Publications by authors named "Shili Lin"

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Can random walking on a Hi-C contact matrix lead to data quality improvement? An assessment.
Yongqi Liu, Shili Lin

PLoS One· September 2025

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Novel Spatial-Structural-Zero-Aware Dissimilarity Measures for Subtype Discovery Using Single Cell Hi-C Data.
Yongqi Liu, Victor Jin, Shili Lin

bioRxiv· July 2025

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Human alveolar macrophage response to Mycobacterium tuberculosis: immune characteristics underlying large inter-individual variability.
Wolfgang Sadee, Ian H Cheeseman, Audrey Papp, Maciej Pietrzak, Michal Seweryn, Shili Lin

Commun Biol· June 2025

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Can Random Walking on a Hi-C Contact Matrix Lead to Data Quality Improvement? An Assessment.
Yongqi Liu, Shili Lin

bioRxiv· June 2025

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scHiCSRS: a self-representation smoothing method with Gaussian mixture model for imputing single cell Hi-C data.
Qing Xie, Wang Meng, Shili Lin

BMC Bioinformatics· May 2025

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Integration of scHi-C and scRNA-seq data defines distinct 3D-regulated and biological-context dependent cell subpopulations.
Yufan Zhou, Tian Li, Lavanya Choppavarapu, Kun Fang, Shili Lin

Nat Commun· September 2024

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An adaptive and robust method for multi-trait analysis of genome-wide association studies using summary statistics.
Qiaolan Deng, Chi Song, Shili Lin

Eur J Hum Genet· June 2024

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Risk Stratification in Pulmonary Arterial Hypertension: Perhaps Simple Is Not Best?
Charles Fauvel, R James White, Rebecca R Vanderpool, Roberto Badagliacca, Tobore Tobore, Shili Lin

Chest· February 2024

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An in silico procedure for generating protein-mediated chromatin interaction data and comparison of significant interaction calling methods.
Shuyuan Lou, Shili Lin

PLoS One· January 2024

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Bayesian LASSO for population stratification correction in rare haplotype association studies.
Zilu Liu, Asuman Seda Turkmen, Shili Lin

Stat Appl Genet Mol Biol· January 2024

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Sparse estimation in semiparametric finite mixture of varying coefficient regression models.
Abbas Khalili, Farhad Shokoohi, Masoud Asgharian, Shili Lin

Biometrics· December 2023

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Do Patients With Low-Risk Pulmonary Arterial Hypertension Really Benefit From Upfront Combination Therapy?: Insight From the AMBITION Trial.
Charles Fauvel, Yongqi Liu, Priscilla Correa-Jaque, Manreet K Kanwar, Carmine Dario Vizza, Shili Lin

Chest· December 2023

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Methane prediction equations including genera of rumen bacteria as predictor variables improve prediction accuracy.
Boyang Zhang, Shili Lin, Luis Moraes, Jeffrey Firkins, Alexander N Hristov

Sci Rep· December 2023

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Population stratification correction using Bayesian shrinkage priors for genetic association studies.
Zilu Liu, Asuman S Turkmen, Shili Lin

Ann Hum Genet· November 2023

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Human alveolar macrophage response to Mycobacterium tuberculosis: immune characteristics underlying large inter-individual variability.
Wolfgang Sadee, Ian H Cheeseman, Audrey Papp, Maciej Pietrzak, Michal Seweryn, Shili Lin

Res Sq· June 2023

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HiCImpute: A Bayesian hierarchical model for identifying structural zeros and enhancing single cell Hi-C data.
Qing Xie, Chenggong Han, Victor Jin, Shili Lin

PLoS Comput Biol· June 2022

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BCurve: Bayesian Curve Credible Bands Approach for the Detection of Differentially Methylated Regions.
Chenggong Han, Jincheol Park, Shili Lin

Methods Mol Biol· May 2022

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An Adaptive and Robust Test for Microbial Community Analysis.
Qingyu Chen, Shili Lin, Chi Song

Front Genet· May 2022

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Are dropout imputation methods for scRNA-seq effective for scHi-C data?
Chenggong Han, Qing Xie, Shili Lin

Brief Bioinform· July 2021

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Detecting X-linked common and rare variant effects in family-based sequencing studies.
Asuman S Turkmen, Shili Lin

Genet Epidemiol· February 2021

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Detecting rare haplotypes associated with complex diseases using both population and family data: Combined logistic Bayesian Lasso.
Xiaofei Zhou, Meng Wang, Shili Lin

Stat Methods Med Res· November 2020

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The Association of ARMC5 with the Renin-Angiotensin-Aldosterone System, Blood Pressure, and Glycemia in African Americans.
Joshua J Joseph, Xiaofei Zhou, Mihail Zilbermint, Constantine A Stratakis, Fabio R Faucz, Shili Lin

J Clin Endocrinol Metab· August 2020

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Characterization of histone modification patterns and prediction of novel promoters using functional principal component analysis.
Mijeong Kim, Shili Lin

PLoS One· August 2020

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Modeling and analysis of Hi-C data by HiSIF identifies characteristic promoter-distal loops.
Yufan Zhou, Xiaolong Cheng, Yini Yang, Tian Li, Jingwei Li, Shili Lin

Genome Med· August 2020

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Author Correction: Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance.
Yufan Zhou, Diana L Gerrard, Junbai Wang, Tian Li, Yini Yang, Shili Lin

Nat Commun· April 2020

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