Publications by authors named "Shaoke Lou"

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College Community-Based Physical Activity Support at a Public University During the COVID-19 Pandemic: Retrospective Longitudinal Analysis of Intra- Versus Interpersonal Components for Uptake and Outcome Association.
Garrett I Ash, Selene S Mak, Adrian D Haughton, Madilyn Augustine, Phillip O Bodurtha, Shaoke Lou

JMIR Mhealth Uhealth· June 2025

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Digital phenotyping from wearables using AI characterizes psychiatric disorders and identifies genetic associations.
Jason J Liu, Beatrice Borsari, Yunyang Li, Susanna X Liu, Yuan Gao, Shaoke Lou

Cell· January 2025

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Digital phenotyping from wearables using AI characterizes psychiatric disorders and identifies genetic associations.
Jason J Liu, Beatrice Borsari, Yunyang Li, Susanna Liu, Yuan Gao, Shaoke Lou

medRxiv· October 2024

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Single-cell genomics and regulatory networks for 388 human brains.
Prashant S Emani, Jason J Liu, Declan Clarke, Matthew Jensen, Jonathan Warrell, Shaoke Lou

Science· May 2024

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Single-cell genomics and regulatory networks for 388 human brains.
Prashant S Emani, Jason J Liu, Declan Clarke, Matthew Jensen, Jonathan Warrell, Shaoke Lou

bioRxiv· March 2024

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Constructing a full, multiple-layer interactome for SARS-CoV-2 in the context of lung disease: Linking the virus with human genes and microbes.
Shaoke Lou, Mingjun Yang, Tianxiao Li, Weihao Zhao, Hannah Cevasco

PLoS Comput Biol· July 2023

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Gene Tracer: a smart, interactive, voice-controlled Alexa skill For gene information retrieval and browsing, mutation annotation and network visualization.
Shaoke Lou, Tianxiao Li, Jason Liu, Mark Gerstein

Bioinformatics· September 2021

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Bayesian structural time series for biomedical sensor data: A flexible modeling framework for evaluating interventions.
Jason Liu, Daniel J Spakowicz, Garrett I Ash, Rebecca Hoyd, Rohan Ahluwalia, Shaoke Lou

PLoS Comput Biol· August 2021

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Latent-space embedding of expression data identifies gene signatures from sputum samples of asthmatic patients.
Shaoke Lou, Tianxiao Li, Daniel Spakowicz, Xiting Yan, Geoffrey Lowell Chupp

BMC Bioinformatics· October 2020

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DiNeR: a Differential graphical model for analysis of co-regulation Network Rewiring.
Jing Zhang, Jason Liu, Donghoon Lee, Shaoke Lou, Zhanlin Chen

BMC Bioinformatics· July 2020

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TopicNet: a framework for measuring transcriptional regulatory network change.
Shaoke Lou, Tianxiao Li, Xiangmeng Kong, Jing Zhang, Jason Liu

Bioinformatics· July 2020

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RADAR: annotation and prioritization of variants in the post-transcriptional regulome of RNA-binding proteins.
Jing Zhang, Jason Liu, Donghoon Lee, Jo-Jo Feng, Lucas Lochovsky, Shaoke Lou

Genome Biol· July 2020

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An integrative ENCODE resource for cancer genomics.
Jing Zhang, Donghoon Lee, Vineet Dhiman, Peng Jiang, Jie Xu, Shaoke Lou

Nat Commun· July 2020

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Approaches for integrating heterogeneous RNA-seq data reveal cross-talk between microbes and genes in asthmatic patients.
Daniel Spakowicz, Shaoke Lou, Brian Barron, Jose L Gomez, Tianxiao Li

Genome Biol· June 2020

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Passenger Mutations in More Than 2,500 Cancer Genomes: Overall Molecular Functional Impact and Consequences.
Sushant Kumar, Jonathan Warrell, Shantao Li, Patrick D McGillivray, William Meyerson, Shaoke Lou

Cell· March 2020

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Building a Hybrid Physical-Statistical Classifier for Predicting the Effect of Variants Related to Protein-Drug Interactions.
Bo Wang, Chengfei Yan, Shaoke Lou, Prashant Emani, Bian Li

Structure· September 2019

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GRAM: A GeneRAlized Model to predict the molecular effect of a non-coding variant in a cell-type specific manner.
Shaoke Lou, Kellie A Cotter, Tianxiao Li, Jin Liang, Hussein Mohsen

PLoS Genet· August 2019

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Comprehensive functional genomic resource and integrative model for the human brain.
Daifeng Wang, Shuang Liu, Jonathan Warrell, Hyejung Won, Xu Shi, Shaoke Lou

Science· December 2018

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MrTADFinder: A network modularity based approach to identify topologically associating domains in multiple resolutions.
Koon-Kiu Yan, Shaoke Lou, Mark Gerstein

PLoS Comput Biol· July 2017

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Integrative Genomic Analyses Yield Cell-Cycle Regulatory Programs with Prognostic Value.
Chao Cheng, Shaoke Lou, Erik H Andrews, Matthew H Ung, Frederick S Varn

Mol Cancer Res· April 2016

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Erratum to: The real cost of sequencing: scaling computation to keep pace with data generation.
Paul Muir, Shantao Li, Shaoke Lou, Daifeng Wang, Daniel J Spakowicz

Genome Biol· April 2016

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The real cost of sequencing: scaling computation to keep pace with data generation.
Paul Muir, Shantao Li, Shaoke Lou, Daifeng Wang, Daniel J Spakowicz

Genome Biol· March 2016

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FunSeq2: a framework for prioritizing noncoding regulatory variants in cancer.
Yao Fu, Zhu Liu, Shaoke Lou, Jason Bedford, Xinmeng Jasmine Mu

Genome Biol· October 2015

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Regulators associated with clinical outcomes revealed by DNA methylation data in breast cancer.
Matthew H Ung, Frederick S Varn, Shaoke Lou, Chao Cheng

PLoS Comput Biol· May 2015

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Whole-genome bisulfite sequencing of multiple individuals reveals complementary roles of promoter and gene body methylation in transcriptional regulation.
Shaoke Lou, Heung-Man Lee, Hao Qin, Jing-Woei Li, Zhibo Gao

Genome Biol· July 2014

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