Babelomics

Babelomics provides functional analysis of gene expression and genomic data, supporting Next Generation Sequencing (NGS) workflows including RNA-seq, exome sequencing, and genome resequencing.

Key Features:

• NGS support: Supports Next Generation Sequencing (NGS) data including RNA-seq, exome sequencing, and genome resequencing.
• Primary data analysis: Performs normalization and initial processing of raw sequencing data.
• Experimental design tests: Implements a variety of experimental design tests tailored to different experimental setups.
• Functional enrichment and network analysis: Performs functional enrichment analysis and network interpretation using advanced algorithms to contextualize results within biological pathways and networks.
• Visualization: Includes a genome viewer and an interactive network viewer for genomic data visualization.
• Secondary analysis and statistical methods: Supports signature identification, predictor development, association studies, transmission disequilibrium tests (TDTs), and clustering algorithms.
• Multi-omics integration: Integrates transcriptomic, proteomic, and genomic data and supports gene set approaches for relating genomic data.

Scientific Applications:

• Transcriptomics analysis: Enables functional interpretation of transcriptomic datasets such as RNA-seq.
• Genomics and variant analysis: Supports analysis of exome and genome resequencing data for genomic studies and association analyses.
• Proteomics integration: Facilitates integration of proteomic data with gene expression and genomic analyses.
• Pathway and network interpretation: Enables pathway-level and network-level interpretation via enrichment and network analysis.
• Biomarker and signature discovery: Supports signature identification and predictor development for biomarker discovery.

Methodology:

Methods explicitly supported include normalization and initial processing of raw sequencing data, calls, signature identification, predictor development, association studies, transmission disequilibrium tests (TDTs), clustering algorithms, and functional enrichment and network analysis.