Exciting VITAseer Upgrade: Enhancing Single-Cell Transcriptome Analysis for Eukaryotic and Prokaryotic Samples

Singapore, Feburary 2025 – We're excited to announce a major upgrade to the VITAseer software, designed to enhance the analysis of data from the VITA single-cell transcriptome platform. This powerful platform now supports a wider range of applications, including eukaryotic and prokaryotic organisms, along with mRNA, non-coding RNA, and a variety of sample types (fresh, frozen, fixed, and FFPE samples). To better serve evolving research needs, M20 Genomics has restructured VITAseer with three specialized analysis modules: VITAbasic, VITAeuk, and VITAprok.

• VITAbasic handles preprocessing analysis.
• VITAeuk and VITAprok provide deeper downstream analysis for eukaryotic and prokaryotic samples, respectively.

This update primarily focuses on the enhancements in VITAbasic, designed to improve data processing efficiency and flexibility, addressing the diverse needs of researchers. The updates aim to streamline workflows and provide more insightful results.

Structure of VITAseer

Key Upgrades:

1. Expanded Microbiome Functional Genome Analysis Module
The upgraded VITAbasic now includes a robust module for functional genome analysis of microbiomes. This new feature refines species genome data by eliminating redundancies and constructing a non-redundant functional gene database for comparison. In the analysis of single-cell transcriptomic data from microbiomes, a key improvement is the treatment of homologous genes. Previously, different homologous genes of the same functional gene, captured from separate bacterial cells, were annotated as distinct genes. However, with the new functional gene database, these homologous genes are now identified and annotated as a single functional gene. This advancement allows for more accurate analysis of the expression of homologous functional genes across different bacterial species, improving the understanding of functional gene expression within microbiomes.

2. Enhanced Databases & Improved Analysis Accuracy

• Human Genome Annotation Update: The human genome annotation file has been upgraded to the latest Gencode v47, ensuring precision in gene annotation.
• Microbiome Database Expansion: The addition of more species to the UHGG microbiome reference genome database broadens coverage and improves accuracy.
• Optimized Dimensionality Reduction and Gene Body Visualization: These improvements enhance clustering and data visualization experiences, making it easier to interpret complex data.

3. Streamlined Bioinformatics Workflow
VITAbasic offers a more intuitive and flexible analysis pipeline. Users can easily customize and adjust parameters, improving the clarity of bioinformatics workflows and the overall analysis process.

4. Improved Software Compatibility
VITAbasic supports multiple major operating systems, including CentOS 7.9, CentOS 8.10, and Ubuntu 24.04, ensuring seamless installation across different environments.

VITAseer serves as a cornerstone of the VITA platform, offering users a comprehensive data analysis solution—from raw data to gene expression matrices and further in-depth downstream analysis. With its powerful capabilities, it offers a comprehensive toolset for researchers in microbiome and transcriptomics studies. This upgrade makes it even easier for researchers to conduct in-depth analyses of diverse biological samples.

We remain committed to continuous improvements and innovations within the VITAseer software, empowering life sciences research to uncover new insights with ease and precision.

Stay tuned for more updates!