List of works - Osamu Nishimura

A LIM-homeobox gene is required for differentiation of Wnt-expressing cells at the posterior end of the planarian body.

scientific article published in September 2011

Bidirectional promoters are the major source of gene activation-associated non-coding RNAs in mammals

scientific article published on 17 January 2014

CTCF binding landscape in jawless fish with reference to Hox cluster evolution.

scientific article

Comparative transcriptome analysis between planarian Dugesia japonica and other platyhelminth species.

scientific article

Cthrc1 selectively activates the planar cell polarity pathway of Wnt signaling by stabilizing the Wnt-receptor complex

scientific journal article

ERK signaling controls blastema cell differentiation during planarian regeneration.

scientific article

Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei

scientific article published on 08 October 2018

Genome features of "Dark-fly", a Drosophila line reared long-term in a dark environment

scientific article

Highly conserved linkage homology between birds and turtles: bird and turtle chromosomes are precise counterparts of each other.

scientific article published on 21 September 2005

How are plant and fungal communities linked to each other in belowground ecosystems? A massively parallel pyrosequencing analysis of the association specificity of root-associated fungi and their host plants.

scientific article published on 2 August 2013

Inheritance of a Nuclear PIWI from Pluripotent Stem Cells by Somatic Descendants Ensures Differentiation by Silencing Transposons in Planarian.

scientific article

Intra-genomic GC heterogeneity in sauropsids: evolutionary insights from cDNA mapping and GC(3) profiling in snake.

scientific article

Loss of Fam60a, a Sin3a subunit, results in embryonic lethality and is associated with aberrant methylation at a subset of gene promoters

article

Mammalian Reverse Genetics without Crossing Reveals Nr3a as a Short-Sleeper Gene.

scientific article published on 6 January 2016

Molecular markers for X-ray-insensitive differentiated cells in the Inner and outer regions of the mesenchymal space in planarian Dugesia japonica.

scientific article

Multifaceted Hi-C benchmarking: what makes a difference in chromosome-scale genome scaffolding?

scientific article published on 01 January 2020

Optimization and cost-saving in tagmentation-based mate-pair library preparation and sequencing.

scientific article published on May 2015

PRDM14 Drives OCT3/4 Recruitment via Active Demethylation in the Transition from Primed to Naive Pluripotency

scientific article

Predicting gene regulatory regions with a convolutional neural network for processing double-strand genome sequence information

scientific article published on 23 July 2020

Progressive activation of Delta-Notch signaling from around the blastopore is required to set up a functional caudal lobe in the spider Achaearanea tepidariorum

scientific article published on 16 May 2007

Promotion of spermatogonial proliferation by neuregulin 1 in newt (Cynops pyrrhogaster) testis.

scientific article

Role of MEKK1 in the anterior-posterior patterning during planarian regeneration

scientific article published on 13 June 2018

Shark genomes provide insights into elasmobranch evolution and the origin of vertebrates

article

Simple blood-feeding method for live imaging of gut tube remodeling in regenerating planarians.

scientific article published on 7 March 2016

Squalomix: shark and ray genome analysis consortium and its data sharing platform

scientific article published in 2022

Temperature-dependent, behavioural, and transcriptional variability of a tritrophic interaction consisting of bean, herbivorous mite, and predator.

scientific article published on 8 October 2012

The apoptotic initiator caspase-8: its functional ubiquity and genetic diversity during animal evolution.

scientific article published on 8 September 2014

The planarian P2X homolog in the regulation of asexual reproduction.

scientific article published in January 2012

Unusually Large Number of Mutations in Asexually Reproducing Clonal Planarian Dugesia japonica

scientific article published on 20 November 2015

aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity.

scientific article published on 15 May 2013

gVolante for standardizing completeness assessment of genome and transcriptome assemblies.

scientific article published on 7 July 2017

List of works by Osamu Nishimura

A LIM-homeobox gene is required for differentiation of Wnt-expressing cells at the posterior end of the planarian body.

Bidirectional promoters are the major source of gene activation-associated non-coding RNAs in mammals

CTCF binding landscape in jawless fish with reference to Hox cluster evolution.

Comparative transcriptome analysis between planarian Dugesia japonica and other platyhelminth species.

Cthrc1 selectively activates the planar cell polarity pathway of Wnt signaling by stabilizing the Wnt-receptor complex

ERK signaling controls blastema cell differentiation during planarian regeneration.

Embryonic transcriptome sequencing of the ocellate spot skate Okamejei kenojei

Genome features of "Dark-fly", a Drosophila line reared long-term in a dark environment

Highly conserved linkage homology between birds and turtles: bird and turtle chromosomes are precise counterparts of each other.

How are plant and fungal communities linked to each other in belowground ecosystems? A massively parallel pyrosequencing analysis of the association specificity of root-associated fungi and their host plants.

Inheritance of a Nuclear PIWI from Pluripotent Stem Cells by Somatic Descendants Ensures Differentiation by Silencing Transposons in Planarian.

Intra-genomic GC heterogeneity in sauropsids: evolutionary insights from cDNA mapping and GC(3) profiling in snake.

Loss of Fam60a, a Sin3a subunit, results in embryonic lethality and is associated with aberrant methylation at a subset of gene promoters

Mammalian Reverse Genetics without Crossing Reveals Nr3a as a Short-Sleeper Gene.

Molecular markers for X-ray-insensitive differentiated cells in the Inner and outer regions of the mesenchymal space in planarian Dugesia japonica.

Multifaceted Hi-C benchmarking: what makes a difference in chromosome-scale genome scaffolding?

Optimization and cost-saving in tagmentation-based mate-pair library preparation and sequencing.

PRDM14 Drives OCT3/4 Recruitment via Active Demethylation in the Transition from Primed to Naive Pluripotency

Predicting gene regulatory regions with a convolutional neural network for processing double-strand genome sequence information

Progressive activation of Delta-Notch signaling from around the blastopore is required to set up a functional caudal lobe in the spider Achaearanea tepidariorum

Promotion of spermatogonial proliferation by neuregulin 1 in newt (Cynops pyrrhogaster) testis.

Role of MEKK1 in the anterior-posterior patterning during planarian regeneration

Shark genomes provide insights into elasmobranch evolution and the origin of vertebrates

Simple blood-feeding method for live imaging of gut tube remodeling in regenerating planarians.

Squalomix: shark and ray genome analysis consortium and its data sharing platform

Temperature-dependent, behavioural, and transcriptional variability of a tritrophic interaction consisting of bean, herbivorous mite, and predator.

The apoptotic initiator caspase-8: its functional ubiquity and genetic diversity during animal evolution.

The planarian P2X homolog in the regulation of asexual reproduction.

Unusually Large Number of Mutations in Asexually Reproducing Clonal Planarian Dugesia japonica

aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity.

gVolante for standardizing completeness assessment of genome and transcriptome assemblies.