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Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in Skin Injury Induced by Ultraviolet Irradiation

ABSTRACT: Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in Skin Injury Induced by Ultraviolet Irradiation

PROVIDER: PRJNA682447 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13195616.fastq.gz	Fastqsanger.gz
	SRR13195617.fastq.gz	Fastqsanger.gz
	SRR13195618.fastq.gz	Fastqsanger.gz
	SRR13195619.fastq.gz	Fastqsanger.gz
	SRR13195620.fastq.gz	Fastqsanger.gz

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Similar Datasets

Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in Skin Injury Induced by Ultraviolet Irradiation

Project description:Purpose: to explore the function and mechanism of skin damage induced by ultraviolet irradiation. Method: Skin tRF & tiRNA profiles of mice normal skin and damage skin induced by Ultraviolet Irradiation (UV) were generated by deep sequencing, using Illumina NextSeq 500. qRT–PCR validation was performed using SYBR Green assays. Results:Sequencing was used to screen expression profiles and predict target genes. Compared with normal skin, a total of 31 differentially expressed tRFs and tiRNAs were screened. Among these, 10 tRFs and tiRNAs were shown to be significantly different in expression levels, where there were 4 up-regulated and 6 down-regulated target genes.Altered expression of 4 genes was confirmed with qRT–PCR, demonstrating the high degree of sensitivity of the RNA-seq method. Hierarchical clustering of differentially expressed genes uncovered several as yet uncharacterized genes that may contribute to skin repair after damage induced by ultraviolet irradiation. Conclusion: tRF-Trp-TCA-001 and tRF-Gly-CCC-019 plays an important role in acute skin injury induced by UVB radiation by regulating the ras-related C3 botulinum toxin substrate 1 (Rac1) gene in the WNT signaling pathway. This study provides new insights into the mechanisms and therapeutic targets of UV-induced skin injury.

2021-08-06 | GSE162641 | GEO

Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in BALB/c mice with atopic dermatitis

Project description:Purpose: To explore the expression and biological functions of tRFs & tiRNAs in BALB/c mice with AD. Method: tRFs/tiRNAs profiles of control mice skin and 2,4-dinitrochlorobenzene(DNCB)- induced mice skin were generated by the Arraystar Mouse Small RNA Arrays. qRT–PCR validation was performed using SYBR Green assays. Results: There were 676 tRFs/tiRNAs that were aberrantly expressed in BALB/c mice with AD; 298 were upregulated and 378 were downregulated. tRF5-20-GluCTC-1, 5'tiRNA-33-ProTGG-4, 5'tRF-GluTTC, and mt-tRF3a-ProTGG were significantly expressed and confirmed with qRT–PCR, demonstrating the high degree of sensitivity of the Small RNA microarray technology. Conclusion: The pathogenesis of AD may be related with the differential expression of tRFs/tiRNAs. These findings may provide new perspectives for elucidating the molecular mechanisms and future treatments for AD.

2023-05-31 | GSE225968 | GEO

Identification of tRFs&tiRNAs Expression Profile in Breast Cancer Tissues

Project description:Purpose:In recent years, tRFs(transfer RNA-Derived Fragments) & tiRNAs (transfer RNA-Derived Stress-induced RNAs or tRNA halves) have been shown to have vital roles in cancer biology. We aimed to reveal the expression profile of tRFs&tiRNAs in breast cancer tissues in the study, and to explore their potential as biomarkers of breast cancer. Methods:We characterize tRFs&tiRNAs expression profiles in 6 pairs of breast cancer tissues and adjacent normal samples.Then we selected six tRFs&tiRNAs with significant expression and added 10 pairs of samples to verify the selected genes by qPCR in 16 pairs of breast cancer tissues along with the previous 6 pairs. Results:We found 31 differentially expressed tRFs&tiRNAs across our dataset, out of which 17 were up-regulated, 14 were down-regulated. Compared with 16 breast cancer tissues and healthy controls by qPCR, the results demonstrated that AS-tDR-001430, AS-tDR-001130 and AS-tDR-000779 were significantly expressed in breast cancer tissues (p < 0.001). AS-tDR-000779 was significantly up-regulated, AS-tDR-001430 and AS-tDR-001130 were significantly down-regulated which the expression patterns were similar to the sequencing results. Conclusions:Our studies have demonstrated that there were significantly expressed tRFs&tiRNAs in breast cancer tissues. They are hopefully to become biomarkers and would be valuable researches in this area.

2020-01-21 | GSE123967 | GEO

Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in Skin Injury Induced by Ultraviolet Irradiation.

Project description:Ultraviolet (UV) radiation is a major environmental factor contributing skin damage. As UV exposure is inevitable, it is necessary to pay attention to the underlying molecular mechanisms of UV-induced skin damage to develop effective therapies. tRNA-derived stress-induced RNAs (tiRNAs) and tRNA-derived fragments (tRFs) are tRNA-derived small RNAs (tsRNAs) that are a novel class of short, non-coding RNAs. However, the functions behind tRFs & tiRNAs in UV-induced skin injury are not yet clear. Firstly, the animal model of ultraviolet irradiation induced skin damage was established. Then the skin samples were preserved for the follow-up experiment. Sequencing was used to screen expression profiles and predict target genes. Compared with normal skin, a total of 31 differentially expressed tRFs & tiRNAs were screened. Among these, 10 tRFs & tiRNAs were shown to be significantly different in expression levels, where there were 4 up-regulated and 6 down-regulated target genes. Bioinformatics analyses revealed potential up-regulated tsRNAs (tRF-Val-AAC-012, tRF-Pro-AGG-012, tRF-Val-CAC-018, tRF-Val-AAC-031) and down-regulated tsRNAs (tRF-Arg-CCT-002, tRF-Trp-TCA-001, tiRNA-Ser-GCT-001, tRF-Gly-CCC-019, tRF-Ala-TGC-001, tRF-Ala-TGC-002). In summary, it was speculated that tRF-Gly-CCC-019 plays an important role in acute skin injury induced by UVB radiation by regulating the ras-related C3 botulinum toxin substrate 1 (Rac1) gene in the WNT signaling pathway. This study provides new insights into the mechanisms and therapeutic targets of UV-induced skin injury.

| S-EPMC8383935 | biostudies-literature

Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in BALB/c mice with atopic dermatitis

Project description:Differential Expression Profiles and Function Predictions for tRFs & tiRNAs in BALB/c mice with atopic dermatitis

| PRJNA938120 | ENA

Identification of tRFs&tiRNAs Expression Profile in Breast Cancer Tissues

Project description:Identification of tRFs&tiRNAs Expression Profile in Breast Cancer Tissues

| PRJNA510401 | ENA

tRFs/tiRNAs expression signature of low-glucose-treated HPAF-II cells

Project description:tRFs/tiRNAs expression signature of low-glucose-treated HPAF-II cells

| PRJNA864823 | ENA

MiRNAs expression in supernatant after ultraviolet irradiation

Project description:MiRNAs expression in supernatant after ultraviolet irradiation

| PRJNA437058 | ENA

tRFs&tiRNAs sequence in LUAD tissues with micropapillary /solid (High-Risk) component

Project description:tRFs&tiRNAs sequence in LUAD tissues with micropapillary /solid (High-Risk) component

| PRJNA1130887 | ENA

tRFs&tiRNAs sequence in LUAD tissues with micropapillary /solid (High-Risk) component

Project description:Despite being the leading cause of lung cancer death, the underlying molecular mechanisms driving metastasis progression are still not fully understood. tRNAs can generate a group of 18-40nt small RNA fragments named tRNA-derived small RNAs (tsRNAs) or tRNA-derived fragments (tRFs). Transfer RNA-derived fragments (tRFs) have been implicated in various biological processes in cancer. However, the role of tRFs in the development and progression of lung adenocarcinoma (LUAD) remains unclear. In the present study, we hypothesized that certain tRFs might become induced during LUAD metastatic progression. In this study, micropapillary and solid component was defined as high-risk, other component was defined as low-risk and adjcent tissue was defined as normal control. Our data revealed a series of dysregulated tRFs in 3 paired LUAD high-risk tissues, low-risk tissues and normal controls.

2024-07-04 | GSE271302 | GEO

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