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Research Square|March 30, 2023
scMultiSim: simulation of multi-modality single cell data guided by cell-cell interactions and gene regulatory networksHechen Li, Ziqi Zhang, Michael Squires, et al.Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|July 8, 2009
Simultaneous class discovery and classification of microarray data using spectral analysisPeng Qiu, Sylvia K PlevritisIEEE Transactions on Bio-Medical Engineering|August 2, 2011
Reconstructing directed signed gene regulatory network from microarray dataPeng Qiu, Sylvia K PlevritisJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|April 24, 2023
Quantifying Cell-Type-Specific Differences of Single-Cell Datasets Using Uniform Manifold Approximation and Projection for Dimension Reduction and Shapley Additive exPlanationsHong Seo Lim, Peng QiuComputer Methods and Programs in Biomedicine|October 6, 2012
TreeVis: a MATLAB-based tool for tree visualizationPeng Qiu, Sylvia K PlevritisPlos Computational Biology|February 28, 2024
Quantifying the clusterness and trajectoriness of single-cell RNA-seq dataHong Seo Lim, Peng QiuMathematical Biosciences and Engineering : MBE|November 9, 2019
The effects of CTL immune response on HIV infection model with potent therapy, latently infected cells and cell-to-cell viral transmissionTing Guo, Zhi Peng QiuPlos Computational Biology|March 16, 2021
JSOM: Jointly-evolving self-organizing maps for alignment of biological datasets and identification of related clustersHong Seo Lim, Peng QiuPhysical Review Letters|September 13, 2014
Model reduction by manifold boundariesMark K Transtrum, Peng QiuBMC Systems Biology|November 23, 2018
Quantifying the relative importance of experimental data points in parameter estimationJenny E Jeong, Peng QiuPageof 40