Transcriptome Sequencing Analysis

Analyze the entire set of RNA transcripts to study gene expression profiles across different samples, conditions, or tissues. This platform provides a comprehensive workflow from raw sequencing data processing to functional interpretation of gene expression patterns.

Uncover gene expression dynamics and regulatory mechanisms.

Data Input

Upload your transcriptome sequencing data and associated metadata files.

FASTQ Files

Raw sequencing reads (.fastq, .fq, .fastq.gz, .fq.gz)

Sample Metadata

Experimental design, groups, conditions (.csv, .tsv)

Reference Genome

Select from database or upload custom:

Gene List (Optional)

Genes of interest for focused analysis

Experimental Design Summary

Number of Samples

0

Read Length (bp)

-

Sequencing Type

Quality Control

Set parameters for raw read quality assessment and preprocessing.

Quality Assessment

Read Filtering & Trimming

Advanced Options

Sequence Alignment

Align processed reads to the reference genome or transcriptome.

Alignment Method

Alignment Parameters

Post-alignment Processing

Expression Quantification

Calculate gene and transcript expression levels from aligned reads.

Quantification Method

Quantification Parameters

Normalization Methods

Differential Expression Analysis

Identify genes with significant expression differences between experimental groups.

Experimental Design

Analysis Method

Significance Thresholds

Functional Enrichment Analysis

Perform enrichment analysis on gene sets derived from your transcriptome data.

Enrichment Parameters

Hold Ctrl/Cmd to select multiple

Custom Gene Sets (Optional)

GMT, CSV, or TSV format gene sets

Gene Co-expression Network

Identify and analyze gene co-expression networks from transcriptome data.

Network Construction

WGCNA Parameters

Network Analysis Options

Data Visualization

Select and view interactive visualizations of your transcriptome analysis results.

QC Metrics

Quality scores, GC content, etc.

Expression Distribution

Gene expression across samples

PCA Analysis

Sample clustering by expression

Volcano Plot

Differentially expressed genes

Enrichment Results

GO/KEGG enrichment bar plots

Expression Heatmap

Clustered gene expression

Co-expression Network

Gene interaction networks

Expression Profiles

Gene expression across groups

Pathway Maps

KEGG pathway overlays

Analysis Results

View and download your transcriptome sequencing analysis results.

No results available yet. Please upload data and run analysis first.