ISBRA 2023

19th International Symposium on Bioinformatics Research and Applications (ISBRA 2023) October 9 - 12, 2023 Łukasiewicz Research Network - PORT Polish Center for Technology Development, Wrocław, Poland

Program agenda

The list of accepted papers:

  1. Michael Souza, Nilton Maia and Carlile Lavor. The Ordered Covering Problem in Distance Geometry
  2. Gabriel Siqueira, Alexsandro Oliveira Alexandrino, Andre Rodrigues Oliveira, Géraldine Jean, Guillaume Fertin and Zanoni Dias. Approximating Rearrangement Distances with Replicas and Flexible Intergenic Regions
  3. Joyanta Basak, Ahmed Soliman, Nachiket Deo, Kenneth Haase, Anup Mathur, Krista Park, Rebecca Steorts, Daniel Weinberg, Sartaj Sahni and Sanguthevar Rajasekaran. On Computing the Jaro Similarity Between Two Strings
  4. Guy Katriel, Udi Mahanaymi, Christoph Koutschan, Doron Zeilberger, Mike Steel and Sagi Snir. Using Generating Functions to Prove Additivity of Gene-Neighborhood Based Phylogenetics
  5. Sumaira Zaman and Mukul S. Bansal. Reducing the impact of domain rearrangement on sequence alignment and phylogeny reconstruction
  6. Huixiu Xu, Xin Tong, Haitao Jiang, Lusheng Wang, Binhai Zhu and Daming Zhu. On Sorting by Flanked Transpositions
  7. Enrico Rossignolo and Matteo Comin. USTAR: Improved Compression of k-mer Sets with Counters Using De Bruijn Graphs
  8. Ming Chen, Bin Yao, Xiujuan Lei, Chunyan Ji, Zitao Hu and Yi Pan. Predicting Comprehensive Drug-Drug Interactions by Magnetic Signed Graph Neural Network
  9. Hui Feng, Guishen Wang and Chen Cao. BiRNN-DDI:A Drug-drug Interaction Event Type Prediction Model based on Bidirectional Recurrent Neural Network and Graph to Sequence Representation
  10. Md. Tofazzal Hossain, Md. Selim Reza, Yin Peng, Shengzhong Feng and Yanjie Wei. PCPI: Prediction of circRNA and protein interaction using machine learning method
  11. Wanyi Yang, Chuanfang Wu and Jinku Bao. PDFll: Intrinsic protein disorder and function prediction from the language of life
  12. Usama Sardar, Sarwan Ali, Muhammad Sohaib Ayub, Muhammad Shoaib, Khurram Bashir, Imdadullah Khan and Murray Patterson. Sequence-Based Nanobody-Antigen Binding Prediction
  13. Ahtisham Fazeel, Muhammad Nabeel Asim, Johan Trygg, Andreas Dengel and Sheraz Ahmed. Deep Learning Architectures For the Prediction of YY1-Mediated Chromatin Loops
  14. Boxin Guan, Anqi Wang, Yahan Li, Feng Li, Jin-Xing Liu and Junliang Shang. ABCAE: Artificial Bee Colony Algorithm with Adaptive Exploitation for Epistatic Interaction Detection
  15. Tian-Jing Qiao, Feng Li, Shasha Yuan, Ling-Yun Dai and Juan Wang. scGASI: A graph autoencoder-based single-cell integration clustering method
  16. Shuo Xu, Liping Kang, Xingyu Bi and Xiaohui Wu. Integrative analysis of gene expression and alternative polyadenylation from single-cell RNA-seq data
  17. Mathieu Bolteau, Jérémie Bourdon, Laurent David and Carito Guziolowski. Inferring Boolean networks from single-cell human embryo datasets
  18. Tai-Ge Wang, Xiang-Zhen Kong, Sheng-Jun Li and Juan Wang. CHLPCA: Correntropy-Based Hypergraph Regularized Sparse PCA for Single-cell Type Identification
  19. Zahra Tayebi, Akshay Juyal, Alex Zelikovsky and Murray Patterson. Simulating tumor evolution from scDNA-seq as an accumulation of both SNVs and CNAs
  20. Haijing Luan, Taiyuan Hu, Jifang Hu, Ruilin Li, Detao Ji, Jiayin He, Xiaohong Duan, Chunyan Yang, Yajun Gao, Fan Chen and Beifang Niu. Multi-Class Cancer Classification of Whole Slide Images through Transformer and Multiple Instance Learning
  21. Sarwan Ali, Usama Sardar, Imdadullah Khan and Murray Patterson. Efficient Sequence Embedding For SARS-CoV-2 Variants Classification
  22. Sarwan Ali, Pin-Yu Chen and Murray Patterson. Unveiling the Robustness of Machine Learning Models in Classifying COVID-19 Spike Sequences
  23. Yuxia Guan, Ying An, Fengyi Guo and Jianxin Wang. MPFNet: ECG Arrhythmias Classication Based on Multi-Perspective Feature Fusion
  24. Sarwan Ali, Haris Mansoor, Prakash Chourasia and Murray Patterson. Hist2Vec: Kernel-Based Embeddings for Biological Sequence Classification
  25. Yan Zhang, Xin Liu, Panrui Tang and Zuping Zhang. SGMDD: Subgraph Neural Network-Based Model for Analyzing Functional Connectivity Signatures of Major Depressive Disorder
  26. Hongyang Lei, Huazhen Huang, Bokai Yang, Guosheng Cui, Ruxin Wang, Dan Wu and Ye Li. TCSA: A Text-guided Cross-view Medical Semantic Alignment Framework for Adaptive Multi-view Visual Representation Learning
  27. Jordan Sturtz, Richard Annan, Binhai Zhu, Xiaowen Liu and Letu Qingge. A Convolutional Denoising Autoencoder for Protein Scaffold Filling
  28. Prakash Chourasia, Taslim Murad, Sarwan Ali and Murray Patterson. Enhancing t-SNE Performance for Biological Sequencing Data through Kernel Selection
  29. Sarwan Ali, Prakash Chourasia and Murray Patterson. PDB2Vec: Using 3D Structural Information For Improved Protein Analysis
  30. Ying An, Anxuan Xiong and Lin Guo. DCNN: Dual-Level Collaborative Neural Network for Imbalanced Heart Anomaly Detection
  31. Lusheng Wang and Zhaohui Zhan. Proteoform identification for top-down tandem mass spectra: efficient algorithms for global and local alignments with peak error correction
  32. Zhidong Yang, Hongjia Li, Dawei Zang, Renmin Han and Fa Zhang. SaID: Simulation-aware Image Denoising Pre-trained Model for Cryo-EM Micrographs
  33. Jovial Niyogisubizo, Zhao Keliang, Jintao Meng, Yi Pan, Didi Rosiyadi and Yanjie Wei. Attention-Guided Residual U-Net with SE Connection and ASPP for Watershed-based Cell Segmentation in Microscopy Images
  34. Ya Lv, Jin Liu, Pei Yang and Yi Pan. Multi-modality MRI Feature Interaction for Pseudoprogression Prediction of Glioblastoma
  35. Shaokai Wang, Ming Zhu and Bin Ma. NeoMS: Identification of Novel MHC-I Peptides with Tandem Mass Spectrometry
  36. Xiaodi Hou, Guoming Sang, Zhi Liu, Xiaobo Li and Yijia Zhang. Radiology Report Generation via Visual Recalibration and Context Gating-aware
  37. André Salgado, Francisco Fernandes and Ana Teresa Freitas. CSA-MEM: Enhancing Circular DNA Multiple Alignment through Text Indexing Algorithms
  38. Hafsa Farooq, Daniel Novikov, Akshay Juyal and Alex Zelikovsky. Genetic Algorithm with Evolutionary Jumps
  39. Carissa Bleker, Stephen Grady and Michael A. Langston. A Brief Study of Gene Co-Expression Thresholding Algorithms
  40. Hossein Saghaian, Pavel Skums, Yurij Ionov and Alex Zelikovsky. Graph-Based Motif Discovery in Mimotope Profiles of Serum Antibody Repertoire
  41. Huidong Ma, Cheng Zhong, Hui Sun and Haixiang Lin. ricME: long-read based mobile element variant detection using sequence realignment and identity calculation
  42. Casper Asbjørn Eriksen, Jakob Lykke Andersen, Rolf Fagerberg and Daniel Merkle. Reconciling Inconsistent Molecular Structures from Biochemical Databases
  43. Gatis Melkus, Sandra Siliņa, Andrejs Sizovs, Peteris Rucevskis, Lelde Lace, Edgars Celms and Juris Viksna. Clique-based topological characterization of chromatin interaction hubs
  44. Jakob Lykke Andersen, Sissel Banke, Rolf Fagerberg, Christoph Flamm, Daniel Merkle and Peter F. Stadler. On the Realisability of Chemical Pathways
  45. Rui Gao, Zixue Liu, Mei Meng and Jian He. Neurogenesis-associated Protein, a Potential Prognostic Biomarker in anti-PD-1 based kidney renal clear cell carcinoma patients’ therapeutics
  46. Bikram Sahoo and Alex Zelikovsky. Deep Learning Reveals Biological Basis of Racial Disparities in Quadruple-Negative Breast Cancer
  47. Bikram Sahoo and Alex Zelikovsky. Exploring Racial Disparities in Triple-Negative Breast Cancer: Insights from Feature Selection Algorithms
  48. Yulong Li, Hongming Zhu, Xiaowen Wang and Qin Liu. HetBiSyn: Predicting Anticancer Synergistic Drug Combinations Featuring Bi-perspective Drug Embedding with Heterogeneous Data
  49. Jingjing Zhang, Md. Tofazzal Hossain, Zhen Ju, Wenhui Xi and Yanjie Wei. Identification and functional annotation of circRNAs in neuroblastoma based on bioinformatics
  50. Xuehua Bi, Chunyang Jiang, Cheng Yan, Kai Zhao, Linlin Zhang and Jianxin Wang. Identifying miRNA-disease Associations based on Simple Graph Convolution with DropMessage and Jumping Knowledge
  51. Sarah von Loehneysen, Thomas Spicher, Yuliia Varenyk, Hua-Ting Yao, Ronny Lorenz, Ivo Hofacker and Peter F. Stadler. Phylogenetic Information as Soft Constraints in RNA Secondary Structure Prediction
  52. Rafał Stępień, Joanna Szyda, Bartosz Czech and Magda Mielczarek. The effect of transcriptomic annotations in breast cancer DGE study

The update preliminary program is here: https://easychair.org/smart-program/ISBRA2023/