Pressrelease

2021-07-26 / Last updated : 2021-07-26 adiqb Laboratory of Computational Genomics

Codependency and mutual exclusivity for gene community detection from sparse single-cell transcriptome data

Natsu Nakajima
Tomoatsu Hayashi
Katsunori Fujiki
Katsuhiko Shirahige
Tetsu Akiyama
Ryuichiro Nakato
Nucleic Acids Research
  • We developed a novel method to reconstruct gene co-expression networks from single-cell RNA-seq (scRNA-seq) data. The proposed methods capture codependency and mutual exclusivity of expression patterns between all gene pairs from the sparse scRNA-seq dataset.
  • We applied the proposed methods to glioblastoma stem cells and identified multiple candidates of tumor marker genes that could not be found by conventional methods.
  • The method can be used for any kind of tissue and tumor to explore new marker genes involved in scRNA-seq data.

 

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Journals

Journal: Nucleic Acids Research

Title: Codependency and mutual exclusivity for gene community detection from sparse single-cell transcriptome data
Author: Natsu Nakajima, Tomoatsu Hayashi, Katsunori Fujiki, Katsuhiko Shirahige, Tetsu Akiyama, Tatsuya Akutsu and Ryuichiro Nakato*
DOI: 10.1093/nar/gkab601

Contact

Laboratory of Computational Genomics

Lecturer
Ryuichiro Nakato