Makoto Kashima

InferAging: A non-invasive aging clock for quantifying individual differences in aging

InferAging quantifies biological aging by modeling deviations from chronological age, identifying accelerated and delayed agers in zebrafish using non-invasive phenotypes.

Interleukin-11 promotes the colonic epithelial organoid regeneration from mechanical disruption

This study shows IL-11 promotes colonic epithelial organoid regeneration after mechanical injury via STAT3 signaling.

Multi-omics definition of the sex-specific glycoproteome of murine tissues

The paper defines sex-specific glycoproteomes in mouse tissues using multi-omics integration, revealing distinct glycoform patterns and enzyme relationships across 19 tissues.

Maternal care during early development is necessary for the acquisition of a calming response to back stroking

This study shows that early maternal tactile experience is necessary for a calming response to back stroking in humans and mice, mediated by hypothalamic Cacna1b expression.

Transcriptomic biomarkers reveal jasmonic and salicylic acid state under field herbivory

The paper identifies transcriptomic biomarkers to quantify SA and JA response states in Arabidopsis under field herbivory, revealing dynamic hormonal interactions shaped by herbivore abundance.

Photoperiod decoder 1 regulates seasonal changes in energy metabolism through the growth hormone signaling pathway

This study identifies phod1 as a gene regulating seasonal energy metabolism via the growth hormone pathway in Japanese medaka fish.

DeLTa-Seq: direct-lysate targeted RNA-Seq from crude tissue lysate.

The paper introduces DeLTa-Seq, a method for targeted RNA-Seq from crude tissue lysates, enabling cost-effective and high-throughput gene expression analysis without RNA purification.

Intracellular and intercellular gene regulatory networks inference from time-course individual RNA-Seq

The paper infers gene regulatory networks from time-course bulk RNA-Seq data to reveal both intracellular and intercellular regulatory relationships during development.

Genomic basis of transcriptome dynamics in rice under field conditions

The paper identifies edQTLs in rice under field conditions and shows they can predict gene expression in different environments and complex genotypes.

Tensor Decomposition-based Unsupervised Feature Extraction Succeeded in Identification of Differentially Expressed Transcripts from Redundant de novo Transcriptome of Planarian

This study uses tensor decomposition-based unsupervised feature extraction to identify differentially expressed transcripts in planarian RNA-seq data with a highly redundant de novo transcriptome, outperforming conventional methods.