Integrative multiomics analysis of human atherosclerosis reveals a serum response factor‐driven network associated with intraplaque hemorrhage

Global and regional prevalence, burden, and risk factors for carotid atherosclerosis: a systematic review, meta-analysis, and modelling study

(2020) Peige Song et al.   Lancet Global Health

DIABLO: an integrative approach for identifying key molecular drivers from multi-omic assays

(2019) Amrit Singh et al.   BIOINFORMATICS

Coronary Disease-Associated Gene TCF21 Inhibits Smooth Muscle Cell Differentiation by Blocking the Myocardin-Serum Response Factor Pathway

(2019) Manabu Nagao et al.   CIRCULATION RESEARCH

Single-Cell RNA-Seq Reveals the Transcriptional Landscape and Heterogeneity of Aortic Macrophages in Murine AtherosclerosisNovelty and Significance

(2018) Clément Cochain et al.   CIRCULATION RESEARCH

Atlas of the Immune Cell Repertoire in Mouse Atherosclerosis Defined by Single-Cell RNA-Sequencing and Mass CytometryNovelty and Significance

(2018) Holger Winkels et al.   CIRCULATION RESEARCH

Altered metabolism distinguishes high-risk from stable carotid atherosclerotic plaques

(2018) Lukas Tomas et al.   EUROPEAN HEART JOURNAL

Differential Gene Expression in Macrophages From Human Atherosclerotic Plaques Shows Convergence on Pathways Implicated by Genome-Wide Association Study Risk Variants

(2018) Joshua T. Chai et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Transcriptome Analysis Reveals Nonfoamy Rather Than Foamy Plaque Macrophages Are Proinflammatory in Atherosclerotic Murine Models

(2018) Kyeongdae Kim et al.   CIRCULATION RESEARCH

Extracellular matrix proteomics identifies molecular signature of symptomatic carotid plaques

(2017) Sarah R. Langley et al.   JOURNAL OF CLINICAL INVESTIGATION

mixOmics: An R package for ‘omics feature selection and multiple data integration

(2017) Florian Rohart et al.   PLoS Computational Biology

More Is Better: Recent Progress in Multi-Omics Data Integration Methods

(2017) Sijia Huang et al.   Frontiers in Genetics

Methods for the integration of multi-omics data: mathematical aspects

(2016) Matteo Bersanelli et al.   BMC BIOINFORMATICS

ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization

(2016) Guangchuang Yu et al.   Molecular BioSystems

SRF Co-factors Control the Balance between Cell Proliferation and Contractility

(2016) Francesco Gualdrini et al.   MOLECULAR CELL

MFAP4 Promotes Vascular Smooth Muscle Migration, Proliferation and Accelerates Neointima Formation

(2015) Anders Schlosser et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Gene expression signatures, pathways and networks in carotid atherosclerosis

(2015) L. Perisic et al.   JOURNAL OF INTERNAL MEDICINE

MKL1/2 and ELK4 co-regulate distinct serum response factor (SRF) transcription programs in macrophages

(2014) Lan Xie   BMC GENOMICS

Data integration in the era of omics: current and future challenges

(2014) David Gomez-Cabrero et al.   BMC Systems Biology

Novel Multivariate Methods for Integration of Genomics and Proteomics Data: Applications in a Kidney Transplant Rejection Study

(2014) Oliver P. Günther et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

iRegulon: From a Gene List to a Gene Regulatory Network Using Large Motif and Track Collections

(2014) Rekin's Janky et al.   PLoS Computational Biology

SRF selectively controls tip cell invasive behavior in angiogenesis

(2013) C. A. Franco et al.   DEVELOPMENT

Identification of two genes potentially associated in iron-heme homeostasis in human carotid plaque using microarray analysis

(2013) Hanène Ayari et al.   JOURNAL OF BIOSCIENCES

Auto-Antigenic Protein-DNA Complexes Stimulate Plasmacytoid Dendritic Cells to Promote Atherosclerosis

(2012) Yvonne Döring et al.   CIRCULATION

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(2012) Lasse Folkersen et al.   MOLECULAR MEDICINE

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Visualising associations between paired ‘omics’ data sets

(2012) Ignacio González et al.   BioData Mining

Integration of expression data in genome-scale metabolic network reconstructions

(2012) Anna S. Blazier et al.   Frontiers in Physiology

Sparse PLS discriminant analysis: biologically relevant feature selection and graphical displays for multiclass problems

(2011) Kim-Anh Lê Cao et al.   BMC BIOINFORMATICS

Intraplaque haemorrhages as the trigger of plaque vulnerability

(2011) J.-B. Michel et al.   EUROPEAN HEART JOURNAL

Progress and challenges in translating the biology of atherosclerosis

(2011) Peter Libby et al.   NATURE

Comparative Analysis of Proteome and Transcriptome Variation in Mouse

(2011) Anatole Ghazalpour et al.   PLoS Genetics

Myeloid Type I Interferon Signaling Promotes Atherosclerosis by Stimulating Macrophage Recruitment to Lesions

(2010) Pieter Goossens et al.   Cell Metabolism

Composition of Carotid Atherosclerotic Plaque Is Associated With Cardiovascular Outcome

(2010) Willem E. Hellings et al.   CIRCULATION

Semi-Targeted Plasma Proteomics Discovery Workflow Utilizing Two-Stage Protein Depletion and Off-Line LC−MALDI MS/MS

(2010) Peter Juhasz et al.   JOURNAL OF PROTEOME RESEARCH

The challenges of integrating multi-omic data sets

(2010) Bernhard Palsson et al.   Nature Chemical Biology

Equivalence testing in microarray analysis: similarities in the transcriptome of human atherosclerotic and nonatherosclerotic macrophages

(2010) Wouter J. Eijgelaar et al.   PHYSIOLOGICAL GENOMICS

Sparse Partial Least Squares Classification for High Dimensional Data

(2010) Dongjun Chung et al.   Statistical Applications in Genetics and Molecular Biology

Local Atherosclerotic Plaques Are a Source of Prognostic Biomarkers for Adverse Cardiovascular Events

(2009) Dominique P.V. de Kleijn et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

The use of network analyses for elucidating mechanisms in cardiovascular disease

(2009) Diego Diez et al.   Molecular BioSystems

Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models

(2008) Simon Rogers et al.   BIOINFORMATICS

Rho/Rho-associated Kinase Signal Regulates Myogenic Differentiation via Myocardin-related Transcription Factor-A/Smad-dependent Transcription of theId3Gene

(2008) Kazuhiro Iwasaki et al.   JOURNAL OF BIOLOGICAL CHEMISTRY