| It is time to apply biclustering: a comprehensive review of biclustering applications in biological and biomedical data J Xie, A Ma, A Fennell, Q Ma, J Zhao Briefings in bioinformatics 20 (4), 1450-1465, 2019 | 83 | 2019 |
| QUBIC: a bioconductor package for qualitative biclustering analysis of gene co-expression data Y Zhang, J Xie, J Yang, A Fennell, C Zhang, Q Ma Bioinformatics 33 (3), 450-452, 2017 | 66 | 2017 |
| QUBIC2: a novel and robust biclustering algorithm for analyses and interpretation of large-scale RNA-Seq data J Xie, A Ma, Y Zhang, B Liu, S Cao, C Wang, J Xu, C Zhang, Q Ma Bioinformatics 36 (4), 1143-1149, 2020 | 61 | 2020 |
| Total nitrogen concentrations in surface water of typical agro-and forest ecosystems in China, 2004-2009 Z Xu, X Zhang, J Xie, G Yuan, X Tang, X Sun, G Yu PloS one 9 (3), e92850, 2014 | 54 | 2014 |
| A new machine learning-based framework for mapping uncertainty analysis in RNA-Seq read alignment and gene expression estimation A McDermaid, X Chen, Y Zhang, C Wang, S Gu, J Xie, Q Ma Frontiers in Genetics 9, 313, 2018 | 24 | 2018 |
| Transcriptomic response is more sensitive to water deficit in shoots than roots of Vitis riparia (Michx.) VS Khadka, K Vaughn, J Xie, P Swaminathan, Q Ma, GR Cramer, ... BMC plant biology 19, 1-20, 2019 | 23 | 2019 |
| Total phosphorus concentrations in surface water of typical agro-and forest ecosystems in China, 2004–2010 J Xie, X Zhang, Z Xu, G Yuan, X Tang, X Sun, DJ Ballantine Frontiers of environmental science & engineering 8, 561-569, 2014 | 16 | 2014 |
| Specific responses of soil microbial residue carbon to long-term mineral fertilizer applications to reddish paddy soils XY Zhang, XIE Juan, Y Fengting, D Wenyi, DAI Xiaoqin, Y Yang, ... Pedosphere 28 (3), 488-496, 2018 | 11 | 2018 |
| RNA-TVcurve: a Web server for RNA secondary structure comparison based on a multi-scale similarity of its triple vector curve representation Y Li, X Shi, Y Liang, J Xie, Y Zhang, Q Ma BMC bioinformatics 18, 1-11, 2017 | 11 | 2017 |
| Identification of lncRNAs-gene interactions in transcription regulation based on co-expression analysis of RNA-seq data SJ Lu, J Xie, Y Li, B Yu, Q Ma, BQ Liu Math. Biosci. Eng 16, 7112-7125, 2019 | 8 | 2019 |
| Statistical power analysis for designing bulk, single-cell, and spatial transcriptomics experiments: review, tutorial, and perspectives H Jeon, J Xie, Y Jeon, KJ Jung, A Gupta, W Chang, D Chung Biomolecules 13 (2), 221, 2023 | 6 | 2023 |
| GmZPR3d interacts with GmHD-ZIP III proteins and regulates soybean root and nodule vascular development S Damodaran, A Dubois, J Xie, Q Ma, V Hindié, S Subramanian International journal of molecular sciences 20 (4), 827, 2019 | 6 | 2019 |
| GeneQC: A quality control tool for gene expression estimation based on RNA-sequencing reads mapping A McDermaid, X Chen, Y Zhang, J Xie, C Wang, Q Ma BioRxiv, 266445, 2018 | 3 | 2018 |
| LRT: Integrative analysis of scRNA-seq and scTCR-seq data to investigate clonal differentiation heterogeneity J Xie, H Jeon, G Xin, Q Ma, D Chung PLOS Computational Biology 19 (7), e1011300, 2023 | | 2023 |
| Development of Biclustering Techniques for Gene Expression Data Modeling and Mining J Xie South Dakota State University, 2018 | | 2018 |
