myBrain-Seq

myBrain-Seq performs comprehensive analysis of microRNA sequencing (miRNA-Seq) data to identify differentially expressed miRNAs and perform pathway-enrichment analyses for neuropsychiatric research.

Key Features:

• Reproducibility and Standardization: Integrates widely used tools to provide a standardized, reproducible workflow for miRNA-Seq analyses.
• Quality control and preprocessing: Includes quality control and preprocessing of raw sequencing data specific to miRNA-Seq.
• Normalization: Performs normalization of count data prior to differential expression analysis.
• Differential Expression Analysis: Uses DESeq2 and EdgeR to identify differentially expressed microRNAs (DE miRNAs) between conditions.
• Functional and Pathway Analysis: Conducts pathway-enrichment analyses to assign biological meaning to DE miRNAs and support biomarker identification.
• Result integration: Integrates differential expression and pathway-enrichment results into a coherent framework highlighting potential biological pathways.

Scientific Applications:

• Schizophrenia and treatment-resistant schizophrenia (TRS): Applied to studies of schizophrenia and TRS, including derivation of a 16-miRNA profile distinguishing TRS patients from medication-responsive patients.
• Diagnosis and prognosis: Supports identification of diagnostic and prognostic miRNA signatures in neuropsychiatric research.
• Mechanistic studies: Enables exploration of molecular mechanisms underlying neuropsychiatric conditions through integration of DE miRNAs and pathway-enrichment analyses.

Methodology:

Quality control and preprocessing of raw miRNA-Seq data, normalization of counts, differential expression analysis using DESeq2 and EdgeR, pathway-enrichment analyses, and integration of results into a coherent framework.