Bulk tissue cell type deconvolution with multi-subject single-cell expression reference von Wang, Xuran, Park, Jihwan, Susztak, Katalin, Zhang, Nancy R., Li, Mingyao

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SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network von Hu, Jian, Li, Xiangjie, Coleman, Kyle, Schroeder, Amelia, Ma, Nan, Irwin, David J., Lee, Edward B., Shinohara, Russell T., Li, Mingyao

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Analysing biological pathways in genome-wide association studies von Hakonarson, Hakon, Wang, Kai, Li, Mingyao

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Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis von Li, Xiangjie, Wang, Kui, Lyu, Yafei, Pan, Huize, Zhang, Jingxiao, Stambolian, Dwight, Susztak, Katalin, Reilly, Muredach P., Hu, Gang, Li, Mingyao

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Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease von Park, Jihwan, Shrestha, Rojesh, Qiu, Chengxiang, Kondo, Ayano, Huang, Shizheng, Werth, Max, Li, Mingyao, Barasch, Jonathan, Suszták, Katalin

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Pathway-Based Approaches for Analysis of Genomewide Association Studies von Wang, Kai, Li, Mingyao, Bucan, Maja

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SCALE: modeling allele-specific gene expression by single-cell RNA sequencing von Jiang, Yuchao, Zhang, Nancy R, Li, Mingyao

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Detecting cell-type-specific allelic expression imbalance by integrative analysis of bulk and single-cell RNA sequencing data von Fan, Jiaxin, Wang, Xuran, Xiao, Rui, Li, Mingyao

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Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human von Pan, Huize, Xue, Chenyi, Auerbach, Benjamin J., Fan, Jiaxin, Bashore, Alexander C., Cui, Jian, Yang, Dina Y., Trignano, Sarah B., Liu, Wen, Shi, Jianting, Ihuegbu, Chinyere O., Bush, Erin C., Worley, Jeremy, Vlahos, Lukas, Laise, Pasquale, Solomon, Robert A., Connolly, Edward S., Califano, Andrea, Sims, Peter A., Zhang, Hanrui, Li, Mingyao, Reilly, Muredach P.

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LIQA: long-read isoform quantification and analysis von Hu, Yu, Fang, Li, Chen, Xuelian, Zhong, Jiang F., Li, Mingyao, Wang, Kai

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Detecting differential alternative splicing events in scRNA-seq with or without Unique Molecular Identifiers von Hu, Yu, Wang, Kai, Li, Mingyao

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Single-cell sequencing reveals lineage-specific dynamic genetic regulation of gene expression during human cardiomyocyte differentiation von Elorbany, Reem, Popp, Joshua M, Rhodes, Katherine, Strober, Benjamin J, Barr, Kenneth, Qi, Guanghao, Gilad, Yoav, Battle, Alexis

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Adeno-Associated Virus-Induced Dorsal Root Ganglion Pathology von Hordeaux, Juliette, Buza, Elizabeth L., Dyer, Cecilia, Goode, Tamara, Mitchell, Thomas W., Richman, Laura, Denton, Nathan, Hinderer, Christian, Katz, Nathan, Schmid, Ralf, Miller, Rod, Choudhury, Gourav R., Horiuchi, Makoto, Nambiar, Kalyani, Yan, Hanying, Li, Mingyao, Wilson, James M.

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Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets von Miao, Zhen, Balzer, Michael S., Ma, Ziyuan, Liu, Hongbo, Wu, Junnan, Shrestha, Rojesh, Aranyi, Tamas, Kwan, Amy, Kondo, Ayano, Pontoglio, Marco, Kim, Junhyong, Li, Mingyao, Kaestner, Klaus H., Susztak, Katalin

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Study of the damage and cracking of heterogeneous rocks based on the FFT method - A comparison of computer generation and image reconstruction models von Peng, Lei, Li, Mingyao, Wang, Zhimin, Zuo, Jianping, Liu, Dejun

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Image harmonization: A review of statistical and deep learning methods for removing batch effects and evaluation metrics for effective harmonization von Hu, Fengling, Chen, Andrew A., Horng, Hannah, Bashyam, Vishnu, Davatzikos, Christos, Alexander-Bloch, Aaron, Li, Mingyao, Shou, Haochang, Satterthwaite, Theodore D., Yu, Meichen, Shinohara, Russell T.

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The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation von Dhillon, Poonam, Park, Jihwan, Hurtado del Pozo, Carmen, Li, Lingzhi, Doke, Tomohito, Huang, Shizheng, Zhao, Juanjuan, Kang, Hyun Mi, Shrestra, Rojesh, Balzer, Michael S., Chatterjee, Shatakshee, Prado, Patricia, Han, Seung Yub, Liu, Hongbo, Sheng, Xin, Dierickx, Pieterjan, Batmanov, Kirill, Romero, Juan P., Prósper, Felipe, Li, Mingyao, Pei, Liming, Kim, Junhyong, Montserrat, Nuria, Susztak, Katalin

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Cell type-specific weighting-factors to solve solid organs-specific limitations of single cell RNA-sequencing von Tejima, Kengo, Kozawa, Satoshi, Sato, Thomas N.

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Widespread RNA and DNA Sequence Differences in the Human Transcriptome von Li, Mingyao, Wang, Isabel X., Li, Yun, Bruzel, Alan, Richards, Allison L., Toung, Jonathan M., Cheung, Vivian G.

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CDK1 serves as a potential prognostic biomarker and target for lung cancer von Li, Mingyao, He, Fenyi, Zhang, Zhanchun, Xiang, Zhenfei, Hu, Danfei

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