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The multiMiR R package and database: integration of microRNA-target interactions along with their disease and drug associations

Nucleic acids research, 2014-09, Vol.42 (17), p.e133-e133

2014

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PathIntegrate: Multivariate modelling approaches for pathway-based multi-omics data integration

PLoS computational biology, 2024-03, Vol.20 (3), p.e1011814

2024

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Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values

Bioinformatics, 2012-11, Vol.28 (22), p.2986-2988

2012

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Multi-omics subtyping pipeline for chronic obstructive pulmonary disease

PloS one, 2021-08, Vol.16 (8), p.e0255337-e0255337

2021

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Aptardi predicts polyadenylation sites in sample-specific transcriptomes using high-throughput RNA sequencing and DNA sequence

Nature communications, 2021-03, Vol.12 (1), p.1652-1652, Article 1652

2021

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Reproducibility of mass spectrometry based metabolomics data

BMC bioinformatics, 2021-09, Vol.22 (1), p.1-423, Article 423

2021

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Smccnet 2.0: a comprehensive tool for multi-omics network inference with shiny visualization

BMC bioinformatics, 2024-08, Vol.25 (1), p.1-23

2024

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A prospective study of associations between in utero exposure to gestational diabetes mellitus and metabolomic profiles during late childhood and adolescence

Diabetologia, 2020-02, Vol.63 (2), p.296-312

2020

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Perfluoroalkyl Substances during Pregnancy and Offspring Weight and Adiposity at Birth: Examining Mediation by Maternal Fasting Glucose in the Healthy Start Study

Environmental health perspectives, 2017-06, Vol.125 (6), p.067016-067016

2017

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TreeKernel: interpretable kernel machine tests for interactions between -omics and clinical predictors with applications to metabolomics and COPD phenotypes

BMC bioinformatics, 2023-10, Vol.24 (1), p.398-398, Article 398

2023

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RCFGL: Rapid Condition adaptive Fused Graphical Lasso and application to modeling brain region co-expression networks

PLoS computational biology, 2023-01, Vol.19 (1), p.e1010758-e1010758

2023

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Mechanism-aware imputation: a two-step approach in handling missing values in metabolomics

BMC bioinformatics, 2022-05, Vol.23 (1), p.179-179, Article 179

2022

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Prenatal exposure to per- and polyfluoroalkyl substances and infant growth and adiposity: the Healthy Start Study

Environment international, 2019-10, Vol.131, p.104983-104983, Article 104983

2019

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Meta-analysis of peripheral blood gene expression modules for COPD phenotypes

PloS one, 2017-10, Vol.12 (10), p.e0185682

2017

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Multiple biomarkers predict disease severity, progression and mortality in COPD

Respiratory research, 2017-06, Vol.18 (1), p.117-117, Article 117

2017

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High-Risk Human Papillomavirus E7 Alters Host DNA Methylome and Represses HLA-E Expression in Human Keratinocytes

Scientific reports, 2017-06, Vol.7 (1), p.3633-13, Article 3633

2017

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Prenatal Exposure to Per- and Polyfluoroalkyl Substances, Umbilical Cord Blood DNA Methylation, and Cardio-Metabolic Indicators in Newborns: The Healthy Start Study

Environmental health perspectives, 2020-12, Vol.128 (12), p.127014

2020

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Sex-Specific Metabolite Biomarkers of NAFLD in Youth: A Prospective Study in the EPOCH Cohort

The journal of clinical endocrinology and metabolism, 2020-09, Vol.105 (9), p.e3437-e3450

2020

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PaIRKAT: A pathway integrated regression-based kernel association test with applications to metabolomics and COPD phenotypes

PLoS computational biology, 2021-10, Vol.17 (10), p.e1008986

2021

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Placental Insulin/IGF-1 Signaling, PGC-1α, and Inflammatory Pathways Are Associated With Metabolic Outcomes at 4-6 Years of Age: The ECHO Healthy Start Cohort

Diabetes (New York, N.Y.), 2021-03, Vol.70 (3), p.745-751

2021

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NetSHy: network summarization via a hybrid approach leveraging topological properties

Bioinformatics (Oxford, England), 2023-01, Vol.39 (1)

2023

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Narrow Band Ultraviolet B Treatment for Human Vitiligo Is Associated with Proliferation, Migration, and Differentiation of Melanocyte Precursors

Journal of investigative dermatology, 2015-08, Vol.135 (8), p.2068-2076

2015

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Deep learning on graphs for multi-omics classification of COPD

PloS one, 2023-04, Vol.18 (4), p.e0284563-e0284563

2023

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Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network

PLoS computational biology, 2018-09, Vol.14 (9), p.e1006436-e1006436

2018

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Insight into genetic regulation of miRNA in mouse brain

BMC genomics, 2019-11, Vol.20 (1), p.849-849, Article 849

2019

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The multiMiR R package and database: integration of microRNA-target interactions along with their disease and drug associations

PathIntegrate: Multivariate modelling approaches for pathway-based multi-omics data integration

Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values

Multi-omics subtyping pipeline for chronic obstructive pulmonary disease

Aptardi predicts polyadenylation sites in sample-specific transcriptomes using high-throughput RNA sequencing and DNA sequence

Reproducibility of mass spectrometry based metabolomics data

Smccnet 2.0: a comprehensive tool for multi-omics network inference with shiny visualization

A prospective study of associations between in utero exposure to gestational diabetes mellitus and metabolomic profiles during late childhood and adolescence

Perfluoroalkyl Substances during Pregnancy and Offspring Weight and Adiposity at Birth: Examining Mediation by Maternal Fasting Glucose in the Healthy Start Study

TreeKernel: interpretable kernel machine tests for interactions between -omics and clinical predictors with applications to metabolomics and COPD phenotypes

RCFGL: Rapid Condition adaptive Fused Graphical Lasso and application to modeling brain region co-expression networks

Mechanism-aware imputation: a two-step approach in handling missing values in metabolomics

Prenatal exposure to per- and polyfluoroalkyl substances and infant growth and adiposity: the Healthy Start Study

Meta-analysis of peripheral blood gene expression modules for COPD phenotypes

Multiple biomarkers predict disease severity, progression and mortality in COPD

High-Risk Human Papillomavirus E7 Alters Host DNA Methylome and Represses HLA-E Expression in Human Keratinocytes

Prenatal Exposure to Per- and Polyfluoroalkyl Substances, Umbilical Cord Blood DNA Methylation, and Cardio-Metabolic Indicators in Newborns: The Healthy Start Study

Sex-Specific Metabolite Biomarkers of NAFLD in Youth: A Prospective Study in the EPOCH Cohort

PaIRKAT: A pathway integrated regression-based kernel association test with applications to metabolomics and COPD phenotypes

Placental Insulin/IGF-1 Signaling, PGC-1α, and Inflammatory Pathways Are Associated With Metabolic Outcomes at 4-6 Years of Age: The ECHO Healthy Start Cohort

NetSHy: network summarization via a hybrid approach leveraging topological properties

Narrow Band Ultraviolet B Treatment for Human Vitiligo Is Associated with Proliferation, Migration, and Differentiation of Melanocyte Precursors

Deep learning on graphs for multi-omics classification of COPD

Condition-adaptive fused graphical lasso (CFGL): An adaptive procedure for inferring condition-specific gene co-expression network

Insight into genetic regulation of miRNA in mouse brain

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