Tag: GtRNAdb
Characterizing expression changes in noncoding RNAs during aging and heterochronic parabiosis across mouse tissues
Mapping of ncRNA expression across mouse organs We sequenced 771 tissue samples of the TMS cohort to map molecular shifts across the whole organism during healthy aging (Fig. 1a). The protocol enriches for small ncRNA, especially mature miRNAs. Even though full-length reads cover only small ncRNAs (miRNAs or piwi-interacting RNAs…
Naming system for transfer RNA fragments will increase research productivity, standardization
Transfer RNA, more commonly referred to as tRNA, is well known for its key role in translating genetic material into protein. Recent discoveries about fragments of tRNA, which scientists had previously thought of as simply waste products in the cell ecosystem, has led to an increase in attention to these…
Assessing spermatozoal small ribonucleic acids and their relationship to blastocyst development in idiopathic infertile males
Vander, B. M. & Wyns, C. Fertility and infertility: Definition and epidemiology. Clin. Biochem. 62, (2018). Sun, H. et al. Global, regional, and national prevalence and disability-adjusted life-years for infertility in 195 countries and territories, 1990–2017: Results from a global burden of disease study, 2017. Aging 11, 10952 (2019). Article …
tReasure: R-based GUI package analyzing tRNA expression profiles from small RNA sequencing data | BMC Bioinformatics
tReasure (tRNA Expression Analysis Software Utilizing R for Easy use) is a graphical user interface (GUI) tool for the analysis of tRNA expression profiles from deep-sequencing data of small RNAs (small RNA-seq) using R packages. The whole analysis workflow, including the uploading of FASTQ files of small RNA-seq, quantification of…
Profiling and functional characterization of maternal mRNA translation during mouse maternal-to-zygotic transition
INTRODUCTION Mammalian life starts with the fusion of two terminally differentiated gametes, sperm and oocyte, resulting in a totipotent zygote. After going through preimplantation development, the zygote reaches blastocyst before implantation. The two most important events taking place during preimplantation development are zygotic genome activation (ZGA) and the first cell…
Where is the annotation file if using the GtRNAdb (tRNA SE analysis) for mapping to RNAseq libraries?
Where is the annotation file if using the GtRNAdb (tRNA SE analysis) for mapping to RNAseq libraries? 0 Hi all, On the GtRNAdb (tRNA-SE analysis) website there is a file containing fasta sequences of different tRNA genes. gtrnadb.ucsc.edu/genomes/eukaryota/Hsapi38/ I aligned this GtRNAdb database with RNAseq libraries using bowtie2 and got…
