List of works - Takashi Ito

A Synthetic Protein Approach toward Accurate Mass Spectrometric Quantification of Component Stoichiometry of Multiprotein Complexes

scientific article published on 01 February 2007

A comprehensive analysis of allelic methylation status of CpG islands on human chromosome 11q: Comparison with chromosome 21q

scientific article published on 01 August 2006

A comprehensive two-hybrid analysis to explore the yeast protein interactome

scientific article (publication date: 10 April 2001)

A functional single-nucleotide polymorphism in the human cytidine deaminase gene contributing to ara-C sensitivity.

scientific article

A large-scale full-length cDNA analysis to explore the budding yeast transcriptome

scientific article published on 13 November 2006

A novel G-protein-coupled receptor gene expressed in striatum

scientific article

A novel procedure for selective cloning of NotI linking fragments from mammalian genomes.

scientific article

A nuclear factor which interacts with an at-cluster in the first intron of rat α2-macroglobulin gene

article

A parallel affinity purification method for selective isolation of polyubiquitinated proteins

scientific article published on 01 August 2008

A proteomic screen reveals the mitochondrial outer membrane protein Mdm34p as an essential target of the F-box protein Mdm30p.

scientific article published on 3 September 2008

A strategy for absolute proteome quantification with mass spectrometry by hierarchical use of peptide-concatenated standards

scientific article published on 31 March 2016

A yeast one-hybrid system to screen for methylated DNA-binding proteins

scientific article

Absolute quantification of the budding yeast transcriptome by means of competitive PCR between genomic and complementary DNAs

scientific article

Affinity capture electrophoresis for sequence-specific DNA purification

scientific article published on June 1, 1992

Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging.

scientific article published on 30 May 2012

An evolutionary scenario for genomic imprinting of Impact lying between nonimprinted neighbors.

scientific article published in December 2004

Analysis of gene network regulating yeast multidrug resistance by artificial activation of transcription factors: involvement of Pdr3 in salt tolerance.

scientific article

Anionic amphiphile-independent activation of the phagocyte NADPH oxidase in a cell-free system by p47phox and p67phox, both in C terminally truncated forms. Implication for regulatory Src homology 3 domain-mediated interactions.

scientific article

Budding yeast GCN1 binds the GI domain to activate the eIF2alpha kinase GCN2.

scientific article published on 28 February 2001

Changepoint detection in base-resolution methylome data reveals a robust signature of methylated domain landscape

scientific article published on 12 August 2015

Clonal germinal center B cells function as a niche for T-cell lymphoma

scientific article published in 2022

Comparative genome analysis of the mouse imprinted gene impact and its nonimprinted human homolog IMPACT: toward the structural basis for species-specific imprinting.

scientific article published in December 2000

Comparative genomics approach toward critical determinants for the imprinting of an evolutionarily conserved gene Impact.

scientific article

DMS-Seq for In Vivo Genome-wide Mapping of Protein-DNA Interactions and Nucleosome Centers.

scientific article published in October 2017

DMS-seq for In Vivo Genome-Wide Mapping of Protein-DNA Interactions and Nucleosome Centers

scientific article published on 15 June 2018

DNA Methylation Errors in Cloned Mouse Sperm by Germ Line Barrier Evasion1

DNA Methylome Analysis Identifies Transcription Factor-Based Epigenomic Signatures of Multilineage Competence in Neural Stem/Progenitor Cells

scientific article published in September 2017

DNA methylation and gene expression in Mimulus guttatus

scientific article published on 7 July 2015

DNA methylation is reconfigured at the onset of reproduction in rice shoot apical meristem

scientific article published on 14 August 2020

Detecting protein-DNA interactions using a modified yeast one-hybrid system.

scientific article

Differential display analysis of gene expression in developing embryos of Xenopus laevis

scientific article

Discovery of a novel compound: insight into mechanisms for acrylamide-induced axonopathy and colchicine-induced apoptotic neuronal cell death.

scientific article published on August 2001

Discrimination between stable and dynamic components of protein complexes by means of quantitative proteomics

scientific article published on 01 June 2008

Epigenetic landscape influences the liver cancer genome architecture.

scientific article published on 24 April 2018

Epigenome mapping of human normal purified hepatocytes: personal epigenome variation and genome–epigenome correlation

Expression of the alpha 2-macroglobulin-encoding gene in rat brain and cultured astrocytes.

scientific article

Extraction of knowledge on protein-protein interaction by association rule discovery.

scientific article

Fluorescent differential display analysis of gene expression in apoptotic neuroblastoma cells.

scientific article published in November 1998

Fluorescent differential display analysis of gene expression in differentiating neuroblastoma cells

scientific article

Fluorescent differential display: Arbitrarily primed RT-PCR fingerprinting on an automated DNA sequencer

scientific article published on 01 September 1994

Functional modules and expression of mouse p40(phox) and p67(phox), SH3-domain-containing proteins involved in the phagocyte NADPH oxidase complex

scientific journal article

GI Domain-mediated Association of the Eukaryotic Initiation Factor 2α Kinase GCN2 with Its Activator GCN1 Is Required for General Amino Acid Control in Budding Yeast

scientific article published in Journal of Biological Chemistry

Highly efficient PCR assay to discriminate allelic DNA methylation status using whole genome amplification.

scientific article

Highly sensitive targeted methylome sequencing by post-bisulfite adaptor tagging

scientific article

Human homologues of the Caenorhabditis elegans cell polarity protein PAR6 as an adaptor that links the small GTPases Rac and Cdc42 to atypical protein kinase C

scientific article

Identification of a five-pass transmembrane protein family localizing in the Golgi apparatus and the ER.

scientific article published in December 2003

Isolation and expression study of a maternally expressed novel Xenopus gene Xem1 encoding a putative evolutionarily conserved membrane protein.

scientific article published in September 1997

Lessons from comparative analysis of species-specific imprinted genes.

scientific article

Mapping of histone-binding sites in histone replacement-completed spermatozoa

scientific article published in Nature Communications

Mass spectrometry-based approaches toward absolute quantitative proteomics.

scientific article published on June 2008

Maternal Protein Restriction Alters the Renal DNA Methylation State in SHRSP Offspring

scientific article published on 05 October 2018

Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases.

scientific article

NSD1-deposited H3K36me2 directs de novo methylation in the mouse male germline and counteracts Polycomb-associated silencing

scientific article published on 14 September 2020

Novel modular domain PB1 recognizes PC motif to mediate functional protein-protein interactions

scientific article

Nuclear matrix association regions of rat alpha 2-macroglobulin gene.

scientific article published on December 1987

OPR, PC and AID: all in the PB1 family

scientific article published on 01 January 2002

Phosphorylation of p47phox directs phox homology domain from SH3 domain toward phosphoinositides, leading to phagocyte NADPH oxidase activation

scientific article

Post-Bisulfite Adaptor Tagging for PCR-Free Whole-Genome Bisulfite Sequencing.

scientific article published in January 2018

Proteomic analysis of in vivo 14-3-3 interactions in the yeast Saccharomyces cerevisiae.

scientific article

Publisher Correction: Tet2 and Tet3 in B cells are required to repress CD86 and prevent autoimmunity

scientific article published on 21 September 2020

Pulsed-field polyacrylamide gel electrophoresis: Basic phenomena and applications

scientific article published on 01 April 1993

Rare occurrence of ras and p53 gene mutations in mouse stomach tumors induced by N-methyl-N-nitrosourea.

scientific article published in April 1997

Regional DNA methylation differences between humans and chimpanzees are associated with genetic changes, transcriptional divergence and disease genes ⬇️

scientific article published on June 6, 2013

Regulation of N-cadherin-based cell-cell interaction by JSAP1 scaffold in PC12h cells

scientific journal article

Remodeling of the SCF complex-mediated ubiquitination system by compositional alteration of incorporated F-box proteins.

scientific article

Roles for the two-hybrid system in exploration of the yeast protein interactome.

scientific article

Screening for imprinted genes by allelic message display: identification of a paternally expressed gene impact on mouse chromosome 18

scientific article published on August 1997

Sequence-specific DNA purification by triplex affinity capture ⬇️

scientific article published on January 15, 1992

Sequence-tagged NotI sites of human chromosome 21: sequence analysis and mapping.

scientific article published on July 1993

Sixty new STSs (sequence-tagged sites) of human chromosome 21.

scientific article published on January 1994

Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing

scientific article

Solution structure of the PX domain, a target of the SH3 domain

scientific article

Structure and function of the PB1 domain, a protein interaction module conserved in animals, fungi, amoebas, and plants.

scientific article published on 28 August 2007

Structure of the rat alpha 2-macroglobulin-coding gene.

scientific article published on April 1989

Synthetic gene circuit-mediated monitoring of endogenous metabolites: identification of GAL11 as a novel multicopy enhancer of s-adenosylmethionine level in yeast.

scientific article published on 18 January 2013

Tet2 and Tet3 in B cells are required to repress CD86 and prevent autoimmunity

scientific article published on 22 June 2020

The AP-1 transcription factor JunB is required for Th17 cell differentiation

scientific article published on 12 December 2017

The PB1 domain and the PC motif-containing region are structurally similar protein binding modules ⬇️

scientific article published on October 1, 2003

The PC motif: a novel and evolutionarily conserved sequence involved in interaction between p40phox and p67phox, SH3 domain-containing cytosolic factors of the phagocyte NADPH oxidase

scientific article

The WD40 protein Morg1 facilitates Par6-aPKC binding to Crb3 for apical identity in epithelial cells.

scientific article published on 25 February 2013

The adaptor protein p40(phox) as a positive regulator of the superoxide-producing phagocyte oxidase.

scientific article

The adaptor protein p40phox as a positive regulator of the superoxide-producing phagocyte oxidase.

scientific article

The yeast eIF4E-associated protein Eap1p attenuates GCN4 translation upon TOR-inactivation.

scientific article

Transcriptional activators in yeast

scientific article

Translation initiation: a regulatory role for poly(A) tracts in front of the AUG codon in Saccharomyces cerevisiae

scientific article

Triazole linking for preparation of a next-generation sequencing library from single-stranded DNA

scientific article published on 01 September 2018

Triplex affinity capture of a single copy clone from a yeast genomic library ⬇️

scientific article published on July 11, 1992

List of works by Takashi Ito

A Synthetic Protein Approach toward Accurate Mass Spectrometric Quantification of Component Stoichiometry of Multiprotein Complexes

A comprehensive analysis of allelic methylation status of CpG islands on human chromosome 11q: Comparison with chromosome 21q

A comprehensive two-hybrid analysis to explore the yeast protein interactome

A functional single-nucleotide polymorphism in the human cytidine deaminase gene contributing to ara-C sensitivity.

A large-scale full-length cDNA analysis to explore the budding yeast transcriptome

A novel G-protein-coupled receptor gene expressed in striatum

A novel procedure for selective cloning of NotI linking fragments from mammalian genomes.

A nuclear factor which interacts with an at-cluster in the first intron of rat α2-macroglobulin gene

A parallel affinity purification method for selective isolation of polyubiquitinated proteins

A proteomic screen reveals the mitochondrial outer membrane protein Mdm34p as an essential target of the F-box protein Mdm30p.

A strategy for absolute proteome quantification with mass spectrometry by hierarchical use of peptide-concatenated standards

A yeast one-hybrid system to screen for methylated DNA-binding proteins

Absolute quantification of the budding yeast transcriptome by means of competitive PCR between genomic and complementary DNAs

Affinity capture electrophoresis for sequence-specific DNA purification

Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging.

An evolutionary scenario for genomic imprinting of Impact lying between nonimprinted neighbors.

Analysis of gene network regulating yeast multidrug resistance by artificial activation of transcription factors: involvement of Pdr3 in salt tolerance.

Anionic amphiphile-independent activation of the phagocyte NADPH oxidase in a cell-free system by p47phox and p67phox, both in C terminally truncated forms. Implication for regulatory Src homology 3 domain-mediated interactions.

Budding yeast GCN1 binds the GI domain to activate the eIF2alpha kinase GCN2.

Changepoint detection in base-resolution methylome data reveals a robust signature of methylated domain landscape

Clonal germinal center B cells function as a niche for T-cell lymphoma

Comparative genome analysis of the mouse imprinted gene impact and its nonimprinted human homolog IMPACT: toward the structural basis for species-specific imprinting.

Comparative genomics approach toward critical determinants for the imprinting of an evolutionarily conserved gene Impact.

DMS-Seq for In Vivo Genome-wide Mapping of Protein-DNA Interactions and Nucleosome Centers.

DMS-seq for In Vivo Genome-Wide Mapping of Protein-DNA Interactions and Nucleosome Centers

DNA Methylation Errors in Cloned Mouse Sperm by Germ Line Barrier Evasion1

DNA Methylome Analysis Identifies Transcription Factor-Based Epigenomic Signatures of Multilineage Competence in Neural Stem/Progenitor Cells

DNA methylation and gene expression in Mimulus guttatus

DNA methylation is reconfigured at the onset of reproduction in rice shoot apical meristem

Detecting protein-DNA interactions using a modified yeast one-hybrid system.

Differential display analysis of gene expression in developing embryos of Xenopus laevis

Discovery of a novel compound: insight into mechanisms for acrylamide-induced axonopathy and colchicine-induced apoptotic neuronal cell death.

Discrimination between stable and dynamic components of protein complexes by means of quantitative proteomics

Epigenetic landscape influences the liver cancer genome architecture.

Epigenome mapping of human normal purified hepatocytes: personal epigenome variation and genome–epigenome correlation

Expression of the alpha 2-macroglobulin-encoding gene in rat brain and cultured astrocytes.

Extraction of knowledge on protein-protein interaction by association rule discovery.

Fluorescent differential display analysis of gene expression in apoptotic neuroblastoma cells.

Fluorescent differential display analysis of gene expression in differentiating neuroblastoma cells

Fluorescent differential display: Arbitrarily primed RT-PCR fingerprinting on an automated DNA sequencer

Functional modules and expression of mouse p40(phox) and p67(phox), SH3-domain-containing proteins involved in the phagocyte NADPH oxidase complex

GI Domain-mediated Association of the Eukaryotic Initiation Factor 2α Kinase GCN2 with Its Activator GCN1 Is Required for General Amino Acid Control in Budding Yeast

Highly efficient PCR assay to discriminate allelic DNA methylation status using whole genome amplification.

Highly sensitive targeted methylome sequencing by post-bisulfite adaptor tagging

Human homologues of the Caenorhabditis elegans cell polarity protein PAR6 as an adaptor that links the small GTPases Rac and Cdc42 to atypical protein kinase C

Identification of a five-pass transmembrane protein family localizing in the Golgi apparatus and the ER.

Isolation and expression study of a maternally expressed novel Xenopus gene Xem1 encoding a putative evolutionarily conserved membrane protein.

Lessons from comparative analysis of species-specific imprinted genes.

Mapping of histone-binding sites in histone replacement-completed spermatozoa

Mass spectrometry-based approaches toward absolute quantitative proteomics.

Maternal Protein Restriction Alters the Renal DNA Methylation State in SHRSP Offspring

Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases.

NSD1-deposited H3K36me2 directs de novo methylation in the mouse male germline and counteracts Polycomb-associated silencing

Novel modular domain PB1 recognizes PC motif to mediate functional protein-protein interactions

Nuclear matrix association regions of rat alpha 2-macroglobulin gene.

OPR, PC and AID: all in the PB1 family

Phosphorylation of p47phox directs phox homology domain from SH3 domain toward phosphoinositides, leading to phagocyte NADPH oxidase activation

Post-Bisulfite Adaptor Tagging for PCR-Free Whole-Genome Bisulfite Sequencing.

Proteomic analysis of in vivo 14-3-3 interactions in the yeast Saccharomyces cerevisiae.

Publisher Correction: Tet2 and Tet3 in B cells are required to repress CD86 and prevent autoimmunity

Pulsed-field polyacrylamide gel electrophoresis: Basic phenomena and applications

Rare occurrence of ras and p53 gene mutations in mouse stomach tumors induced by N-methyl-N-nitrosourea.

Regional DNA methylation differences between humans and chimpanzees are associated with genetic changes, transcriptional divergence and disease genes ⬇️

Regulation of N-cadherin-based cell-cell interaction by JSAP1 scaffold in PC12h cells

Remodeling of the SCF complex-mediated ubiquitination system by compositional alteration of incorporated F-box proteins.

Roles for the two-hybrid system in exploration of the yeast protein interactome.

Screening for imprinted genes by allelic message display: identification of a paternally expressed gene impact on mouse chromosome 18

Sequence-specific DNA purification by triplex affinity capture ⬇️

Sequence-tagged NotI sites of human chromosome 21: sequence analysis and mapping.

Sixty new STSs (sequence-tagged sites) of human chromosome 21.

Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing

Solution structure of the PX domain, a target of the SH3 domain

Structure and function of the PB1 domain, a protein interaction module conserved in animals, fungi, amoebas, and plants.

Structure of the rat alpha 2-macroglobulin-coding gene.

Synthetic gene circuit-mediated monitoring of endogenous metabolites: identification of GAL11 as a novel multicopy enhancer of s-adenosylmethionine level in yeast.

Tet2 and Tet3 in B cells are required to repress CD86 and prevent autoimmunity

The AP-1 transcription factor JunB is required for Th17 cell differentiation

The PB1 domain and the PC motif-containing region are structurally similar protein binding modules ⬇️

The PC motif: a novel and evolutionarily conserved sequence involved in interaction between p40phox and p67phox, SH3 domain-containing cytosolic factors of the phagocyte NADPH oxidase