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Author Details

Andrey Alexeyenko
Karolinska Institutet
2006
43
21
Emma Lundberg (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36533851Protein Profiling in Presymptomatic Individuals Separates Myeloperoxidase-Antineutrophil Cytoplasmic Antibody and Proteinase 3-Antineutrophil Cytoplasmic Antibody Vasculitides.Arthritis Rheumatol2023
36386450Plasma RNA profiling unveils transcriptional signatures associated with resistance to osimertinib in EGFR T790M positive non-small cell lung cancer patients.Transl Lung Cancer Res2022
35650213Robust derivation of transplantable dopamine neurons from human pluripotent stem cells by timed retinoic acid delivery.Nat Commun2022
35662462EviCor: Interactive Web Platform for Exploration of Molecular Features and Response to Anti-cancer Drugs.J Mol Biol2022
35593700Individualized discovery of rare cancer drivers in global network context.Elife2022
32938678A Shh/Gli-driven three-node timer motif controls temporal identity and fate of neural stem cells.Sci Adv2020
30451357Protein profiling of fine-needle aspirates reveals subtype-associated immune signatures and involvement of chemokines in breast cancer.Mol Oncol2019
31842970Protein profiling and network enrichment analysis in individuals before and after the onset of rheumatoid arthritis.Arthritis Res Ther2019
30787419Prediction of response to anti-cancer drugs becomes robust via network integration of molecular data.Sci Rep2019
29667169Expression of scavenger receptor MARCO defines a targetable tumor-associated macrophage subset in non-small cell lung cancer.Int J Cancer2018
30019538A fine-needle aspiration-based protein signature discriminates benign from malignant breast lesions.Mol Oncol2018
29893885EviNet: a web platform for network enrichment analysis with flexible definition of gene sets.Nucleic Acids Res2018
29587383Protein Expression in Tonsillar and Base of Tongue Cancer and in Relation to Human Papillomavirus (HPV) and Clinical Outcome.Int J Mol Sci2018
28977936The regulation of hydroxysteroid 17β-dehydrogenase type 1 and 2 gene expression in breast cancer cell lines by estradiol, dihydrotestosterone, microRNAs, and genes related to breast cancer.Oncotarget2017
28361684NEArender: an R package for functional interpretation of 'omics' data via network enrichment analysis.BMC Bioinformatics2017
28481330Spatially resolved transcriptome profiling in model plant species.Nat Plants2017
28174275RhoA knockout fibroblasts lose tumor-inhibitory capacity in vitro and promote tumor growth in vivo.Proc Natl Acad Sci U S A2017
26672765Genome-wide identification of Wig-1 mRNA targets by RIP-Seq analysis.Oncotarget2016
26081588Confrontation of fibroblasts with cancer cells in vitro: gene network analysis of transcriptome changes and differential capacity to inhibit tumor growth.J Exp Clin Cancer Res2015
26491211Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis.Dis Markers2015
26339613Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.Biomed Res Int2015
24667040An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge.Genome Biol2014
25236784Distinguishing between driver and passenger mutations in individual cancer genomes by network enrichment analysis.BMC Bioinformatics2014
25404301Inhibition of tumor cell proliferation and motility by fibroblasts is both contact and soluble factor dependent.Proc Natl Acad Sci U S A2014
24906298Efficient de novo assembly of large and complex genomes by massively parallel sequencing of Fosmid pools.BMC Genomics2014
23372799Statistical assessment of crosstalk enrichment between gene groups in biological networks.PLoS One2013
23698360The Norway spruce genome sequence and conifer genome evolution.Nature2013
23396516MGclus: network clustering employing shared neighbors.Mol Biosyst2013
22110034Comparative interactomics with Funcoup 2.0.Nucleic Acids Res2012
23319882Network analysis of functional genomics data: application to avian sex-biased gene expression.ScientificWorldJournal2012
22966941Network enrichment analysis: extension of gene-set enrichment analysis to gene networks.BMC Bioinformatics2012
23144729Novel genes and pathways modulated by syndecan-1: implications for the proliferation and cell-cycle regulation of malignant mesothelioma cells.PLoS One2012
23158748Comprehensive analysis of the genome transcriptome and proteome landscapes of three tumor cell lines.Genome Med2012
21297263Genetic association of sequence variants near AGER/NOTCH4 and dementia.J Alzheimers Dis2011
20167577Analysis of lipid pathway genes indicates association of sequence variation near SREBF1/TOM1L2/ATPAF2 with dementia risk.Hum Mol Genet2010
20463971Dynamic zebrafish interactome reveals transcriptional mechanisms of dioxin toxicity.PLoS One2010
20668461Genome-wide pathway analysis implicates intracellular transmembrane protein transport in Alzheimer disease.J Hum Genet2010
19246318Global networks of functional coupling in eukaryotes from comprehensive data integration.Genome Res2009
17850180High-throughput in vivo analysis of gene expression in Caenorhabditis elegans.PLoS Biol2007
17623072Calcyon mRNA expression in the frontal-striatal circuitry and its relationship to vesicular processes and ADHD.Behav Brain Funct2007
16979780Chromosomal clustering of nuclear genes encoding mitochondrial and chloroplast proteins in Arabidopsis.Trends Genet2006
16873526Automatic clustering of orthologs and inparalogs shared by multiple proteomes.Bioinformatics2006
24980400Overview and comparison of ortholog databases.Drug Discov Today Technol2006
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Collaborators

Erik L L Sonnhammer
Stockholm University
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Joakim Lundeberg
KTH Royal Institute of Technology
Co-authored papers 5
Mun-Gwan Hong
KTH Royal Institute of Technology
Co-authored papers 3
Nancy L Pedersen
Co-authored papers 2
Emma Lundberg (CM4AI)
Stanford University
Co-authored papers 2
Yudi Pawitan
Karolinska Institute
Co-authored papers 2
Janne Lehti??
Karolinska Institutet
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Jimmie H??llman
KTH Royal Institute of Technology
Co-authored papers 2
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Stockholm University
Co-authored papers 2
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Broad Institute of Massachusetts Institute of Technology and Harvard
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Harvard Medical School.
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Institute for Systems Biology
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Barry Moore
Utah Center for Genetic Discovery, University of Utah
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Isaac S Kohane
Harvard Medical School
Co-authored papers 1
Matthew S Lebo
Harvard Medical School, Brigham and Women's Hospital
Co-authored papers 1
Peter Freisinger
Hospital Reutlingen
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Filip Mundt
Co-authored papers 1
Val C Sheffield
Carver College of Medicine, University of Iowa
Co-authored papers 1
Pelin Akan
KTH Royal Institute of Technology
Co-authored papers 1
Bruce E Bray
University of Utah School of Medicine
Co-authored papers 1
Shamil R Sunyaev
Harvard Medical School
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Peter White
The Ohio State University
Co-authored papers 1
Michele Cargill
Stanford University School of Medicine
Co-authored papers 1
Karen Eilbeck
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Release 1.2