi Liu, Xiaobo Li, Yijia Zhang
    Pages 107-119

  11. Using Generating Functions to Prove Additivity of Gene-Neighborhood Based Phylogenetics - Extended Abstract

    • Guy Katriel, Udi Mahanaymi, Christoph Koutschan, Doron Zeilberger, Mike Steel, Sagi Snir
    Pages 120-135

  12. TCSA: A Text-Guided Cross-View Medical Semantic Alignment Framework for Adaptive Multi-view Visual Representation Learning

    • Hongyang Lei, Huazhen Huang, Bokai Yang, Guosheng Cui, Ruxin Wang, Dan Wu et al.
    Pages 136-149

  13. Multi-class Cancer Classification of Whole Slide Images Through Transformer and Multiple Instance Learning

    • Haijing Luan, Taiyuan Hu, Jifang Hu, Ruilin Li, Detao Ji, Jiayin He et al.
    Pages 150-164

  14. ricME: Long-Read Based Mobile Element Variant Detection Using Sequence Realignment and Identity Calculation

    • Huidong Ma, Cheng Zhong, Hui Sun, Danyang Chen, Haixiang Lin
    Pages 165-177

  15. scGASI: A Graph Autoencoder-Based Single-Cell Integration Clustering Method

    • Tian-Jing Qiao, Feng Li, Shasha Yuan, Ling-Yun Dai, Juan Wang
    Pages 178-189

  16. ABCAE: Artificial Bee Colony Algorithm with Adaptive Exploitation for Epistatic Interaction Detection

    • Qianqian Ren, Yahan Li, Feng Li, Jin-Xing Liu, Junliang Shang
    Pages 190-201

  17. USTAR: Improved Compression of k-mer Sets with Counters Using de Bruijn Graphs

    • Enrico Rossignolo, Matteo Comin
    Pages 202-213

  18. Graph-Based Motif Discovery in Mimotope Profiles of Serum Antibody Repertoire

    • Hossein Saghaian, Pavel Skums, Yurij Ionov, Alex Zelikovsky
    Pages 214-226

  19. Sequence-Based Nanobody-Antigen Binding Prediction

    • Usama Sardar, Sarwan Ali, Muhammad Sohaib Ayub, Muhammad Shoaib, Khurram Bashir, Imdad Ullah Khan et al.
    Pages 227-240

  20. Approximating Rearrangement Distances with Replicas and Flexible Intergenic Regions

    • Gabriel Siqueira, Alexsandro Oliveira Alexandrino, Andre Rodrigues Oliveira, Géraldine Jean, Guillaume Fertin, Zanoni Dias
    Pages 241-254
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Other volumes

  1. Bioinformatics Research and Applications

Editors and Affiliations

  • University of North Texas, Denton, USA

    Xuan Guo

  • University of Southern California, Los Angeles, USA

    Serghei Mangul

  • Georgia State University, Atlanta, USA

    Murray Patterson, Alexander Zelikovsky

Bibliographic Information

  • Book Title: Bioinformatics Research and Applications

  • Book Subtitle: 19th International Symposium, ISBRA 2023, Wrocław, Poland, October 9–12, 2023, Proceedings

  • Editors: Xuan Guo, Serghei Mangul, Murray Patterson, Alexander Zelikovsky

  • Series Title: Lecture Notes in Computer Science

  • DOI: https://doi.org/10.1007/978-981-99-7074-2

  • Publisher: Springer Singapore

  • eBook Packages: Computer Science, Computer Science (R0)

  • Copyright Information: The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2023

  • Softcover ISBN: 978-981-99-7073-5Published: 08 October 2023

  • eBook ISBN: 978-981-99-7074-2Published: 07 October 2023

  • Series ISSN: 0302-9743

  • Series E-ISSN: 1611-3349

  • Edition Number: 1

  • Number of Pages: XIII, 555

  • Number of Illustrations: 17 b/w illustrations, 133 illustrations in colour

  • Topics: Bioinformatics, Artificial Intelligence, Computer Communication Networks, Computer Systems Organization and Communication Networks

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