TY - JOUR
T1 - Signature miRNAs in colorectal cancers were revealed using a bias reduction small RNA deep sequencing protocol
AU - Sun, Guihua
AU - Cheng, Ya Wen
AU - Lai, Lily
AU - Huang, Tsui Chin
AU - Wang, Jinhui
AU - Wu, Xiwei
AU - Wang, Yafan
AU - Huang, Yasheng
AU - Wang, Jinghan
AU - Zhang, Keqiang
AU - Hu, Shuya
AU - Yang, Ji Rui
AU - Yen, Yun
PY - 2016
Y1 - 2016
N2 - To explore the role of miRNAs in colorectal cancers (CRC), we have deep sequenced 48 pairs of frozen CRC samples, of which 44 pairs produced high quality sequencing data. By using a combined approach of our bias reduction small RNA (smRNA) deep sequencing protocol and Illumina small RNA TruSeq method for sample bar coding, we have obtained data from samples of relatively large size with bias reduced digital profile results. This novel approach allowed us to validate many previously published results using various techniques to profile miRNAs in CRC tissues or cell lines and to characterize 'true' miRNA signatures highly expressed in colon/ rectum (CR) or CRC tissues. According to our results, miR-21, a miRNA that is upregulated in CRC, and miR-143, a miRNA that is down-regulated in CRC, are the two miRNAs that dominated the miRNA population in CR tissues, and probably are also the most important miRNAs in CRCs. These two miRNAs, together with the other eight miRNAs, miR-148a, -194, -192, 200b, -200c, -10b, -26a, and -145, with descending expressing levels, constituted the top 10 highly expressed miRNAs in CR/CRC. Using TaqMan miRNA qPCR, we detected the relative expression of some of the CRC miRNAs in 10 CRC cell lines, validated their dysregulation under cancer condition, and provided possible explanation for their dysregulation, which could be caused by APC, KRAS, or TP53 mutations. We believe these results will provide a new direction in future miRNA-related CRC development studies, and application of miRNAs in CRC diagnosis/ prognosis, and therapy.
AB - To explore the role of miRNAs in colorectal cancers (CRC), we have deep sequenced 48 pairs of frozen CRC samples, of which 44 pairs produced high quality sequencing data. By using a combined approach of our bias reduction small RNA (smRNA) deep sequencing protocol and Illumina small RNA TruSeq method for sample bar coding, we have obtained data from samples of relatively large size with bias reduced digital profile results. This novel approach allowed us to validate many previously published results using various techniques to profile miRNAs in CRC tissues or cell lines and to characterize 'true' miRNA signatures highly expressed in colon/ rectum (CR) or CRC tissues. According to our results, miR-21, a miRNA that is upregulated in CRC, and miR-143, a miRNA that is down-regulated in CRC, are the two miRNAs that dominated the miRNA population in CR tissues, and probably are also the most important miRNAs in CRCs. These two miRNAs, together with the other eight miRNAs, miR-148a, -194, -192, 200b, -200c, -10b, -26a, and -145, with descending expressing levels, constituted the top 10 highly expressed miRNAs in CR/CRC. Using TaqMan miRNA qPCR, we detected the relative expression of some of the CRC miRNAs in 10 CRC cell lines, validated their dysregulation under cancer condition, and provided possible explanation for their dysregulation, which could be caused by APC, KRAS, or TP53 mutations. We believe these results will provide a new direction in future miRNA-related CRC development studies, and application of miRNAs in CRC diagnosis/ prognosis, and therapy.
KW - Colorectal cancer
KW - MicroRNA
KW - miR-143
KW - miR-21
KW - Small RNA deep sequencing
UR - http://www.scopus.com/inward/record.url?scp=84957998944&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84957998944&partnerID=8YFLogxK
U2 - 10.18632/oncotarget.6460
DO - 10.18632/oncotarget.6460
M3 - Article
C2 - 26646696
AN - SCOPUS:84957998944
SN - 1949-2553
VL - 7
SP - 3857
EP - 3872
JO - Oncotarget
JF - Oncotarget
IS - 4
ER -