Journal Issue: BioData Min Volume 17;  2024

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Journal List

Volume 17;  2024

Methodology

Interaction models matter: an efficient, flexible computational framework for model-specific investigation of epistasis
Sandra Batista, Vered Senderovich Madar, Philip J. Freda, Priyanka Bhandary, Attri Ghosh, Nicholas Matsumoto, Apurva S. Chitre, Abraham A. Palmer, Jason H. Moore
BioData Min. 2024; 17: 7. Published online 2024 Feb 28. doi: 10.1186/s13040-024-00358-0
PMCID:
PMC10900690
Abstract Article PDF–4.5M

Research

Machine learning approaches to identify systemic lupus erythematosus in anti-nuclear antibody-positive patients using genomic data and electronic health records
Chih-Wei Chung, Seng-Cho Chou, Tzu-Hung Hsiao, Grace Joyce Zhang, Yu-Fang Chung, Yi-Ming Chen
BioData Min. 2024; 17: 1. Published online 2024 Jan 5. doi: 10.1186/s13040-023-00352-y
PMCID:
PMC10770905
Abstract Article PDF–1.3M
Antibody selection strategies and their impact in predicting clinical malaria based on multi-sera data
André Fonseca, Mikolaj Spytek, Przemysław Biecek, Clara Cordeiro, Nuno Sepúlveda
BioData Min. 2024; 17: 2. Published online 2024 Jan 25. doi: 10.1186/s13040-024-00354-4
PMCID:
PMC10811867
Abstract Article PDF–2.7M
Revealing third-order interactions through the integration of machine learning and entropy methods in genomic studies
Burcu Yaldız, Onur Erdoğan, Sevda Rafatov, Cem Iyigün, Yeşim Aydın Son
BioData Min. 2024; 17: 3. Published online 2024 Jan 30. doi: 10.1186/s13040-024-00355-3
PMCID:
PMC10826120
Abstract Article PDF–1.0M
m1A-Ensem: accurate identification of 1-methyladenosine sites through ensemble models
Muhammad Taseer Suleman, Fahad Alturise, Tamim Alkhalifah, Yaser Daanial Khan
BioData Min. 2024; 17: 4. Published online 2024 Feb 15. doi: 10.1186/s13040-023-00353-x
PMCID:
PMC10868122
Abstract Article PDF–3.4M
A network-based drug prioritization and combination analysis for the MEK5/ERK5 pathway in breast cancer
Regan Odongo, Asuman Demiroglu-Zergeroglu, Tunahan Çakır
BioData Min. 2024; 17: 5. Published online 2024 Feb 21. doi: 10.1186/s13040-024-00357-1
PMCID:
PMC10880212
Abstract Article PDF–3.2M
Assessment of the causal relationship between gut microbiota and cardiovascular diseases: a bidirectional Mendelian randomization analysis
Xiao-Ce Dai, Yi Yu, Si-Yu Zhou, Shuo Yu, Mei-Xiang Xiang, Hong Ma
BioData Min. 2024; 17: 6. Published online 2024 Feb 26. doi: 10.1186/s13040-024-00356-2
PMCID:
PMC10898129
Abstract Article PDF–1.9M
Interpreting drug synergy in breast cancer with deep learning using target-protein inhibition profiles
Thanyawee Srithanyarat, Kittisak Taoma, Thana Sutthibutpong, Marasri Ruengjitchatchawalya, Monrudee Liangruksa, Teeraphan Laomettachit
BioData Min. 2024; 17: 8. Published online 2024 Feb 29. doi: 10.1186/s13040-024-00359-z
PMCID:
PMC10905801
Abstract Article PDF–2.0M
MOCAT: multi-omics integration with auxiliary classifiers enhanced autoencoder
Xiaohui Yao, Xiaohan Jiang, Haoran Luo, Hong Liang, Xiufen Ye, Yanhui Wei, Shan Cong
BioData Min. 2024; 17: 9. Published online 2024 Mar 5. doi: 10.1186/s13040-024-00360-6
PMCID:
PMC10916109
Abstract Article PDF–2.0M
Evaluation of network-guided random forest for disease gene discovery
Jianchang Hu, Silke Szymczak
BioData Min. 2024; 17: 10. Published online 2024 Apr 16. doi: 10.1186/s13040-024-00361-5
PMCID:
PMC11020917
Abstract Article PDF–1.7M
Decoding dynamic miRNA:ceRNA interactions unveils therapeutic insights and targets across predominant cancer landscapes
Selcen Ari Yuka, Alper Yilmaz
BioData Min. 2024; 17: 11. Published online 2024 Apr 17. doi: 10.1186/s13040-024-00362-4
PMCID:
PMC11022475
Abstract Article PDF–1.6M
Machine-learning-based models to predict cardiovascular risk using oculomics and clinic variables in KNHANES
Yuqi Zhang, Sijin Li, Weijie Wu, Yanqing Zhao, Jintao Han, Chao Tong, Niansang Luo, Kun Zhang
BioData Min. 2024; 17: 12. Published online 2024 Apr 22. doi: 10.1186/s13040-024-00363-3
PMCID:
PMC11034020
Abstract Article PDF–2.7M
The biomedical knowledge graph of symptom phenotype in coronary artery plaque: machine learning-based analysis of real-world clinical data
Jia-Ming Huan, Xiao-Jie Wang, Yuan Li, Shi-Jun Zhang, Yuan-Long Hu, Yun-Lun Li
BioData Min. 2024; 17: 13. Published online 2024 May 21. doi: 10.1186/s13040-024-00365-1
PMCID:
PMC11110203
Abstract Article PDF–4.6M
A machine learning approach using conditional normalizing flow to address extreme class imbalance problems in personal health records
Yeongmin Kim, Wongyung Choi, Woojeong Choi, Grace Ko, Seonggyun Han, Hwan-Cheol Kim, Dokyoon Kim, Dong-gi Lee, Dong Wook Shin, Younghee Lee
BioData Min. 2024; 17: 14. Published online 2024 May 25. doi: 10.1186/s13040-024-00366-0
PMCID:
PMC11127363
Abstract Article PDF–3.7M
Unveiling wearables: exploring the global landscape of biometric applications and vital signs and behavioral impact
Carolina Del-Valle-Soto, Ramon A. Briseño, Leonardo J. Valdivia, Juan Arturo Nolazco-Flores
BioData Min. 2024; 17: 15. Published online 2024 Jun 11. doi: 10.1186/s13040-024-00368-y
PMCID:
PMC11165804
Abstract Article PDF–1.3M
Using GPT-4 to write a scientific review article: a pilot evaluation study
Zhiping Paul Wang, Priyanka Bhandary, Yizhou Wang, Jason H. Moore
BioData Min. 2024; 17: 16. Published online 2024 Jun 18. doi: 10.1186/s13040-024-00371-3
PMCID:
PMC11184879
Abstract Article PDF–4.4M
Saliency-driven explainable deep learning in medical imaging: bridging visual explainability and statistical quantitative analysis
Yusuf Brima, Marcellin Atemkeng
BioData Min. 2024; 17: 18. Published online 2024 Jun 22. doi: 10.1186/s13040-024-00370-4
PMCID:
PMC11193223
Abstract Article PDF–6.8M
Electronic medical records imputation by temporal Generative Adversarial Network
Yunfei Yin, Zheng Yuan, Islam Md Tanvir, Xianjian Bao
BioData Min. 2024; 17: 19. Published online 2024 Jun 26. doi: 10.1186/s13040-024-00372-2
PMCID:
PMC11202349
Abstract Article PDF–2.1M
Identification of immune-associated biomarkers of diabetes nephropathy tubulointerstitial injury based on machine learning: a bioinformatics multi-chip integrated analysis
Lin Wang, Jiaming Su, Zhongjie Liu, Shaowei Ding, Yaotan Li, Baoluo Hou, Yuxin Hu, Zhaoxi Dong, Jingyi Tang, Hongfang Liu, Weijing Liu
BioData Min. 2024; 17: 20. Published online 2024 Jul 1. doi: 10.1186/s13040-024-00369-x
PMCID:
PMC11218417
Abstract Article PDF–7.3M
Transcriptome- and DNA methylation-based cell-type deconvolutions produce similar estimates of differential gene expression and differential methylation
Emily R. Hannon, Carmen J. Marsit, Arlene E. Dent, Paula Embury, Sidney Ogolla, David Midem, Scott M. Williams, James W. Kazura
BioData Min. 2024; 17: 21. Published online 2024 Jul 11. doi: 10.1186/s13040-024-00374-0
PMCID:
PMC11241886
Abstract Article PDF–2.8M
Building RadiologyNET: an unsupervised approach to annotating a large-scale multimodal medical database
Mateja Napravnik, Franko Hržić, Sebastian Tschauner, Ivan Štajduhar
BioData Min. 2024; 17: 22. Published online 2024 Jul 12. doi: 10.1186/s13040-024-00373-1
PMCID:
PMC11245804
Abstract Article PDF–3.1M
Construction and application of medication reminder system: intelligent generation of universal medication schedule
Hangxing Huang, Lu Zhang, Yongyu Yang, Ling Huang, Xikui Lu, Jingyang Li, Huimin Yu, Shuqiao Cheng, Jian Xiao
BioData Min. 2024; 17: 23. Published online 2024 Jul 15. doi: 10.1186/s13040-024-00376-y
PMCID:
PMC11247871
Abstract Article PDF–1.5M
Modelling the nicotine pharmacokinetic profile for e-cigarettes using real time monitoring of consumers’ physiological measurements and mouth level exposure
Krishna Prasad, Allen Griffiths, Kavya Agrawal, Michael McEwan, Flavio Macci, Marco Ghisoni, Matthew Stopher, Matthew Napleton, Joel Strickland, David Keating, Thomas Whitehead, Gareth Conduit, Stacey Murray, Lauren Edward
BioData Min. 2024; 17: 24. Published online 2024 Jul 17. doi: 10.1186/s13040-024-00375-z
PMCID:
PMC11253374
Abstract Article PDF–1.6M
Understanding predictions of drug profiles using explainable machine learning models
Caroline König, Alfredo Vellido
BioData Min. 2024; 17: 25. Published online 2024 Aug 1. doi: 10.1186/s13040-024-00378-w
PMCID:
PMC11293102
Abstract Article PDF–3.4M

Review

Minimization of occurrence of retained surgical items using machine learning and deep learning techniques: a review
Mohammed Abo-Zahhad, Ahmed H. Abd El-Malek, Mohammed S. Sayed, Susan Njeri Gitau
BioData Min. 2024; 17: 17. Published online 2024 Jun 18. doi: 10.1186/s13040-024-00367-z
PMCID:
PMC11184833
Abstract Article PDF–1.7M
Articles from BioData Mining are provided here courtesy of BMC