Degree 【 display / non-display 】

Degree 【 display / non-display 】

Employment Record in Research 【 display / non-display 】

Employment Record in Research 【 display / non-display 】

• Tokyo University of Agriculture   Nodai Research Institute   Guest professor

  2024.04

Papers 【 display / non-display 】

Papers 【 display / non-display 】

• Methods for analyzing next-generation sequencing data 20. Properties and statistical models of RNA-seq count data.

  Makino Manon, Sakamoto Mitsuo, Shimizu Kentaro, Kadota Koji

  Japanese Journal of Lactic Acid Bacteria   34 ( 1 )   21 - 29   2023.03

  　More details

  Language：Japanese   Publisher：Japan Society for Lactic Acid Bacteria  

  <p>RNA-seq is a tool for measuring gene expression and is commonly used for identifying differentially expressed genes (DEGs) under different conditions or groups. Most of the programs for DEGs has been provided as a free software environment called R. Users typically start the analysis with a numerical matrix called “count data”, where each row a gene, each column a sample (a group’s replicate), and each cell the number of counts. We describe the characteristics of the count data with a scatter plot (so-called “mean-variance plot”) displaying the relationship between the mean (x-axis) and variance (y-axis) within replicates. We explain why a statistical model called the negative binomial distribution (NB model) has been used for identifying DEGs.</p>

  DOI： 10.4109/jslab.34.21