PO-377 Whole transcriptome analysis reveals colorectal cancer-associated long non-coding RNAs including UCA1 already dysregulated in colorectal adenomas

Abstract BackgroundEstrous cycle is one of female characteristics after sexual maturity, including estrus (ES) and diestrus (DS) stages. Estrous cycle is important in female physiology and its disorder may lead to diseases. In the latest years, effects of non-coding RNAs and mRNA on estrous cycle start to arouse much concern, however, a whole transcriptome analysis among non-coding RNAs and mRNA has not been reported.ResultsHere we report a whole transcriptome analysis of goat ovary in estrus and diestrus periods. Estrus synchronization was conducted to induce the estrus phase and on day 32, the goats naturally shifted into diestrus stage. The ovary RNA of estrus and diestrus stages was respectively collected to perform RNA-sequencing. Then the circular RNA; microRNA; long non-coding RNA; mRNA databases of goat ovary were acquired, and the differentially expressions between estrus and diestrus stages were screened to construct circRNA-miRNA-mRNA/lncRNA and lncRNA-miRNA/mRNA networks, thus providing potential pathways that involved in the regulation of estrous cycle. Differentially expressed mRNAs, such as MMP9, TIMP1, 3BHSD and PTGIS, and differentially expressed microRNAs, such as miR-21-3p，miR-202-3p and miR-223-3p, which play key roles in estrous cycle regulation were extracted from the network.ConclusionsOur data provided the miRNA, circRNA, lncRNA and mRNA databases of goat ovary and each differentially expressed profile between ES and DS. Networks among differentially expressed miRNAs, circRNAs, lncRNAs and mRNAs were constructed to provide valuable resources for the study of estrous cycle and related diseases.

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Whole Transcriptome Analysis Identifies TNS4 as a Key Effector of Cetuximab and a Regulator of the Oncogenic Activity of KRAS Mutant Colorectal Cancer Cell Lines

Cells ◽

10.3390/cells8080878 ◽

2019 ◽

Vol 8 (8) ◽

pp. 878 ◽

Cited By ~ 3

Author(s):

Kim ◽

Kang ◽

Kim ◽

Won ◽

...

Keyword(s):

Colorectal Cancer ◽

Cell Lines ◽

Transcriptome Analysis ◽

Ectopic Expression ◽

Growth Factor Receptor ◽

Mouse Tumors ◽

Number Of Patients ◽

Oncogenic Activity ◽

Whole Transcriptome Analysis ◽

Whole Transcriptome

The targeting of activated epidermal growth factor receptor (EGFR) with therapeutic anti-EGFR monoclonal antibodies (mAbs) such as cetuximab and panitumumab has been used as an effective strategy in the treatment of colorectal cancer (CRC). However, its clinical efficacy occurs only in a limited number of patients. Here, we performed whole-transcriptome analysis in xenograft mouse tumors induced by KRASG12D mutation-bearing LS174T CRC cells following treatment with either cetuximab or PBS. Through integrated analyses of differential gene expression with TCGA and CCLE public database, we identified TNS4, overexpressed in CRC patients and KRAS mutation-harboring CRC cell lines, significantly downregulated by cetuximab. While ablation of TNS4 expression via shRNA results in significant growth inhibition of LS174T, DLD1, WiDr, and DiFi CRC cell lines, conversely, its ectopic expression increases the oncogenic growth of these cells. Furthermore, TNS4 expression is transcriptionally regulated by MAP kinase signaling pathway. Consistent with this finding, selumetinib, a MEK1/2 inhibitor, suppressed oncogenic activity of CRC cells, and this effect is more profound in combination with cetuximab. Altogether, we propose that TNS4 plays a crucial role in CRC tumorigenesis, and that suppression of TNS4 would be an effective therapeutic strategy in treating a subset of cetuximab-refractory CRC patients including KRAS activating mutations.

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Abstract 1896: Whole transcriptome analysis identifies TNS4 as a key effector of cetuximab and a regulator of the oncogenic activity of KRAS mutant colorectal cancer cell lines

10.1158/1538-7445.am2020-1896 ◽

2020 ◽

Author(s):

Sujin Kim ◽

Nayoung Kim ◽

Keunsoo Kang ◽

Wonkyung Kim ◽

Jonghwa Won ◽

...

Keyword(s):

Colorectal Cancer ◽

Cell Lines ◽

Cancer Cell ◽

Transcriptome Analysis ◽

Cancer Cell Lines ◽

Colorectal Cancer Cell ◽

Colorectal Cancer Cell Lines ◽

Oncogenic Activity ◽

Whole Transcriptome Analysis ◽

Whole Transcriptome

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Whole-transcriptome analysis reveals a potential hsa_circ_0001955/hsa_circ_0000977-mediated miRNA-mRNA regulatory sub-network in colorectal cancer

Aging ◽

10.18632/aging.102945 ◽

2020 ◽

Vol 12 (6) ◽

pp. 5259-5279 ◽

Cited By ~ 2

Author(s):

Bisha Ding ◽

Minya Yao ◽

Weimin Fan ◽

Weiyang Lou

Keyword(s):

Colorectal Cancer ◽

Transcriptome Analysis ◽

Whole Transcriptome Analysis ◽

Whole Transcriptome

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Whole Transcriptome Analysis: Implication to Estrous Cycle Regulation

Biology ◽

10.3390/biology10060464 ◽

2021 ◽

Vol 10 (6) ◽

pp. 464

Author(s):

Xiaopeng An ◽

Yue Zhang ◽

Fu Li ◽

Zhanhang Wang ◽

Shaohua Yang ◽

...

Keyword(s):

Estrous Cycle ◽

Transcriptome Analysis ◽

Messenger Rna ◽

Polycystic Ovary ◽

Differentially Expressed ◽

Differentially Expressed Mirnas ◽

Non Coding Rnas ◽

Whole Transcriptome Analysis ◽

Whole Transcriptome ◽

Goat Ovary

Estrous cycle is one of the placental mammal characteristics after sexual maturity, including estrus stage (ES) and diestrus stage (DS). Estrous cycle is important in female physiology and its disorder may lead to diseases, such as polycystic ovary syndrome, ovarian carcinoma, anxiety, and epilepsy. In the latest years, effects of non-coding RNAs and messenger RNA (mRNA) on estrous cycle have started to arouse much concern, however, a whole transcriptome analysis among non-coding RNAs and mRNA has not been reported. Here, we report a whole transcriptome analysis of goat ovary in estrus and diestrus periods. Estrus synchronization was conducted to induce the estrus phase and on day 32, the goats shifted into the diestrus stage. The ovary RNA of estrus and diestrus stages was respectively collected to perform RNA-sequencing. Then, the circular RNA (circRNA), microRNA (miRNA), long non-coding RNA (lncRNA), and mRNA databases of goat ovary were acquired, and the differential expressions between estrus and diestrus stages were screened to construct circRNA-miRNA-mRNA/lncRNA and lncRNA-miRNA/mRNA networks, thus providing potential pathways that are involved in the regulation of estrous cycle. Differentially expressed mRNAs, such as MMP9, TIMP1, 3BHSD, and PTGIS, and differentially expressed miRNAs that play key roles in the regulation of estrous cycle, such as miR-21-3p, miR-202-3p, and miR-223-3p, were extracted from the network. Our data provided the miRNA, circRNA, lncRNA, and mRNA databases of goat ovary and each differentially expressed profile between ES and DS. Networks among differentially expressed miRNAs, circRNAs, lncRNAs, and mRNAs were constructed to provide valuable resources for the study of estrous cycle and related diseases.

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