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BMC Bioinformatics|September 22, 2020
Keeping up with the genomes: efficient learning of our increasing knowledge of the tree of lifeZhengqiao Zhao, Alexandru Cristian, Gail RosenBiology|December 23, 2022
Interpretable and Predictive Deep Neural Network Modeling of the SARS-CoV-2 Spike Protein Sequence to Predict COVID-19 Disease SeverityBahrad A Sokhansanj, Zhengqiao Zhao, Gail L RosenPlos Computational Biology|February 27, 2019
16S rRNA sequence embeddings: Meaningful numeric feature representations of nucleotide sequences that are convenient for downstream analysesStephen Woloszynek, Zhengqiao Zhao, Jian Chen, et al.Biology|October 31, 2020
Amino Acid <i>k</i>-mer Feature Extraction for Quantitative Antimicrobial Resistance (AMR) Prediction by Machine Learning and Model Interpretation for Biological InsightsTaha ValizadehAslani, Zhengqiao Zhao, Bahrad A Sokhansanj, et al.Plos Computational Biology|September 17, 2020
Genetic grouping of SARS-CoV-2 coronavirus sequences using informative subtype markers for pandemic spread visualizationZhengqiao Zhao, Bahrad A Sokhansanj, Charvi Malhotra, et al.Food Chemistry|May 23, 2026
SPIRAL: A probabilistic deep learning framework for Chinese liquor (Baijiu) classification via near-infrared hyperspectral imagingDanlei Chen, Yun Wang, Linruize Tang, et al.Plos Computational Biology|September 22, 2021
Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural networkZhengqiao Zhao, Stephen Woloszynek, Felix Agbavor, et al.Plos One|December 12, 2019
Exploring thematic structure and predicted functionality of 16S rRNA amplicon dataStephen Woloszynek, Joshua Chang Mell, Zhengqiao Zhao, et al.Frontiers in Microbiology|March 7, 2020
Emerging Priorities for Microbiome ResearchChad M Cullen, Kawalpreet K Aneja, Sinem Beyhan, et al.Biorxiv : the Preprint Server for Biology|March 10, 2025
Autophagy Suppresses CCL2 to Preserve Appetite and Prevent Lethal CachexiaMaria Ibrahim, Maria Gomez-Jenkins, Adina Scheinfeld, et al.Pageof 2