Author details

Full Name

Mingyao Li

Affiliation

ORCID

Career Start Year

2005

Papers

192

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37422469	Leveraging spatial transcriptomics data to recover cell locations in single-cell RNA-seq with CeLEry.		2023
37589745	Correction: APOE and TREM2 regulate amyloid-responsive microglia in Alzheimer's disease.	Acta Neuropathol	2023
36778447	Benchmarking algorithms for joint integration of unpaired and paired single-cell RNA-seq and ATAC-seq data.	bioRxiv	2023
37029267	SpaDecon: cell-type deconvolution in spatial transcriptomics with semi-supervised learning.		2023
37248301	Pan-cancer T cell atlas links a cellular stress response state to immunotherapy resistance.	Nat Med	2023
36546321	Human Macrophage Long Intergenic Noncoding RNA, <i>SIMALR</i>, Suppresses Inflammatory Macrophage Apoptosis via NTN1 (Netrin-1).	Arterioscler Thromb Vasc Biol	2023
37231264	Integration of multi-modal single-cell data.		2023
37164011	Deciphering tumor ecosystems at super resolution from spatial transcriptomics with TESLA.	Cell Syst	2023
37533101	Human Alzheimer's disease reactive astrocytes exhibit a loss of homeostastic gene expression.		2023
34871816	Enhanced single-cell RNA-seq workflow reveals coronary artery disease cellular cross-talk and candidate drug targets.	Atherosclerosis	2022
35393948	Transient expansion and myofibroblast conversion of adipogenic lineage precursors mediate bone marrow repair after radiation.	JCI insight	2022
36098652	The Single-Cell Immunogenomic Landscape of B and Plasma Cells in Early-Stage Lung Adenocarcinoma.	Cancer Discov	2022
35477756	Î²-Hydroxybutyrate suppresses colorectal cancer.	Nature	2022
36323668	Tempo: an unsupervised Bayesian algorithm for circadian phase inference in single-cell transcriptomics.	Nat Commun	2022
35980155	Omnibus and robust deconvolution scheme for bulk RNA sequencing data integrating multiple single-cell reference sets and prior biological knowledge.		2022
36873621	A multi-use deep learning method for CITE-seq and single-cell RNA-seq data integration with cell surface protein prediction and imputation.	Nat Mach Intell	2022
34599006	Applications of single-cell genomics and computational strategies to study common disease and population-level variation.	Genome Res	2021
33859189	Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets.	Nat Commun	2021
33661921	Detecting cell-type-specific allelic expression imbalance by integrative analysis of bulk and single-cell RNA sequencing data.	PLoS Genetics	2021
33609733	Long-term stable reduction of low-density lipoprotein in nonhuman primates following inÂ vivo genome editing of PCSK9.	Molecular Therapy	2021
34035047	A joint deep learning model enables simultaneous batch effect correction, denoising, and clustering in single-cell transcriptomics.	Genome Res	2021
34140043	LIQA: long-read isoform quantification and analysis.	Genome Biol	2021
34341398	Implication of specific retinal cell-type involvement and gene expression changes in AMD progression using integrative analysis of single-cell and bulk RNA-seq profiling.	Sci Rep	2021
34326208	Thymic stromal lymphopoietin induces adipose loss through sebum hypersecretion.	Science	2021
33301705	The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation.	Cell Metab	2021
33398161	Single-cell dissection of intratumoral heterogeneity and lineage diversity in metastatic gastric adenocarcinoma.	Nat Med	2021
34385711	Mapping the genetic architecture of human traits to cell types in the kidney identifies mechanisms of disease and potential treatments.	Nat Genet	2021
34711970	SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network.	Nat Methods	2021
32502143	Detecting differential alternative splicing events in scRNA-seq with or without Unique Molecular Identifiers.	PLoS Comput Biol	2020
32431172	Single-Cell RNA Sequencing to Dissect the Immunological Network of Autoimmune Myocarditis.	Circulation	2020
32121123	Cognitive Abilities of Dogs with Mucopolysaccharidosis I: Learning and Memory.	Animals	2020
31937769	Rare copy number variants in over 100,000 European ancestry subjects reveal multiple disease associations.	Nat Commun	2020
32393754	Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis.	Nat Commun	2020
32392242	ASEP: Gene-based detection of allele-specific expression across individuals in a population by RNA sequencing.	PLoS Genet	2020
32095520	A mutation-independent CRISPR-Cas9-mediated gene targeting approach to treat a murine model of ornithine transcarbamylase deficiency.	Science advances	2020
33817554	Iterative transfer learning with neural network for clustering and cell type classification in single-cell RNA-seq analysis.	Nat Mach Intell	2020
32656538	Profiling <i>APOL1</i> Nephropathy Risk Variants in Genome-Edited Kidney Organoids with Single-Cell Transcriptomics.	Kidney360	2020
32962412	Single-Cell Genomics Reveals a Novel Cell State During Smooth Muscle Cell Phenotypic Switching and Potential Therapeutic Targets for Atherosclerosis in Mouse and Human.	Circulation	2020
33177182	MicroRNA-mediated inhibition of transgene expression reduces dorsal root ganglion toxicity by AAV vectors in primates.	Science Translational Medicine	2020
32845779	Adeno-Associated Virus-Induced Dorsal Root Ganglion Pathology.	Human Gene Therapy	2020
32840654	APOE and TREM2 regulate amyloid-responsive microglia in Alzheimer's disease.	Acta Neuropathol	2020
30670690	Bulk tissue cell type deconvolution with multi-subject single-cell expression reference.	Nat Commun	2019
31775049	Cell-Type-Specific Complement Expression in the Healthy and Diseased Retina.	Cell Rep	2019
31765413	Adeno-associated virus-mediated expression of human butyrylcholinesterase to treat organophosphate poisoning.	PLoS ONE	2019
31811119	LinkedSV for detection of mosaic structural variants from linked-read exome and genome sequencing data.	Nat Commun	2019
31235787	Pathologic gene network rewiring implicates PPP1R3A as a central regulator in pressure overload heart failure.	Nat Commun	2019
31285522	Childhood sleep duration modifies the polygenic risk for obesity in youth through leptin pathway: the Beijing Child and Adolescent Metabolic Syndrome cohort study.	Int J Obes (Lond)	2019
30975639	CRISPR/Cas9-mediated in vivo gene targeting corrects hemostasis in newborn and adult factor IX-knockout mice.	Blood	2019
29474557	PennDiff: detecting differential alternative splicing and transcription by RNA sequencing.	Bioinformatics	2018
29925637	Interrogation of nonconserved human adipose lincRNAs identifies a regulatory role of <i>linc-ADAL</i> in adipocyte metabolism.	Sci Transl Med	2018