RNA-Seq & Microarray Analysis — Hands-on

Gain expertise in RNA-Seq and microarray analysis—QC, alignment/quantification, differential expression, batch correction, and pathway enrichment.

RNA-Seq & Microarray Data Analysis

Session Index

Session 1

Fee: Rs 6300

QC & Preprocessing

FASTQ structure, quality scores & initial QC (MultiQC)

FastQC MultiQC seqtk

Adapter/quality trimming & contamination screening

Cutadapt fastp FastQ Screen

Design matrices, metadata & sample randomization

Theory

Session 2

Fee: Rs 8400

Alignment/Quant & Differential Expression

Splice-aware alignment & count generation

STAR HISAT2 featureCounts

Alignment-free quantification & transcript-level summaries

Salmon Kallisto tximport

Differential expression pipelines & visualization

DESeq2 edgeR limma-voom

Session 3

Fee: Rs 11200

Batch, Splicing & Microarrays

Batch correction, QC metrics & exploratory analysis

sva/ComBat PCA/UMAP RSeQC

Differential splicing & isoform usage

DEXSeq rMATS SUPPA2

Microarray preprocessing & DE analysis (RMA/limma)

oligo/affy RMA limma

Session 4

Fee: Rs 14000

Mini Capstone: Omics Report & Enrichment

GSEA/ORA & pathway interpretation (KEGG/Reactome/GO)

clusterProfiler MSigDB Enrichr

End-to-end automation with provenance & dashboards

Snakemake R Markdown/Quarto pandas

Publication-ready figures: MA, volcano, heatmaps, PCA

ggplot2 ComplexHeatmap EnhancedVolcano

PDF

RNA-Seq & Microarray Data Analysis Training | STAR/Salmon, DESeq2/limma, Batch & Enrichment