Because most of the intergenic DNA has no known functions, these DNAs are known as junk or selfish DNA.Furthermore, not all genes code for proteins: only genes that are transcribed into mRNA code for proteins. Some genes are transcribed into other types of RNA, which directly participate in...
>>> from rnanorm.datasets import load_toy_data >>> from rnanorm import FPKM >>> dataset = load_toy_data() >>> # Expressions need to have genes in columns and samples in rows >>> dataset.exp Gene_1 Gene_2 Gene_3 Gene_4 Gene_5 Sample_1 200 300 500 2000 7000 Sample_2 400 60...
Single-cell RNA-sequencing (scRNA-seq) is able to measure the expression levels of genes in each cell of an experimental batch. This technology has been widely used in disease studies, where samples are collected from donors at different stages of the disease or with different drug treatments1,...
the total number of clean reads generated from RNA sequencing of each species ranged from 19,441,421 to 55,618,420, with an average of 34,025,426 reads per species (Additional file1: Table S4). Transcriptomes were assembled with an average BUSCO completeness of 85.7% (Additional file2: Fi...
To begin to understand the mechanisms underlying control of mtDNA content by Mfn1 and 2, we analyzed bulk RNA sequencing (RNAseq) data generated from islets of β-Mfn1KO,β-Mfn2KO, and β-Mfn1/2DKO mice as well as littermate controls. Initial hierarchical clustering analyses based on the ...
GECO (Gene Expression Clustering Optimization; theGECOapp.com) is a minimalistic GUI app that utilizes non-linear reduction techniques to rapidly visualize expression trends in many types of biological data matrices (such as bulk RNA-seq or proteomics).
Direct sequencing of the resulting product revealed the breakpoint locations indicated by dashed vertical lines. Comparison with the normal SLC4A2 genomic sequence determined a deletion size of 2781 bp, as indicated. Figure 5B depicts the effect of the deletion mutation on splicing of SLC4A2 ...
Carex L., a grass genus commonly known as sedges, is distributed worldwide and contributes constructively to turf management, forage production, and ecological conservation. The development of next-generation sequencing (NGS) technologies has considerabl
Heterogeneity in single-cell RNA sequencing (scRNA-seq) datasets is frequently characterized by identifying cell clusters in gene expression space, wherein each cluster represents a distinct cell type or cell state. In particular, numerous studies have used unsupervised clustering to discover novel cell...
RNA sequencing and analysis For in vitro gene expression studies, HCC2302 or HCC515 cells were treated with DMSO or A947(100 nM) for both 24 h and 96 h prior to isolation of total RNA using the MagMax mirVana total RNA isolation kit (ThermoFisher Scientific, A27828). In addition...