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Tissue dual RNA-seq allows fast discovery of infection-specific functions and riboregulators shaping host–pathogen transcriptomes

Proceedings of the National Academy of Sciences - PNAS, 2017-01, Vol.114 (5), p.E791-E800

2017

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Transcriptomic profiling of Yersinia pseudotuberculosis reveals reprogramming of the Crp regulon by temperature and uncovers Crp as a master regulator of small RNAs

PLoS genetics, 2015-03, Vol.11 (3), p.e1005087-e1005087

2015

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Neonatally imprinted stromal cell subsets induce tolerogenic dendritic cells in mesenteric lymph nodes

Nature communications, 2018-09, Vol.9 (1), p.3903-14, Article 3903

2018

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Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis

PLoS pathogens, 2015-01, Vol.11 (1), p.e1004600-e1004600

2015

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The alarmones (p)ppGpp are part of the heat shock response of Bacillus subtilis

PLoS genetics, 2020-03, Vol.16 (3), p.e1008275-e1008275

2020

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Fast index based algorithms and software for matching position specific scoring matrices

BMC bioinformatics, 2006-08, Vol.7 (1), p.389-389, Article 389

2006

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Postnatal expansion of mesenteric lymph node stromal cells towards reticular and CD34 + stromal cell subsets

Nature communications, 2022-11, Vol.13 (1), p.7227-7227, Article 7227

2022

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Alloantigen-Induced Regulatory T Cells Generated in Presence of Vitamin C Display Enhanced Stability of Foxp3 Expression and Promote Skin Allograft Acceptance

Frontiers in immunology, 2017-06, Vol.8, p.748-748

2017

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The thymic microenvironment gradually modulates the phenotype of thymus‐homing peripheral conventional dendritic cells

Immunity, Inflammation and Disease, 2022-02, Vol.10 (2), p.175-188

2022

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Multiple Occurrences of a 168-Nucleotide Deletion in SARS-CoV-2 ORF8, Unnoticed by Standard Amplicon Sequencing and Variant Calling Pipelines

Viruses, 2021-09, Vol.13 (9), p.1870

2021

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Structator: fast index-based search for RNA sequence-structure patterns

BMC bioinformatics, 2011-05, Vol.12 (1), p.214-214, Article 214

2011

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Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics

Microorganisms (Basel), 2023-09, Vol.11 (10), p.2412

2023

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Loss of CNFY toxin-induced inflammation drives Yersinia pseudotuberculosis into persistency

PLoS pathogens, 2018-02, Vol.14 (2), p.e1006858

2018

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Bursts in biosynthetic gene cluster transcription are accompanied by surges of natural compound production in the myxobacterium Sorangium sp

Microbial biotechnology, 2023-05, Vol.16 (5), p.1054-1068

2023

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Adaptation to Photooxidative Stress: Common and Special Strategies of the Alphaproteobacteria Rhodobacter sphaeroides and Rhodobacter capsulatus

Microorganisms (Basel), 2020-02, Vol.8 (2), p.283

2020

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Single-cell transcriptional profiling of splenic fibroblasts reveals subset-specific innate immune signatures in homeostasis and during viral infection

Communications biology, 2021-12, Vol.4 (1), p.1355-1355, Article 1355

2021

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Impact of process temperature and organic loading rate on cellulolytic / hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics

Environmental microbiome, 2020-03, Vol.15 (1), p.7-7, Article 7

2020

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Comparative Transcriptomic Profiling of Yersinia enterocolitica O:3 and O:8 Reveals Major Expression Differences of Fitness- and Virulence-Relevant Genes Indicating Ecological Separation

mSystems, 2019-03, Vol.4 (2)

2019

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Lymph node stromal cells support the maturation of pre‐DCs into cDC‐like cells via colony‐stimulating factor 1

Immunology, 2022-08, Vol.166 (4), p.475-491

2022

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Transcriptome analysis following neurotropic virus infection reveals faulty innate immunity and delayed antigen presentation in mice susceptible to virus‐induced demyelination

Brain pathology (Zurich, Switzerland), 2021-11, Vol.31 (6), p.e13000-n/a

2021

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Metabolome and transcriptome-wide effects of the carbon storage regulator A in enteropathogenic Escherichia coli

Scientific reports, 2019-01, Vol.9 (1), p.138-138, Article 138

2019

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maize Single myb histone 1 gene, Smh1, belongs to a novel gene family encodes a protein that binds telomere DNA repeats in vitro

Plant physiology (Bethesda), 2003-11, Vol.133 (3), p.1336-1350

2003

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CASSys: an integrated software-system for the interactive analysis of ChIP-seq data

Journal of integrative bioinformatics, 2011-06, Vol.8 (2), p.1-13

2011

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Profiling of epigenetic marker regions in murine ILCs under homeostatic and inflammatory conditions

The Journal of experimental medicine, 2022-10, Vol.219 (10)

2022

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Mesenteric lymph node stromal cell‐derived extracellular vesicles contribute to peripheral de novo induction of Foxp3+ regulatory T cells

European journal of immunology, 2017-12, Vol.47 (12), p.2142-2152

2017

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Tissue dual RNA-seq allows fast discovery of infection-specific functions and riboregulators shaping host–pathogen transcriptomes

Transcriptomic profiling of Yersinia pseudotuberculosis reveals reprogramming of the Crp regulon by temperature and uncovers Crp as a master regulator of small RNAs

Neonatally imprinted stromal cell subsets induce tolerogenic dendritic cells in mesenteric lymph nodes

Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis

The alarmones (p)ppGpp are part of the heat shock response of Bacillus subtilis

Fast index based algorithms and software for matching position specific scoring matrices

Postnatal expansion of mesenteric lymph node stromal cells towards reticular and CD34 + stromal cell subsets

Alloantigen-Induced Regulatory T Cells Generated in Presence of Vitamin C Display Enhanced Stability of Foxp3 Expression and Promote Skin Allograft Acceptance

The thymic microenvironment gradually modulates the phenotype of thymus‐homing peripheral conventional dendritic cells

Multiple Occurrences of a 168-Nucleotide Deletion in SARS-CoV-2 ORF8, Unnoticed by Standard Amplicon Sequencing and Variant Calling Pipelines

Structator: fast index-based search for RNA sequence-structure patterns

Uncovering Microbiome Adaptations in a Full-Scale Biogas Plant: Insights from MAG-Centric Metagenomics and Metaproteomics

Loss of CNFY toxin-induced inflammation drives Yersinia pseudotuberculosis into persistency

Bursts in biosynthetic gene cluster transcription are accompanied by surges of natural compound production in the myxobacterium Sorangium sp

Adaptation to Photooxidative Stress: Common and Special Strategies of the Alphaproteobacteria Rhodobacter sphaeroides and Rhodobacter capsulatus

Single-cell transcriptional profiling of splenic fibroblasts reveals subset-specific innate immune signatures in homeostasis and during viral infection

Impact of process temperature and organic loading rate on cellulolytic / hydrolytic biofilm microbiomes during biomethanation of ryegrass silage revealed by genome-centered metagenomics and metatranscriptomics

Comparative Transcriptomic Profiling of Yersinia enterocolitica O:3 and O:8 Reveals Major Expression Differences of Fitness- and Virulence-Relevant Genes Indicating Ecological Separation

Lymph node stromal cells support the maturation of pre‐DCs into cDC‐like cells via colony‐stimulating factor 1

Transcriptome analysis following neurotropic virus infection reveals faulty innate immunity and delayed antigen presentation in mice susceptible to virus‐induced demyelination

Metabolome and transcriptome-wide effects of the carbon storage regulator A in enteropathogenic Escherichia coli

maize Single myb histone 1 gene, Smh1, belongs to a novel gene family encodes a protein that binds telomere DNA repeats in vitro

CASSys: an integrated software-system for the interactive analysis of ChIP-seq data

Profiling of epigenetic marker regions in murine ILCs under homeostatic and inflammatory conditions

Mesenteric lymph node stromal cell‐derived extracellular vesicles contribute to peripheral de novo induction of Foxp3+ regulatory T cells

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