Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module
Studies of cancer heterogeneity have received considerable attention recently, because the presence or absence of resistant sub-clones may determine whether or not certain therapeutic treatments are effective. Previously, we have reported G64, a co-regulated gene module composed of 64 different gene...
Saved in:
| Main Authors: | , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BioMed Central
2015-12-01
|
| Series: | Genomics & Informatics |
| Subjects: | |
| Online Access: | http://genominfo.org/upload/pdf/gni-13-132.pdf |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832569266664112128 |
|---|---|
| author | Jae-Woong Min Sun Shim Choi |
| author_facet | Jae-Woong Min Sun Shim Choi |
| author_sort | Jae-Woong Min |
| collection | DOAJ |
| description | Studies of cancer heterogeneity have received considerable attention recently, because the presence or absence of resistant sub-clones may determine whether or not certain therapeutic treatments are effective. Previously, we have reported G64, a co-regulated gene module composed of 64 different genes, can differentiate tumor intra- or inter-subpopulations in lung adenocarcinomas (LADCs). Here, we investigated whether the G64 module genes were also expressed distinctively in different subpopulations of other cancers. RNA sequencing-based transcriptome data derived from 22 cancers, except LADC, were downloaded from The Cancer Genome Atlas (TCGA). Interestingly, the 22 cancers also expressed the G64 genes in a correlated manner, as observed previously in an LADC study. Considering that gene expression levels were continuous among different tumor samples, tumor subpopulations were investigated using extreme expressional ranges of G64—i.e., tumor subpopulation with the lowest 15% of G64 expression, tumor subpopulation with the highest 15% of G64 expression, and tumor subpopulation with intermediate expression. In each of the 22 cancers, we examined whether patient survival was different among the three different subgroups and found that G64 could differentiate tumor subpopulations in six other cancers, including sarcoma, kidney, brain, liver, and esophageal cancers. |
| format | Article |
| id | doaj-art-7bd9c4ab1d964205813fd8deb63533ac |
| institution | Kabale University |
| issn | 1598-866X 2234-0742 |
| language | English |
| publishDate | 2015-12-01 |
| publisher | BioMed Central |
| record_format | Article |
| series | Genomics & Informatics |
| spelling | doaj-art-7bd9c4ab1d964205813fd8deb63533ac2025-02-02T22:43:20ZengBioMed CentralGenomics & Informatics1598-866X2234-07422015-12-0113413213610.5808/GI.2015.13.4.132138Expressional Subpopulation of Cancers Determined by G64, a Co-regulated ModuleJae-Woong Min0Sun Shim Choi1Department of Medical Biotechnology, College of Biomedical Science, and Institute of Bioscience & Biotechnology, Chuncheon 24341, Korea.Department of Medical Biotechnology, College of Biomedical Science, and Institute of Bioscience & Biotechnology, Chuncheon 24341, Korea.Studies of cancer heterogeneity have received considerable attention recently, because the presence or absence of resistant sub-clones may determine whether or not certain therapeutic treatments are effective. Previously, we have reported G64, a co-regulated gene module composed of 64 different genes, can differentiate tumor intra- or inter-subpopulations in lung adenocarcinomas (LADCs). Here, we investigated whether the G64 module genes were also expressed distinctively in different subpopulations of other cancers. RNA sequencing-based transcriptome data derived from 22 cancers, except LADC, were downloaded from The Cancer Genome Atlas (TCGA). Interestingly, the 22 cancers also expressed the G64 genes in a correlated manner, as observed previously in an LADC study. Considering that gene expression levels were continuous among different tumor samples, tumor subpopulations were investigated using extreme expressional ranges of G64—i.e., tumor subpopulation with the lowest 15% of G64 expression, tumor subpopulation with the highest 15% of G64 expression, and tumor subpopulation with intermediate expression. In each of the 22 cancers, we examined whether patient survival was different among the three different subgroups and found that G64 could differentiate tumor subpopulations in six other cancers, including sarcoma, kidney, brain, liver, and esophageal cancers.http://genominfo.org/upload/pdf/gni-13-132.pdfdifferentially expressed geneslung adenocarcinomasingle cell analysissurvival analysestumor heterogeneity |
| spellingShingle | Jae-Woong Min Sun Shim Choi Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module Genomics & Informatics differentially expressed genes lung adenocarcinoma single cell analysis survival analyses tumor heterogeneity |
| title | Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module |
| title_full | Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module |
| title_fullStr | Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module |
| title_full_unstemmed | Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module |
| title_short | Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module |
| title_sort | expressional subpopulation of cancers determined by g64 a co regulated module |
| topic | differentially expressed genes lung adenocarcinoma single cell analysis survival analyses tumor heterogeneity |
| url | http://genominfo.org/upload/pdf/gni-13-132.pdf |
| work_keys_str_mv | AT jaewoongmin expressionalsubpopulationofcancersdeterminedbyg64acoregulatedmodule AT sunshimchoi expressionalsubpopulationofcancersdeterminedbyg64acoregulatedmodule |