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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of single-stranded (SS) spike-in piRNA-like molecules in smallRNA-seq

ABSTRACT: Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of single-stranded (SS) spike-in piRNA-like molecules in smallRNA-seq

PROVIDER: PRJEB41397 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR4845106.fastq.gz	Fastqsanger.gz
	ERR4845107.fastq.gz	Fastqsanger.gz
	ERR4845108.fastq.gz	Fastqsanger.gz

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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of single-stranded (SS) spike-in piRNA-like molecules in smallRNA-seq

Project description:For the evaluation of \\"WIND: A Workflow for pIRNAs aNd beyonD\\" performance and the transcriptomic approach on small-RNA identification, and particularly on piRNAs, a synthetic set of 4 piRNA-like molecules was used. Two non-methylated (SS-22 and SS-28) and two methylated (mSS-22 and mSS-28) of two different lengths (22 nt and 28 nt) were included. Spike-ins were chemically synthesised at Exiqon, the pool of 4 molecules was used at three different concentrations, with a final amount of 0.3 x 10^9 (dil_A), 0.3 x 10^10 (dil_B) and 0.3 x 10^11 (dil_C) molecules/ug of RNA. Library preparation and sequencing were done as previously described in Sellitto et al 2019 (doi: https://doi.org/10.3390/cells8111390)

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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of piRNA in mouse samples

Project description:For the evaluation of "WIND: A Workflow for pIRNAs aNd beyonD" performance and the transcriptomic approach on small-RNA identification, and particularly on piRNAs, two mouse Adult Cardiomyocytes (aCMs) were used.

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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of piRNA molecules in small RNA-seq

Project description:WIND: A Workflow for pIRNAs aNd beyonD, for the evaluation of the performance in piRNAs high expression and low expression conditions, we used Human Testis RNAs (BioChain Institute Inc, Newark, CA, USA) and COLO 205 cell line RNAs (samples are available on ArrayExpress (E-MTAB-8115: Non_treated_Testis_1 and Non_treated_COLO205_1, Non_treated_COLO205_2, Non_treated_COLO205_3).

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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of piRNA in mouse samples

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Monitor the efficiency of "WIND: A Workflow for pIRNAs aNd beyonD" for the identification of piRNA molecules in small RNA-seq

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WIND (Workflow for pIRNAs aNd beyonD): a strategy for in-depth analysis of small RNA-seq data [version 3; peer review: 2 approved]

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