Author

Liang Huang

Oregon State UniversityORCID 0000-0001-6444-7045Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Research Focus:gene regulatory network inference· 2 Assay:long-read sequencing· 2 Research Focus:variant calling· 2 Research Focus:benchmarking· 1 Research Focus:database / resource· 1 Approach:deep learning· 1 Approach:experimental assay· 1

Frequent Co-Authors

He ZhangiD· 4 shared David H. MathewsiD· 3 shared Liang ZhangiD· 3 shared Boxiang LiuiD· 2 shared David A. HendrixiD· 2 shared Dezhong Deng· 2 shared Kaibo LiuiD· 2 shared Sizhen LiiD· 2 shared

Activity by Year

2018-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 22 mutual co-author links

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4 shared papersBioinformatics

He ZhangORCID

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Author profile →

6 papers

Recent·Most cited

LazySampling and LinearSampling: Fast Stochastic Sampling of RNA Secondary Structure with Applications to SARS-CoV-2

He Zhang, Sizhen Li, Liang Zhang, David H. Mathews, Liang Huang

The paper introduces LazySampling and LinearSampling algorithms for fast RNA secondary structure sampling, achieving linear-time performance and enabling analysis of full-genome RNA structures like SARS-CoV-2.

Nucleic Acids Research · Oct 21, 2022Peer-reviewedBioinformatics

LinearTurboFold: Linear-Time Global Prediction of Conserved Structures for RNA Homologs with Applications to SARS-CoV-2

Sizhen Li, He Zhang, Liang Zhang, Kaibo Liu, Boxiang Liu, David H. Mathews, Liang Huang

LinearTurboFold predicts conserved RNA structures for SARS-CoV-2 homologs efficiently, capturing long-range interactions and enabling global structural analysis of full-length genomes.

Proceedings of the National Academy of Sciences · Dec 9, 2021Peer-reviewedBioinformatics

CoV-Seq: SARS-CoV-2 Genome Analysis and Visualization

Boxiang Liu, Kaibo Liu, He Zhang, Liang Zhang, Yuchen Bian, Liang Huang

CoV-Seq provides a webserver and command-line tool for rapid analysis and visualization of SARS-CoV-2 genomes, automatically predicting gene boundaries and identifying variants.

Journal of Medical Internet Research · Sep 3, 2020Peer-reviewedBioinformatics

Learning to Fold RNAs in Linear Time

F A Rezaur Rahman Chowdhury, He Zhang, Liang Huang

The paper introduces a linear-time machine learning-based RNA folding system that improves accuracy and training speed compared to existing methods.

bioRxiv · Nov 24, 2019 · PreprintBioinformatics

bpRNA: Large-scale Automated Annotation and Analysis of RNA Secondary Structure

Padideh Danaee, Mason N. Rouches, Michelle W. Wiley, Dezhong Deng, Liang Huang, David A. Hendrix

The paper introduces bpRNA, a tool for annotating RNA secondary structures, and presents a large database of annotated structures for improving structure prediction and analysis.

Nucleic Acids Research · Apr 11, 2018Peer-reviewedBioinformatics

LinearFold: Linear-Time Prediction of RNA Secondary Structures

Dezhong Deng, Kai Zhao, David A. Hendrix, David H. Mathews, Liang Huang

LinearFold predicts RNA secondary structures in linear time using dynamic programming with beam search pruning, achieving higher accuracy on long sequences and long-range base pairs.

bioRxiv · Feb 14, 2018 · PreprintBioinformatics