Author: Yun Li

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Preprints

VAMPIRE: A model blood cell trait focused annotation tool for interpretation and prioritization of complex trait genome-wide association study results

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Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression

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The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions

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An epigenetic biomarker of aging for lifespan and healthspan

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Multi-epitope vaccine design using an immunoinformatics approach for 2019 novel coronavirus (SARS-CoV-2)

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SAFE-clustering: Single-cell Aggregated (From Ensemble) Clustering for Single-cell RNA-seq Data

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Trans-ethnic and ancestry-specific blood-cell genetics in 746,667 individuals from 5 global populations

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Using three-dimensional regulatory chromatin interactions from adult and fetal cortex to interpret genetic results for psychiatric disorders and cognitive traits

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The Polygenic and Monogenic Basis of Blood Traits and Diseases

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Large-scale GWAS reveals genetic architecture of brain white matter microstructure and genetic overlap with cognitive and mental health traits (n=17,706)

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3D Epigenomic Characterization Reveals Insights Into Gene Regulation and Lineage Specification During Corticogenesis

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Common DNA sequence variation influences 3-dimensional conformation of the human genome

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SCDC: Bulk Gene Expression Deconvolution by Multiple Single-Cell RNA Sequencing References

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Robust Hi-C chromatin loop maps in human neurogenesis and brain tissues at high-resolution

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The intestinal microbiota programs diurnal rhythms in host metabolism through histone deacetylase 3

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SMNN: Batch Effect Correction for Single-cell RNA-seq data via Supervised Mutual Nearest Neighbor Detection

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MAPS: model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments

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The Big Five, Self-efficacy, and Self-control in Boxers

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A Possible Role Of Microglia In Zika Virus Infection Of The Fetal Human Brain

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MOSTWAS: Multi-Omic Strategies for Transcriptome-Wide Association Studies

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Neuronal and glial 3D chromatin architecture illustrates cellular etiology of brain disorders

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Common genetic variation influencing human white matter microstructure

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GWAS of 19,629 individuals identifies novel genetic variants for regional brain volumes and refines their genetic co-architecture with cognitive and mental health traits

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GWAS of epigenetic ageing rates in blood reveals a critical role for TERT

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Heritability of regional brain volumes in large-scale neuroimaging and genetic studies

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Transcriptome-wide association analysis of 211 neuroimaging traits identifies new genes for brain structures and yields insights into the gene-level pleiotropy with other complex traits

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HUGIn: Hi-C Unifying Genomic Interrogator

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Use of >100,000 NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium whole genome sequences improves imputation quality and detection of rare variant associations in admixed African and Hispanic/Latino populations

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MRLocus: identifying causal genes mediating a trait through Bayesian estimation of allelic heterogeneity

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Multi-SNP Mediation Intersection-Union Test

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SAME-clustering: Single-cell Aggregated Clustering via Mixture Model Ensemble

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TWO-SIGMA: a novel TWO-component SInGle cell Model-based Association method for single-cell RNA-seq data

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Association between ApoE polymorphism and type 2 diabetes: A meta-analysis of 59 studies

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FIREcaller: Detecting Frequently Interacting Regions from Hi-C Data

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Overarching control of autophagy and DNA damage response by CHD6 revealed by modeling a rare human pathology

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SnapHiC: a computational pipeline to map chromatin contacts from single cell Hi-C data

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Methylome-Wide Association Study Of Central Adiposity Implicates Genes Involved In Immune And Endocrine Systems

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Whole genome sequencing association analysis of quantitative red blood cell phenotypes: the NHLBI TOPMed program

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Generation of Cynomolgus Monkeys (Macaca fascicularis) Embryos with ICSI Based on the MII-Stage Oocytes Acquired by Personalized Superovulation Protocol

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Integrative methylome and transcriptome analysis of Japanese flounder (Paralichthys olivaceus) skeletal muscle during development

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Generalized Multi-SNP Mediation Intersection-Union Test

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Characterizing sensitivity and coverage of clinical WGS as a diagnostic test for genetic disorders

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iSMNN: Batch Effect Correction for Single-cell RNA-seq data via Iterative Supervised Mutual Nearest Neighbor Refinement

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THUNDER: A reference-free deconvolution method to infer cell type proportions from bulk Hi-C data

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CUE: CpG impUtation Ensemble for DNA Methylation Levels Across the Human Methylation450 (HM450) and EPIC (HM850) BeadChip Platforms

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HiC-ACT: Improved Detection of Chromatin Interactions from Hi-C Data via Aggregated Cauchy Test

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Genome engineering of Nannochloropsis with large deletions for constructing microalgal minigenomes

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eSCAN: Scan Regulatory Regions for Aggregate Association Testing using Whole Genome Sequencing Data

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HPRep: Quantifying reproducibility in HiChIP and PLAC-seq datasets

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