Systematic determination of the mitochondrial proportion in human and mice tissues for single-cell RNA-sequencing data quality control von Osorio, Daniel, Cai, James J

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scGEAToolbox: a Matlab toolbox for single-cell RNA sequencing data analysis von Cai, James J

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Order-based structure learning without score equivalence von Chang, Hyunwoong, Cai, James J, Zhou, Quan

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rPanglaoDB: an R package to download and merge labeled single-cell RNA-seq data from the PanglaoDB database von Osorio, Daniel, Kuijjer, Marieke L, Cai, James J

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The lncRNA RZE1 Controls Cryptococcal Morphological Transition von Chacko, Nadia, Zhao, Youbao, Yang, Ence, Wang, Linqi, Cai, James J, Lin, Xiaorong

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Controlled Noise: Evidence of epigenetic regulation of Single-Cell expression variability von Zhong, Yan, Cui, Siwei, Yang, Yongjian, Cai, James J

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Expression profiling of disease progression in canine model of Duchenne muscular dystrophy von Brinkmeyer-Langford, Candice, Chu, Candice, Balog-Alvarez, Cynthia, Yu, Xue, Cai, James J, Nabity, Mary, Kornegay, Joe N

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Genetic variants contribute to gene expression variability in humans von Hulse, Amanda M, Cai, James J

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Correction: Expression profiling of disease progression in canine model of Duchenne muscular dystrophy von Brinkmeyer-Langford, Candice, Chu, Candice, Balog-Alvarez, Cynthia, Yu, Xue, Cai, James J., Nabity, Mary, Kornegay, Joe N.

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Long noncoding RNA MALAT1 regulates generation of reactive oxygen species and the insulin responses in male mice von Chen, Jingshu, Ke, Sui, Zhong, Lei, Wu, Jing, Tseng, Alexander, Morpurgo, Benjamin, Golovko, Andrei, Wang, Gang, Cai, James J., Ma, Xi, Li, Defa, Tian, Yanan

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Commonality in dysregulated expression of gene sets in cortical brains of individuals with autism, schizophrenia, and bipolar disorder von Guan, Jinting, Cai, James J., Ji, Guoli, Sham, Pak Chung

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Aberrant gene expression in humans von Zeng, Yong, Wang, Gang, Yang, Ence, Ji, Guoli, Brinkmeyer-Langford, Candice L, Cai, James J

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Gene function revealed at the moment of sitochastic gene silencing von Gupta, Shreyan, Cai, James J.

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Hepatocyte Adenosine Kinase Promotes Excessive Fat Deposition and Liver Inflammation von Li, Honggui, Zheng, Juan, Xu, Qian, Yang, Yongjian, Zhou, Jing, Guo, Xinlei, Cai, Yongfeng, Cai, James J., Xie, Linglin, Awika, Joseph, Han, Xianlin, Li, Qingsheng, Kennedy, Lindsey, Francis, Heather, Glaser, Shannon, Huo, Yuqing, Alpini, Gianfranco, Wu, Chaodong

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Morphotype transition and sexual reproduction are genetically associated in a ubiquitous environmental pathogen von Wang, Linqi, Tian, Xiuyun, Gyawali, Rachana, Upadhyay, Srijana, Foyle, Dylan, Wang, Gang, Cai, James J, Lin, Xiaorong

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Identification of a copper-responsive small molecule inhibitor of uropathogenic Escherichia coli von Hanson, Braden S, Hailemariam, Amanuel, Yang, Yongjian, Mohamed, Faras, Donati, George L, Baker, Dwight, Sacchettini, James, Cai, James J, Subashchandrabose, Sargurunathan

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Gene knockout inference with variational graph autoencoder learning single-cell gene regulatory networks von Yang, Yongjian, Li, Guanxun, Zhong, Yan, Xu, Qian, Chen, Bo-Jia, Lin, Yu-Te, Chapkin, Robert S, Cai, James J

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Discovering drug–drug interactions: a text-mining and reasoning approach based on properties of drug metabolism von Tari, Luis, Anwar, Saadat, Liang, Shanshan, Cai, James, Baral, Chitta

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Diverse splicing patterns of exonized Alu elements in human tissues von Lin, Lan, Shen, Shihao, Tye, Anne, Cai, James J, Jiang, Peng, Davidson, Beverly L, Xing, Yi

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Quantum gene regulatory networks von Roman-Vicharra, Cristhian, Cai, James J.

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