Changes in the Expression of miRNA Isoforms and Their Targets in HT-29 Cells after Hypoxic Exposure

Raigorodskaya, M. P.; Zhiyanov, Anton; Averinskaya, Darya; Tonevitsky, E. A.

doi:10.1007/s10517-022-05506-2

Cited by 3 publications

(2 citation statements)

References 27 publications

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“…Raigorodskaya et al looked at the colonic cancer cell line HT-29 and analyzed changes in isomiR expression after hypoxia exposure [ 107 ]. They experimentally mimicked hypoxia with two chemicals: cobalt II chloride and oxyquinoline.…”

Section: Isomirs and Colorectal Cancermentioning

confidence: 99%

“…Raigorodskaya et al performed further analysis on the two upregulated non-canonical miRNAs, focusing on the targeting capabilities that were unique to them. When they analyzed these unique targets, they found that TCF4 decreased nearly tenfold and EGR1 decreased just over thirteenfold [ 107 ]. This study highlights the specificity of isomiRs in cellular states and how these cause great effects on downstream targets.…”

Section: Isomirs and Colorectal Cancermentioning

confidence: 99%

See 1 more Smart Citation

A Review of IsomiRs in Colorectal Cancer

Lausten,

Boman

2023

ncRNA

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As advancements in sequencing technology rapidly continue to develop, a new classification of microRNAs has occurred with the discovery of isomiRs, which are relatively common microRNAs with sequence variations compared to their established template microRNAs. This review article seeks to compile all known information about isomiRs in colorectal cancer (CRC), which has not, to our knowledge, been gathered previously to any great extent. A brief overview is given of the history of microRNAs, their implications in colon cancer, the canonical pathway of biogenesis and isomiR classification. This is followed by a comprehensive review of the literature that is available on microRNA isoforms in CRC. The information on isomiRs presented herein shows that isomiRs hold great promise for translation into new diagnostics and therapeutics in clinical medicine.

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Section: Isomirs and Colorectal Cancermentioning

confidence: 99%

Section: Isomirs and Colorectal Cancermentioning

confidence: 99%

A Review of IsomiRs in Colorectal Cancer

Lausten,

Boman

2023

ncRNA

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Gga-let-7a-3p inhibits the proliferation and differentiation of chicken intramuscular preadipocytes

Ren,

Chen,

Liu

et al. 2023

British Poultry Science

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Capturing the Kidney Transcriptome by Urinary Extracellular Vesicles—From Pre-Analytical Obstacles to Biomarker Research

Barreiro

Dwivedi

Rannikko

et al. 2023

Genes

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Urinary extracellular vesicles (uEV) hold non-invasive RNA biomarkers for genitourinary tract diseases. However, missing knowledge about reference genes and effects of preanalytical choices hinder biomarker studies. We aimed to assess how preanalytical variables (urine storage temperature, isolation workflow) affect diabetic kidney disease (DKD)—linked miRNAs or kidney—linked miRNAs and mRNAs (kidney-RNAs) in uEV isolates and to discover stable reference mRNAs across diverse uEV datasets. We studied nine raw and normalized sequencing datasets including healthy controls and individuals with prostate cancer or type 1 diabetes with or without albuminuria. We focused on kidney-RNAs reviewing literature for DKD-linked miRNAs from kidney tissue, cell culture and uEV/urine experiments. RNAs were analyzed by expression heatmaps, hierarchical clustering and selecting stable mRNAs with normalized counts (>200) and minimal coefficient of variation. Kidney-RNAs were decreased after urine storage at −20 °C vs. −80 °C. Isolation workflows captured kidney-RNAs with different efficiencies. Ultracentrifugation captured DKD -linked miRNAs that separated healthy and diabetic macroalbuminuria groups. Eleven mRNAs were stably expressed across the datasets. Hence, pre-analytical choices had variable effects on kidney-RNAs—analyzing kidney-RNAs complemented global correlation, which could fade differences in some relevant RNAs. Replicating prior DKD-marker results and discovery of candidate reference mRNAs encourages further uEV biomarker studies.

show abstract

Changes in the Expression of miRNA Isoforms and Their Targets in HT-29 Cells after Hypoxic Exposure

Cited by 3 publications

References 27 publications

A Review of IsomiRs in Colorectal Cancer

A Review of IsomiRs in Colorectal Cancer

Gga-let-7a-3p inhibits the proliferation and differentiation of chicken intramuscular preadipocytes

Capturing the Kidney Transcriptome by Urinary Extracellular Vesicles—From Pre-Analytical Obstacles to Biomarker Research

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