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ORCID14th BCB 2023: Houston, TX, USA
- May D. Wang, Byung-Jun Yoon:
Proceedings of the 14th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2023, Houston, TX, USA, September 3-6, 2023. ACM 2023 - Sahand Hamzehei
, Jun Bai, Gianna Raimondi, Rebecca Tripp, Linnaea Ostroff, Sheida Nabavi:
3D Biological/Biomedical Image Registration with enhanced Feature Extraction and Outlier Detection. 1:1-1:10 - Junior Ben Tamo, Wenqi Shi, Yuanda Zhu, Micky C. Nnamdi, Henry J. Iwinski, J. Michael Wattenbarger, May Dongmei Wang:
Adolescent Idiopathic Scoliosis Patient Subphenotyping for Surgical Planning and Improved Patient Outcomes. 2:1-2:10 - Konghao Zhao, Sapan Bhandari, Nathan P. Whitener, Jason M. Grayson, Natalia Khuri:
An Ensemble Machine Learning Approach for Benchmarking and Selection of scRNA-seq Integration Methods. 3:1-3:10 - Kowshika Sarker, Ruoqing Zhu, Hannah D. Holscher, ChengXiang Zhai:
Augmenting nutritional metabolomics with a genome-scale metabolic model for assessment of diet intake. 4:1-4:10 - Mengzhen Li, Mustafa Coskun, Mehmet Koyutürk:
Canonical Representation of Biological Networks Using Graph Convolution. 5:1-5:9 - Zoe Fowler, Kiran Premdat Kokilepersaud, Mohit Prabhushankar, Ghassan Alregib:
Clinical Trial Active Learning. 6:1-6:10 - Jeewon Yang, Dohoon Lee, Bonil Koo, Dabin Jeong, Sun Kim:
Deep learning-based survival prediction using DNA methylation-derived 3D genomic information. 7:1-7:14 - Sanjeevani Choudhery, Thomas R. Ioerger:
Dual ICA to extract interacting sets of genes and conditions from transcriptomic data. 8:1-8:13 - Nandini Amit Gadhia, Michalis Smyrnakis, Po-Yu Liu, Damer Blake, Melanie Hay, Anh Nguyen, Dong Xia, Ritesh Krishna, Dominic Richards:
Formulating a method to analyse the differential expression of co-occurrence networks for small-sampled microbiome data. 9:1-9:6 - Quoc Nguyen, Layla Oesper:
Generalized Matching Distance: Tumor Phylogeny Comparison Beyond the Infinite Sites Assumption. 10:1-10:9 - Rui Li, Andrew Wen, Jing Gao, Hongfang Liu:
MLGAN: a Meta-Learning based Generative Adversarial Network adapter for rare disease differentiation tasks. 11:1-11:10 - Zhuoping Zhou, Boning Tong, Davoud Ataee Tarzanagh, Bojian Hou, Andrew J. Saykin, Qi Long, Li Shen:
Multi-Group Tensor Canonical Correlation Analysis. 12:1-12:10 - Sakshar Chakravarty, Glennis Logsdon, Stefano Lonardi:
RAmbler: de novo genome assembly of complex repetitive regions. 13:1 - Wenqi Shi, Yuchen Zhuang, Yuanda Zhu, Henry J. Iwinski, J. Michael Wattenbarger, May Dongmei Wang:
Retrieval-Augmented Large Language Models for Adolescent Idiopathic Scoliosis Patients in Shared Decision-Making. 14:1-14:10 - Eric V. Strobl:
Root Causal Inference from Single Cell RNA Sequencing with the Negative Binomial. 15:1-15:10 - Mehmet Efruz Karabulut, K. Vijay-Shanker:
Sectioning biomedical abstracts using pointer networks. 16:1-16:9 - Advait Balaji, Yunxi Liu, Michael G. Nute, Bingbing Hu, Anthony D. Kappell, Danielle S. Lesassier, Gene D. Godbold, Krista Ternus, Todd J. Treangen:
SeqScreen-Nano: a computational platform for streaming, in-field characterization of microbial pathogens. 17:1-17:10 - Julia Zheng, Yuya Nishida, Alicja Okrasinska, Gregory M. Bonito, Elizabeth A. C. Heath-Heckman, Kevin J. Liu:
The Impact of Species Tree Estimation Error on Cophylogenetic Reconstruction. 18:1-18:10 - Chu Xin, Seokhwan Kim, Kyoung Shin Park:
A Comparison of Machine Learning Models with Data Augmentation Techniques for Skeleton-based Human Action Recognition. 19:1-19:6 - Lorenzo Di Rocco, Umberto Ferraro Petrillo:
A Distributed Alignment-free Pipeline for Human SNPs Genotyping. 20:1-20:8 - Arpita Saha, Maggie Samaan, Bo Peng, Xia Ning:
A Multi-Layered GRU Model for COVID-19 Patient Representation and Phenotyping from Large-Scale EHR Data. 21:1-21:6 - Moein Hasani, Chantel N. Trost, Nolen Timmerman, Lingling Jin:
AcrTransAct: Pre-trained Protein Transformer Models for the Detection of Type I Anti-CRISPR Activities. 22:1-22:6 - Brandon Edward Lukas, Yang Dai:
An Integrative Approach to Building Regulatory Potential-Weighted Gene Regulatory Networks: A Leiomyoma Case Study. 23:1-23:6 - Morteza Rahimi, Zeina Al Masry, John Michael Templeton, Sandra L. Schneider, Christian Poellabauer:
Beyond Motor Symptoms: Toward a Comprehensive Grading of Parkinson's Disease Severity. 24:1-24:6 - Conrad T. Testagrose, Vikash Gupta, Barbaros S. Erdal, Richard D. White, Robert W. Maxwell, Xudong Liu, Indika Kahanda, Sherif Elfayoumy, William Klostermeyer, Mutlu Demirer:
Breast-Density Semantic Segmentation with Probability Scaling for BI-RADS Assessment using DeepLabV3. 25:1-25:6 - Qizhang Feng, Jiayi Yuan, Forhan Bin Emdad, Karim Hanna, Xia Hu, Zhe He:
Can Attention Be Used to Explain EHR-Based Mortality Prediction Tasks: A Case Study on Hemorrhagic Stroke. 26:1-26:6 - Tsukasa Koga, Osamu Maruyama:
CBOEP: Generating negative enhancer-promoter interactions to train classifiers. 27:1-27:6 - Wenqi Shi, Benoit Louis Marteau, Felipe O. Giuste, May Dongmei Wang:
Choice Over Effort: Mapping and Diagnosing Augmented Whole Slide Image Datasets with Training Dynamics. 28:1-28:6 - Ashley Nicole Babjac, Zhixiu Lu, Scott J. Emrich:
CodonBERT: Using BERT for Sentiment Analysis to Better Predict Genes with Low Expression. 29:1-29:6 - Cory Kromer-Edwards, Suely Oliveira:
Compound RNN to predict MICs using K-Mer Fingerprints and Antibiotic SMILES. 30:1-30:5 - Jordan Li Cahoon, Luis Antonio Garcia:
Continuous Stress Monitoring for Healthcare Workers: Evaluating Generalizability Across Real-World Datasets. 31:1-31:5 - Felix Jackson, Thomas Lukasiewicz:
Deconvolution of cell-free DNA in cancer liquid biopsy using a deep AutoEncoder. 32:1-32:6 - Joel Oduro-Afriyie, Hasan M. Jamil:
Enabling the Informed Patient Paradigm with Secure and Personalized Medical Question Answering. 33:1-33:6 - Shaika Chowdhury, Yongbin Chen, Xiao Ma, Qiying Dai, Yue Yu, Nansu Zong:
Evaluating Drug Effectiveness for Antihypertensives in Heart Failure Prognosis: Leveraging Composite Clinical Endpoints and Biomarkers from Electronic Health Records. 34:1-34:6 - Lei Chen, Junhao Su, Tak Wah Lam, Ruibang Luo:
Exploring Pair-Aware Triangular Attention for Biomedical Relation Extraction. 35:1-35:5 - Sonal Jha, Wu-chun Feng:
GRAPPEL: A Graph-based Approach for Early Risk Assessment of Acute Hypertension in Critical Care. 36:1-36:6 - Lei Chen, Junhao Su, Zhenxian Zheng, Tak Wah Lam, Ruibang Luo:
Large-scale Dataset and Effective Model for Variant-Disease Associations Extraction. 37:1-37:6 - J. White Bear, Grégoire De Bisschop, Eric Lécuyer, Jérôme Waldispühl:
Localized, Non-parametric Detection of RNA Structural Modification using Nanopore Basecalling. 38:1-38:8 - Micky C. Nnamdi, Junior Ben Tamo, Sara Stackpole, Wenqi Shi, Benoit Marteau, May Dongmei Wang:
Model Confidence Calibration for Reliable COVID-19 Early Screening via Audio Signal Analysis. 39:1-39:6 - Katherine A. Wuestney, Beiyu Lin, Diane J. Cook, Roschelle L. Fritz:
Modeling Human Frailty with a Smart Home-Based Approximation of Entropy. 40:1-40:6 - Xiang Li, Mingfu Shao:
On de novo Bridging Paired-end RNA-seq Data. 41:1-41:5 - Leran Ma, Ke Chen, Mingfu Shao:
On the Maximal Independent Sets of k-mers with the Edit Distance. 42:1-42:6 - Rajshree Jodha, Priyanka Mishra, J. Angel Arul Jothi, Sameer Saifi, Abhishek Purohit:
Performance Evaluation of Semantic Segmentation Models with and without Attention for White Blood Cells Segmentation. 43:1-43:4 - Gangadhar Katuri, Epaminondas Rosa Jr., Rosangela Follmann:
Phase Synchronization in Brain Collective Dynamics. 44:1-44:7 - Md Alamin, Kevin J. Liu:
Phylogenetic Placement of Aligned Genomes and Metagenomes with Non-tree-like Evolutionary Histories. 45:1-45:10 - Edward L. Braun:
Phylogenomics using Compression Distances: Incorporating Rate Heterogeneity and Amino Acid Properties. 46:1-46:6 - Zijia Tang, Tonglin Zhang, Qianqian Song, Jing Su, Baijian Yang:
PINet: Privileged Information Improve the Interpretablity and generalization of structural MRI in Alzheimer's Disease. 47:1-47:9 - Farhan Tanvir, Khaled Mohammed Saifuddin, Muhammad Ifte Khairul Islam, Esra Akbas:
Predicting Drug-drug Interactions Using Heterogeneous Graph Attention Networks. 48:1-48:6 - Mengjing Liu, Mohammed Elbadry, Yindong Hua, Zongxing Xie, Fan Ye:
Proteus: Towards a Manageability-focused Home-based Health Monitoring Infrastructure. 49:1-49:6 - Savik Kinger:
Quantifying Recombination Bias in Viral Evolution Using Persistent Homology. 50:1-50:6 - Rei Doko, Kevin Liu:
Reconstructing Phylogenies Using Branch-Variable Substitution Models and Unaligned Biomolecular Sequences: A Performance Study and New Resampling Method. 51:1-51:10 - Adarsh Gadari, Sandeep Chandra Bollepalli, Mohammed Nasar Ibrahim, José-Alain Sahel, Jay Chhablani, Shan Suthaharan, Kiran Kumar Vupparaboina:
Robust Retinal Layer Segmentation Using OCT B-Scans: A Novel Approach Based on Pix2Pix Generative Adversarial Network. 52:1-52:6 - Zifeng Wang, Cao Xiao, Jimeng Sun:
SPOT: Sequential Predictive Modeling of Clinical Trial Outcome with Meta-Learning. 53:1-53:11 - Wenlong Zhang, Kangping Zeng, Xinming Yang, Tian Shi, Ping Wang:
Text-to-ESQ: A Two-Stage Controllable Approach for Efficient Retrieval of Vaccine Adverse Events from NoSQL Database. 54:1-54:10 - Brandon Philip Theodorou, Cao Xiao, Jimeng Sun:
TREEMENT: Interpretable Patient-Trial Matching via Personalized Dynamic Tree-based Memory Network. 55:1-55:9 - Aysegul Bumin, Megan Shah, Kejun Huang, Tamer Kahveci:
Vulture: VULnerabilities in impuTing drUg REsistance. 56:1-56:6 - Renad Al-Ghazawi, Theodore J. Perkins, Xiaojian Shao:
A Model of Cell Population Dynamics in Skeletal Muscle Regeneration. 57:1 - Kwan-Ling Wu, Melisa Montalvo, Prashant Menon, Badrinath Roysam, Navin Varadarajan:
Automated Focus Restoration for High-throughput Phase Contrast Time-lapse Microscopy with De-noising Diffusion Probabilistic Model. 58:1 - Léa Gazeau, Hang Nguyen:
Automatically measuring dyspigmentation severity of the skin using a convolutional neural network. 59:1 - Ayush Garg, Shyam Sundar Das, Narayanan Ramamurthi:
AutoML in Drug Discovery: Side-Effects Prediction Using AutoGluon Framework and Its Applications in Drug Discovery. 60:1 - Liang Xue, Mykola Bordyuh, Djork-Arné Clevert, Robert Stanton:
Benchmarking deep learning models and classical de novo sequencing tools for immunopeptidomics. 61:1 - Salvador Eugenio C. Caoili:
Capturing Solvent-System Effects in B-Cell Epitope Prediction with the HAPTIC3/HEPTAD2 User Toolkit (HUT2). 62:1 - Kevin Kaizhe Yang, Julian Stanley:
Computational Methods to Determine Genetic Factors in Nicotine Dependency. 63:1 - Xinglin Jia, An Phan, Claus Kadelka:
Concise Ranked Functional Enrichment Analysis. 64:1 - Bingjun Li, Sheida Nabavi:
Contrastive Learning in Single-cell Multiomics Clustering. 65:1 - Alexis L. Marsh, Myra B. Cohen, Robert W. Cottingham:
CORE: Comparable, Open, Reliable, Extensible Software: An Experience Report of Four Flux Balance Analysis Tools. 66:1 - Yang Chen, Elissa P. Lei:
Deciphering the contribution of 3D interactions between cis-regulatory elements and promoters to regulate gene expression using graph neural networks. 67:1 - Mena Soliman Asaad Kamel, Amrut Sarangi, Cindy Qin, Het Barot, Pavel Senin, Sergio Villordo, Sunaal Mathew, Albert Pla Planas, Ziv Bar-Joseph:
Deep-Learning Based Cell Segmentation and Deconvolution in Spatial Transcriptomics. 68:1 - Selina Zhang, Jake Yue Chen:
Designing Helicobacter pylori as an Anticancer Bacterial Vector. 69:1 - Arnav Garg, Pranav Narala, Maruthi Vemula:
Doxorubicin Efficacy Prediction for Glioblastomas Using Deep Learning and Differnetial Equations. 70:1 - Ayush Garg, Shyam Sundar Das, Narayanan Ramamurthi:
Drug Target Prioritization Based on Ligand Binding Pocket and Disease-Target Association Scores. 71:1 - Alif Bin Abdul Qayyum, Xiaoning Qian, Byung-Jun Yoon:
Enhancing Cryo-EM Particle Picking Through Consistency Model-based Latent Space Denoiser. 72:1 - Omer Anjum, Luyao Chen, Ryan Denlinger, Ejaz Anam, Dongsheng Yuan, Connie Wooldridge, Martin J. Citardi, Jiajie Zhang, Hua Xu, Xiaoqian Jiang:
FinFax: Fast Interpretation of Fax with NLP. 73:1-73:2 - Shreyas U. Hirway, Xiang Yao, Fetene B. Tekle, Thomas De Marchin, Onyi Irrechukwu, Freddy Van Goethem:
Gene Regulatory Network Based Toxicity Classification and Prediction: A DILI Case Study. 74:1 - Deepro Pasha, Yohei Rosen, Maxim Kuznetsov, Benedict Paten:
Genetic Site-Aware Three-Dimensional Layout Algorithm for Variation Graphs. 75:1 - Noam Auslander, Abdurrahman Elbasir:
Identification of generalizable gene expression biomarkers associated with drug Respose in cell Lines and patients. 76:1 - Ahyoung Choi, No Soo Kim, Aeyung Kim, Haeseung Lee, Hyunjin Shin:
Identification of therapeutic targets for muscle atrophy via analyzing transcriptomic profiles with systems biology approaches. 77:1 - Niranjan Sahi, Anda Liang, Sean Mchale, Wyn Van Devanter, Peng Zhang:
Interoperable Healthcare with Blockchain: A Data Transfer Model. 78:1 - Pritish Ranjan, Shyam Sundar Das, Narayanan Ramamurthi:
Investigation of Drug Repurposing Opportunities Using Side-effects data, Topic Modelling and Clustering Algorithms. 79:1 - Hasan M. Jamil, Stephen A. Krawetz, Alexander Gow:
Leveraging Large Language Models for Automatic Hypotheses Testing over Heterogeneous Biological Databases. 80:1-80:2 - Naga Sai Kavya Vaddadi, Taher Mun, Benjamin Thomas Langmead:
Minimizing Reference Bias: The Impute-First Approach for Personalized Genome Analysis. 81:1 - Ju-Yeh Yang, Tsung-Chun Lee, Chih-Yu Jian, Chih-Chung Hsu:
Multimodality-aware Intra-dialytic Hypotension Classifier: A Bilingual NLP Approach to Classify Dialysis Records. 82:1 - Alon Rashelbach, Ori Rottenstreich, Mark Silberstein:
Nucleotide String Indexing using Range Matching. 83:1-83:2 - Xin Cao, Mikhail Ignatov, George Jones, Sara N. Pollock, Evangelos A. Coutsias, Dima Kozakov:
Numerically stable algorithm for Inverse Kinematics of 6R problem and its applications to macrocycles. 84:1 - Reza Kalbasi, David P. Nickerson, Koray Atalag:
PhysioMed: A Semantic Web based Framework for Linking Healthcare Information with Computational Physiology Models. 85:1 - Abhay Goyal, Nimay Parekh, Lam Yin Cheung, Koustuv Saha, Frederick L. Altice, Robin O'Hanlon, Roger Ho Chun Man, Chunki Fong, Christian Poellabauer, Honoria Guarino, Pedro Mateu-Gelabert, Navin Kumar:
Predicting Opioid Use Outcomes in Minoritized Communities. 86:1-86:2 - Nguyen-Kieu Viet-Nhi, Nguyen-Quoc-Khanh Le, Vu Cong Truc, Thi Thuy Nguyen, Tran Nguyen Anh Duy, Nguyen Tu Thai Bao, How Tseng, Shih-Han Hung:
Predicting Tumor Mutational Burden and Survival in Head and Neck Squamous Cancer Patients Using Machine Learning and Bioinformatics Approaches. 87:1 - Tianshu Xu, Venkata V. B. Yallapragada, Mark Tangney, Sabin Tabirca:
ProMVR-Interactive Protein Educational Tool. 88:1 - Mridula Shan:
Real-Time Monitoring of Health Security Attacks with R-based Data Visualization Dashboard. 89:1 - Arun Nampally, Joseph Kim, Eric Proffitt, Eugene Palovcak, Alix Lacoste:
Reference-Free Imputation of Targeted Next-Generation Sequence Datasets. 90:1 - Shikha Tripathi, Alejandro Acien, Ashley A Holmes, Teresa Arroyo-Gallego, Luca Giancardo:
Self-Supervised Learning with Touchscreen Typing. A Generalizable Strategy for Parkinson's Disease Detection Across Datasets. 91:1 - Anthony James Maxin, Bernice G. Gulek, Rami Shaibani, Alex Mariakakis, Lynn B. McGrath, Michael R. Levitt:
Smartphone-based Pupillometry for Diagnosis of Ischemic and Hemorrhagic Stroke. 92:1 - Mukkamala Venkata Sai Prakash, Siddartha Reddy, Ganesh Parab, Varun V, Vishal Vaddina, Saisubramaniam Gopalakrishnan:
Synergistic Fusion of Graph and Transformer Features for Enhanced Molecular Property Prediction. 93:1 - Twinkle Jaswal, Epaminondas Rosa Jr., Rosangela Follmann:
Temperature Effects on Neuronal Synchronization. 94:1 - Elias A Ciudad, Lori Boies, Muskaan Tayal:
Understanding the Evolutionary Conservation of the Ilp1 gene across Drosophila: Genomics Education Partnership. 95:1 - Jonathan W. Stubblefield, Trishna Niraula:
Using Large Language Models to Translate Machine Results to Human Results. 96:1 - Anowarul Kabir, Asher Moldwin, Amarda Shehu:
A Comparative Analysis of Transformer-based Protein Language Models for Remote Homology Prediction. 97:1-97:9 - Usman L. Abbas, Jin Chen, Qing Shao:
Assessing Fairness of AlphaFold2 Prediction of Protein 3D Structures. 98:1-98:10 - Changrui Li, Filip Jagodzinski:
Identifying Impactful Pairs of Insertion Mutations in Proteins. 99:1-99:8 - Dikshant Sagar, Ali Risheh, Nida Sheikh, Negin Forouzesh:
Physics-Guided Deep Generative Model For New Ligand Discovery. 1-9 - Cory Kromer-Edwards:
Optimizing K-Mer Fingerprint Generation for Machine Learning. 101:1-101:5 - Thu Nguyen, Yongcheng Mu, Jiangwen Sun, Jing He:
An Approach to Developing Benchmark Datasets for Protein Secondary Structure Segmentation from Cryo-EM Density Maps. 102:1-102:8 - Felix Quintana, Todd J. Treangen, Lydia E. Kavraki:
Leveraging Large Language Models for Predicting Microbial Virulence from Protein Structure and Sequence. 103:1-103:6 - Justin Z. Tam, Alexandra Chua, Adyn Gallagher, Denice Omene, Danielle Okun, Dominic DiFranzo, Brian Y. Chen:
A Containerization Framework for Bioinformatics Software to Advance Scalability, Portability, and Maintainability. 104:1-104:5 - Megan Herceg, Amarda Shehu:
Structure- and Energy-based Analysis of Small Molecule Ligand Binding to Steroid Nuclear Receptors. 105:1-105:9 - Nguyen-Quoc-Khanh Le, Quang-Hien Kha:
A Sequence-Based Prediction Model of Vesicular Transport Proteins Using Ensemble Deep Learning. 106:1-106:6 - Sarah Coffland, Katie Christensen, Filip Jagodzinski, Brian Hutchinson:
RoseNet: Predicting Energy Metrics of Double InDel Mutants Using Deep Learning. 107:1-107:9 - Maytha Alshammari, Jing He, Willy Wriggers:
AlphaFold2 Model Refinement Using Structure Decoys. 108:1-108:7
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