Microarray technology is generating huge amounts of data about the expression level of thousands of genes, or even whole genomes, across different experimental conditions. To extract biological knowledge, and to fully understand such datasets, it is essential to include external biological information ab...
m6A mRNA methylation is closely related to the occurrence, development, immune invasion, drug sensitivity, and prognosis of cervical cancer. The prognostic m6A feature model of m6A signature genes can accurately predict the OS of patients with CESC. Drugs targeting factors regulating m6A mRNA methylati...
Also we will consider those genes with |Z| > 1.96 to be differentially expressed: + 1.96 (up-regulated) and -1.96 (down-regulated) scal <- function(x,y){ mean_n <- rowMeans(y) # mean of normal sd_n <- apply(y,1,sd) # SD of normal # z score as (value - mean normal)/...
Identification of immune-related hub genes and potential molecular mechanisms involved in COVID-19 via integrated bioinformatics analysis Rui Zhu Yaping Zhao Yingli Tao ResearchOpen Access02 Dec 2024Scientific Reports Volume: 14, P: 29964 ChIP-DIP maps binding of hundreds of proteins to DNA simultaneo...
We identified 259 shared differentially expressed genes (sDEGs) that can separate both T2D and ccRCC patients from control samples. Local correlation analysis based on the expressions of sDEGs indicated significant association between T2D and ccRCC. Then ten sDEGs (CDC42, SCARB1, GOT2, CXCL8, ...
of two sugarcane types, screened 38 candidate hub genes, to comprehend the molecular basis of sugarcane smut resistance in greater detail, and provided new genetic resources for sugarcane smut resistance breeding [13]. Wang et al. carried out WGCNA analysis on two varieties of rice at seven ...
The “DotPlot” function was then used to visualize the expression level of marker genes in a single cluster [20]. These clusters are assigned to known cell lineages by marker genes. Clusters of cells are identified using the K-nearest neighbor (KNN) algorithm and the “FindClusters” ...
Quality control of single-cell RNA sequencing data was executed with the following criteria: > 200 genes/cell, < 3000 genes/cell, > 3 cells/gene, and < 20% mitochondrion genes. The batch effect of 9 samples was eliminated using IntegrateData of Seurat packages [32]. The...
Neuroticism is a personality trait, which is an important risk factor for psychiatric disorders. Recent genome-wide studies reported about 600 genes potentially influencing neuroticism. Little is known about the mechanisms of their action. Here, we aimed
Our data revealed that, compared with SETD2 nonmutant patients, SETD2 mutant patients had higher tumor mutation burden and microsatellite instability. In addition, the transcriptions of most genes related to immune activities were upregulated in patients with SETD2 mutant tumors. Further examination...