Designing and delivering bioinformatics project-based learning in East Africa
BMC Bioinformatics
by Caleb K. Kibet, Jean-Baka Domelevo Entfellner, Daudi Jjingo, Etienne Pierre de Villiers, Santie de Villiers, Karen Wambui, Sam Kinyanjui and Daniel Masiga
2d ago
The Eastern Africa Network for Bioinformatics Training (EANBiT) has matured through continuous evaluation, feedback, and codesign. We highlight how the program has evolved to meet challenges and achieve its go ..read more
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MultiToxPred 1.0: a novel comprehensive tool for predicting 27 classes of protein toxins using an ensemble machine learning approach
BMC Bioinformatics
by Jorge F. Beltrán, Lisandra Herrera-Belén, Fernanda Parraguez-Contreras, Jorge G. Farías, Jorge Machuca-Sepúlveda and Stefania Short
2d ago
Protein toxins are defense mechanisms and adaptations found in various organisms and microorganisms, and their use in scientific research as therapeutic candidates is gaining relevance due to their effectivene ..read more
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Biomarker discovery with quantum neural networks: a case-study in CTLA4-activation pathways
BMC Bioinformatics
by Phuong-Nam Nguyen
2d ago
Biomarker discovery is a challenging task due to the massive search space. Quantum computing and quantum Artificial Intelligence (quantum AI) can be used to address the computational problem of biomarker disco ..read more
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KEGG orthology prediction of bacterial proteins using natural language processing
BMC Bioinformatics
by Jing Chen, Haoyu Wu and Ning Wang
6d ago
The advent of high-throughput technologies has led to an exponential increase in uncharacterized bacterial protein sequences, surpassing the capacity of manual curation. A large number of bacterial protein seq ..read more
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Control of false discoveries in grouped hypothesis testing for eQTL data
BMC Bioinformatics
by Pratyaydipta Rudra, Yi-Hui Zhou, Andrew Nobel and Fred A. Wright
6d ago
Expression quantitative trait locus (eQTL) analysis aims to detect the genetic variants that influence the expression of one or more genes. Gene-level eQTL testing forms a natural grouped-hypothesis testing st ..read more
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DPI_CDF: druggable protein identifier using cascade deep forest
BMC Bioinformatics
by Muhammad Arif, Ge Fang, Ali Ghulam, Saleh Musleh and Tanvir Alam
1w ago
Drug targets in living beings perform pivotal roles in the discovery of potential drugs. Conventional wet-lab characterization of drug targets is although accurate but generally expensive, slow, and resource i ..read more
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Multiple phenotype association tests based on sliced inverse regression
BMC Bioinformatics
by Wenyuan Sun, Kyongson Jon and Wensheng Zhu
1w ago
Joint analysis of multiple phenotypes in studies of biological systems such as Genome-Wide Association Studies is critical to revealing the functional interactions between various traits and genetic variants ..read more
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CAT-DTI: cross-attention and Transformer network with domain adaptation for drug-target interaction prediction
BMC Bioinformatics
by Xiaoting Zeng, Weilin Chen and Baiying Lei
1w ago
Accurate and efficient prediction of drug-target interaction (DTI) is critical to advance drug development and reduce the cost of drug discovery. Recently, the employment of deep learning methods has enhanced ..read more
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CITEViz: interactively classify cell populations in CITE-Seq via a flow cytometry-like gating workflow using R-Shiny
BMC Bioinformatics
by Garth L. Kong, Thai T. Nguyen, Wesley K. Rosales, Anjali D. Panikar, John H. W. Cheney, Theresa A. Lusardi, William M. Yashar, Brittany M. Curtiss, Sarah A. Carratt, Theodore P. Braun and Julia E. Maxson
1w ago
The rapid advancement of new genomic sequencing technology has enabled the development of multi-omic single-cell sequencing assays. These assays profile multiple modalities in the same cell and can often yield ..read more
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Predicting condensate formation of protein and RNA under various environmental conditions
BMC Bioinformatics
by Ka Yin Chin, Shoichi Ishida, Yukio Sasaki and Kei Terayama
1w ago
Liquid–liquid phase separation (LLPS) by biomolecules plays a central role in various biological phenomena and has garnered significant attention. The behavior of LLPS is strongly influenced by the characteris ..read more
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