List of works - Yutaro Kumagai

A Corynebacterium glutamicum rnhA recG double mutant showing lysozyme-sensitivity, temperature-sensitive growth, and UV-sensitivity

scientific article

A Multiomics Atlas of Brown Adipose Tissue Development Over Time

scientific article published in 2023

A Parzen window-based approach for the detection of locally enriched transcription factor binding sites.

scientific article

A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

scientific article

A novel unbiased measure for motif co-occurrence predicts combinatorial regulation of transcription ⬇️

scientific article published on December 13, 2012

Alveolar macrophage-derived type I interferons orchestrate innate immunity to RSV through recruitment of antiviral monocytes

scientific article published on 20 April 2015

Alveolar macrophages are the primary interferon-alpha producer in pulmonary infection with RNA viruses.

scientific article published in August 2007

Analysis of changes in transcription start site distribution by a classification approach

scientific article published on 31 December 2013

Blockade of TLR3 protects mice from lethal radiation-induced gastrointestinal syndrome

scientific article published on 18 March 2014

Bone-protective Functions of Netrin 1 Protein.

scientific article

Detection of pathogenic intestinal bacteria by Toll-like receptor 5 on intestinal CD11c+ lamina propria cells.

scientific article published on 9 July 2006

Double-stranded RNA of intestinal commensal but not pathogenic bacteria triggers production of protective interferon-β.

scientific article published on 20 June 2013

Eosinophil depletion suppresses radiation-induced small intestinal fibrosis.

scientific article published in February 2018

Estimation of diffusion constants from single molecular measurement without explicit tracking.

scientific article

Fluorescent phospholipid analogs as microscopic probes for detection of the mycolic acid-containing layer in Corynebacterium glutamicum: detecting alterations in the mycolic acid-containing layer following ethambutol treatment

scientific article published in November 2005

Functional characterization of protein domains common to animal viruses and mouse.

scientific article

Genetic analysis of capsular polysaccharide synthesis gene clusters from all serotypes of Streptococcus suis: potential mechanisms for generation of capsular variation

scientific article published on 15 February 2013

Genome-wide map of RNA degradation kinetics patterns in dendritic cells after LPS stimulation facilitates identification of primary sequence and secondary structure motifs in mRNAs.

scientific article

IL-1α modulates neutrophil recruitment in chronic inflammation induced by hydrocarbon oil

scientific article published on 29 December 2010

Interferon response factors 3 and 7 protect against Chikungunya virus hemorrhagic fever and shock

scientific article

Intracellular Protein-Labeling Probes for Multicolor Single-Molecule Imaging of Immune Receptor-Adaptor Molecular Dynamics

scientific article published on 9 November 2017

Involvement of the NLRP3 Inflammasome in Innate and Humoral Adaptive Immune Responses to Fungal -Glucan

article

IκBζ is essential for natural killer cell activation in response to IL-12 and IL-18.

scientific article

LGP2 is a positive regulator of RIG-I- and MDA5-mediated antiviral responses

scientific article

Laser-targeted photofabrication of gold nanoparticles inside cells.

scientific article

Linking transcriptional changes over time in stimulated dendritic cells to identify gene networks activated during the innate immune response

scientific article

Microarray analysis identifies apoptosis regulatory gene expression in HCT116 cells infected with thermostable direct hemolysin-deletion mutant of Vibrio parahaemolyticus.

scientific article

Microarray analysis of macrophage response to infection with Streptococcus oralis reveals the immunosuppressive effect of hydrogen peroxide.

scientific article published on 12 February 2017

Microarray and gene co-expression analysis reveals that melatonin attenuates immune responses and modulates actin rearrangement in macrophages.

scientific article

Mind Bomb Proteins in the Antiviral Arsenal

scientific article published on 01 September 2011

NLRC5 deficiency does not influence cytokine induction by virus and bacteria infections.

scientific article published on 8 December 2010

Nociceptors Boost the Resolution of Fungal Osteoinflammation via the TRP Channel-CGRP-Jdp2 Axis.

scientific article published in June 2017

Pathogen recognition by innate receptors.

scientific article published on 30 April 2008

Plasmacytoid dendritic cells delineate immunogenicity of influenza vaccine subtypes

scientific article published in March 2010

Poly I:C-induced activation of NK cells by CD8 alpha+ dendritic cells via the IPS-1 and TRIF-dependent pathways.

scientific article

Prediction of dinucleotide-specific RNA-binding sites in proteins

scientific article

Raman spectroscopy as a tool for label-free lymphocyte cell line discrimination.

scientific article published on 12 April 2016

Regulation of lipopolysaccharide-inducible genes by MyD88 and Toll/IL-1 domain containing adaptor inducing IFN-β

article

Sequential control of Toll-like receptor-dependent responses by IRAK1 and IRAK2.

scientific article published on 27 April 2008

Stochastic binary modeling of cells in continuous time as an alternative to biochemical reaction equations.

scientific article published on 15 December 2011

TLR9 as a key receptor for the recognition of DNA.

scientific article published on 03 January 2008

The Jmjd3-Irf4 axis regulates M2 macrophage polarization and host responses against helminth infection

article

VP1686, a Vibrio type III secretion protein, induces toll-like receptor-independent apoptosis in macrophage through NF-kappaB inhibition.

scientific article published on 19 September 2006

West Nile virus noncoding subgenomic RNA contributes to viral evasion of the type I interferon-mediated antiviral response

scientific article

List of works by Yutaro Kumagai

A Corynebacterium glutamicum rnhA recG double mutant showing lysozyme-sensitivity, temperature-sensitive growth, and UV-sensitivity

A Multiomics Atlas of Brown Adipose Tissue Development Over Time

A Parzen window-based approach for the detection of locally enriched transcription factor binding sites.

A noncoding RNA produced by arthropod-borne flaviviruses inhibits the cellular exoribonuclease XRN1 and alters host mRNA stability

A novel unbiased measure for motif co-occurrence predicts combinatorial regulation of transcription ⬇️

Alveolar macrophage-derived type I interferons orchestrate innate immunity to RSV through recruitment of antiviral monocytes

Alveolar macrophages are the primary interferon-alpha producer in pulmonary infection with RNA viruses.

Analysis of changes in transcription start site distribution by a classification approach

Blockade of TLR3 protects mice from lethal radiation-induced gastrointestinal syndrome

Bone-protective Functions of Netrin 1 Protein.

Detection of pathogenic intestinal bacteria by Toll-like receptor 5 on intestinal CD11c+ lamina propria cells.

Double-stranded RNA of intestinal commensal but not pathogenic bacteria triggers production of protective interferon-β.

Eosinophil depletion suppresses radiation-induced small intestinal fibrosis.

Estimation of diffusion constants from single molecular measurement without explicit tracking.

Fluorescent phospholipid analogs as microscopic probes for detection of the mycolic acid-containing layer in Corynebacterium glutamicum: detecting alterations in the mycolic acid-containing layer following ethambutol treatment

Functional characterization of protein domains common to animal viruses and mouse.

Genetic analysis of capsular polysaccharide synthesis gene clusters from all serotypes of Streptococcus suis: potential mechanisms for generation of capsular variation

Genome-wide map of RNA degradation kinetics patterns in dendritic cells after LPS stimulation facilitates identification of primary sequence and secondary structure motifs in mRNAs.

IL-1α modulates neutrophil recruitment in chronic inflammation induced by hydrocarbon oil

Interferon response factors 3 and 7 protect against Chikungunya virus hemorrhagic fever and shock

Intracellular Protein-Labeling Probes for Multicolor Single-Molecule Imaging of Immune Receptor-Adaptor Molecular Dynamics

Involvement of the NLRP3 Inflammasome in Innate and Humoral Adaptive Immune Responses to Fungal -Glucan

IκBζ is essential for natural killer cell activation in response to IL-12 and IL-18.

LGP2 is a positive regulator of RIG-I- and MDA5-mediated antiviral responses

Laser-targeted photofabrication of gold nanoparticles inside cells.

Linking transcriptional changes over time in stimulated dendritic cells to identify gene networks activated during the innate immune response

Microarray analysis identifies apoptosis regulatory gene expression in HCT116 cells infected with thermostable direct hemolysin-deletion mutant of Vibrio parahaemolyticus.

Microarray analysis of macrophage response to infection with Streptococcus oralis reveals the immunosuppressive effect of hydrogen peroxide.

Microarray and gene co-expression analysis reveals that melatonin attenuates immune responses and modulates actin rearrangement in macrophages.

Mind Bomb Proteins in the Antiviral Arsenal

NLRC5 deficiency does not influence cytokine induction by virus and bacteria infections.

Nociceptors Boost the Resolution of Fungal Osteoinflammation via the TRP Channel-CGRP-Jdp2 Axis.

Pathogen recognition by innate receptors.

Plasmacytoid dendritic cells delineate immunogenicity of influenza vaccine subtypes

Poly I:C-induced activation of NK cells by CD8 alpha+ dendritic cells via the IPS-1 and TRIF-dependent pathways.

Prediction of dinucleotide-specific RNA-binding sites in proteins

Raman spectroscopy as a tool for label-free lymphocyte cell line discrimination.

Regulation of lipopolysaccharide-inducible genes by MyD88 and Toll/IL-1 domain containing adaptor inducing IFN-β

Sequential control of Toll-like receptor-dependent responses by IRAK1 and IRAK2.

Stochastic binary modeling of cells in continuous time as an alternative to biochemical reaction equations.

TLR9 as a key receptor for the recognition of DNA.

The Jmjd3-Irf4 axis regulates M2 macrophage polarization and host responses against helminth infection

VP1686, a Vibrio type III secretion protein, induces toll-like receptor-independent apoptosis in macrophage through NF-kappaB inhibition.

West Nile virus noncoding subgenomic RNA contributes to viral evasion of the type I interferon-mediated antiviral response