Squamous cell lung cancer (SqCC) is the second most common type of lung cancer in the United States. Previous studies have used gene-expression data to classify SqCC samples into four subtypes, including the primitive, classical, secretory and basal subtypes. These subtypes have different survival ...
Interestingly, this module is most likely involved in epithelial homeostasis and its dysregulation might contribute to the malignant process in cancer cells. Our results show that a robust module network analysis of expression data can provide novel insights of miRNA function in important cellular ...
Relevant clinical data were downloaded from TCGA Prostate Cancer and TCGA Bladder Cancer databases. Heat maps of these genes were drawn in Xena Browser. Differential gene expression analyses with RNA-seq data in unit log(TPM + 0.001) for these genes were performed between these two groups ...
miRNAs as targets for cancer treatment: therapeutics design and delivery Jasjit K. Banwait, Dhundy R. Bastola, in Advanced Drug Delivery Reviews, 2015 5.1.3 Expression data-based approaches With the advancement of the microarray and the RNAseq technologies, many gene expression studies have been ...
Survival analysis on gene expression (RNA-seq) in bladder cancer TCGA data - hamidghaedi/RNA-seq-survival-analysis
Gene set enrichment (GSE) analysis is a popular framework for condensing information from gene expression profiles into a pathway or signature summary. The strengths of this approach over single gene analysis include noise and dimension reduction, as wel
Expression genetics: a different approach to cancer diagnosis and prognosis MingZhang, ...RuthSager, inTrends in Biotechnology, 1998 Gene-expression fingerprints of the human breast-tumor cell lines MDA-MB-435 (left) and ZR-75-1 (middle). Gene-expression levels are color-coded to indicate the...
Data processing for applications using breast cancer RNA expression data We applied DGCA to the breast cancer RNA-seq data from The Cancer Genome Atlas (TCGA) [35] under two scenarios: a) the samples with and without a p53/PTEN mutation and b) the estrogen receptor-positive (ER+) samples ...
A python package and a set of shell commands to handle GTF files bioinformaticsgenerna-seqgenomicscdsngsttstranscriptbigwigchip-seqgtfbedexontssdna-sequencesgenomicintronsplicing UpdatedJun 18, 2024 Python Camoco is a fully-fledged software package for building co-expression networks and analyzing the...
Expression analysis for KGs by GEPIA web-tool with TCGA RNA-seq data To validate the expression levels of key genes, a gene expression profiling interactive analysis (GEPIA) tool (http://gepia.cancer-pku.cn/) was used to explore the related data in TCGA databases, and to analyse the expres...