Off-target analysis of siRNA knock down paired with RNAseq

A script to analyze with DESeq2 data from Kallisto. You maybe are interested only in DESeq2 part and its analisis and representation :)

Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last…

Post processing of Capture-C experiments

Performing RNA-seq data analysis with DESeq2 package of bioconductor

RNA-seq replication analysis.

DESeq2 Analysis of Human Airway Smooth Muscle Cells

Breast Cancer Dataset Analysis

Automated DE analysis by DESeq2

Tutorial for RNA sequence data processing and simple downstream analysis with Drosophila melanogaster

Jupyter notebooks for DGE results and ontology analysis and visualisation.

Differential Gene Expression (DGE) Analysis with DESeq2 using a reference genome

DESeq2 Analysis and visualization of specific genes, notably Pasilla. Script aims to identify and filter differentially expressed genes and neatly store the results. The project also includes Gene Ontology (GO) and Kegg pathway analyses, providing insights into the biological processes affected by the Pasilla gene depletion.

Part of the final project for an Intro to Bioinformatics graduate course. Using RStudio I ran DESeq2 to show differentially expressed genes between control mice and mice infected with RSV.

Analysis of B. saida full liver transcriptome data from raw reads to gene ontology.

Performing RNA-Seq data analysis and quality control using DESeq2 in R.

Differential expression analysis: DESeq2, edgeR, limma. Realized in python based on rpy2

https://foreverstas.github.io/DGE_workshop_rus/

Template R code for bioinformatics analysis pipeline of transcriptomic Illumina datasets

Normalizing RNA-Seq Data