Transcriptomics

Dataset Information

0

RNA-Sequencing approach for the identification of novel long non-coding RNA biomarkers in colorectal cancer


ABSTRACT: Long non-coding RNA (lncRNA) have been implicated in human pathology, however, their roles in colorectal carcinogenesis has not been fully elucidated. In the current study, whole-transcriptome was analyzed in 3 pairs of colorectal cancer (CRC) and matched normal mucosa (NM) by RNA sequencing (RNA-seq). Followed by confirmation using the Cancer Genome Atlas (TCGA) dataset, we identified 27 up-regulated and 22 down-regulated lncRNAs in CRC. Up-regulation of four lncRNAs, hereby named colorectal cancer associated lncRNA (CRCAL)-1 [AC021218.2], CRCAL-2 [LINC00858], CRCAL-3 [RP11-138J23.1] and CRCAL-4 [RP11-435O5.2], was further validated by real-time RT-PCR in 139 colorectal neoplasms and matched NM tissues. Knockdown of CRCAL-3 and CRCAL-4 in colon cancer cells reduced cell viability and colony formation ability, and induced cell cycle arrest. TCGA dataset supported the associations of CRCAL-3 and CRCAL-4 with cell cycle and revealed a co-expression network comprising dysregulated lncRNAs associated with protein-coding genes. In conclusion, RNA-seq identified numbers of novel lncRNAs dysregulated in CRC. In vitro experiments and GO term enrichment analysis indicated the functional relevance of CRCAL-3 and CRCAL-4 in association with cell cycle. Our data highlight the capability of RNA-seq to discover novel lncRNAs involved in human carcinogenesis, which may serve as alternative biomarkers and/or molecular treatment targets.

ORGANISM(S): Homo sapiens

PROVIDER: GSE104178 | GEO | 2018/02/14

REPOSITORIES: GEO

Dataset's files

Source:
Action DRS
Other
Items per page:
1 - 1 of 1

Similar Datasets

2024-05-23 | PXD036533 | Pride
2021-08-01 | GSE156720 | GEO
2024-05-21 | PXD052413 | JPOST Repository
2018-02-17 | GSE110715 | GEO
2016-01-07 | E-GEOD-76583 | biostudies-arrayexpress
2024-06-21 | GSE264145 | GEO
2012-08-25 | E-GEOD-40362 | biostudies-arrayexpress
2018-10-24 | E-MTAB-7280 | biostudies-arrayexpress
2019-06-15 | GSE115856 | GEO
2012-08-25 | GSE40362 | GEO