Spatial epitranscriptomics reveals A-to-I editome specific to cancer stem cell microniches.
IF: 17.694


Epitranscriptomic features, such as single-base RNA editing, are sources of transcript diversity in cancer, but little is understood in terms of their spatial context in the tumour microenvironment. Here, we introduce spatial-histopathological examination-linked epitranscriptomics converged to transcriptomics with sequencing (Select-seq), which isolates regions of interest from immunofluorescence-stained tissue and obtains transcriptomic and epitranscriptomic data. With Select-seq, we analyse the cancer stem cell-like microniches in relation to the tumour microenvironment of triple-negative breast cancer patients. We identify alternative splice variants, perform complementarity-determining region analysis of infiltrating T cells and B cells, and assess adenosine-to-inosine base editing in tumour tissue sections. Especially, in triple-negative breast cancer microniches, adenosine-to-inosine editome specific to different microniche groups is identified.


Spatial Transcriptomics

MeSH terms

Adenosine Deaminase
Neoplastic Stem Cells
Triple Negative Breast Neoplasms
Tumor Microenvironment


Lee, Amos C
Lee, Yongju
Choi, Ahyoun
Lee, Han-Byoel
Shin, Kyoungseob
Lee, Hyunho
Kim, Ji Young
Ryu, Han Suk
Kim, Hoe Suk
Ryu, Seung Yeon
Lee, Sangeun
Cheun, Jong-Ho
Yoo, Duck Kyun
Lee, Sumin
Choi, Hansol
Ryu, Taehoon
Yeom, Huiran
Kim, Namphil
Noh, Jinsung
Lee, Yonghee
Kim, Inyoung
Bae, Sangwook
Kim, Jinhyun
Lee, Wooseok
Kim, Okju
Jung, Yushin
Kim, Changhoe
Song, Seo Woo
Choi, Yeongjae
Chung, Junho
Kim, Byung Gee
Han, Wonshik
Kwon, Sunghoon