Microbiome Profiling ONT

Microbiome Profiling

Microbiome Profiling Analysis

The Microbiome profiling analysis for full-length 16S sequencing (using ONT) includes quality assessment, taxonomic classification, diversity analyses, and reporting, offering a comprehensive understanding of microbial data.

Highlights

Quality Assessment & Filtering of Raw Sequencing Data
The initial step involves assessing the quality of the raw sequencing data. This includes identifying and removing low-quality reads and potential contaminants to ensure the integrity of the dataset.
Taxonomic Classification
Following quality filtering, the next step is to classify the sequences taxonomically. This involves assigning taxonomic labels to the sequences based on reference databases, allowing for the identification of the organisms present in the sample.
Beta Diversity Analysis
Beta diversity analysis is performed to evaluate the differences in species composition between different samples. This step helps in understanding the variability in community structure across the samples.
Principal Co-ordinate Analysis (PCoA)
PCoA is a statistical technique used to visualize the similarities or dissimilarities between samples based on their beta diversity metrics. This analysis provides a graphical representation of the data, aiding in the interpretation of complex relationships.
Alpha Diversity Analysis
Alpha diversity analysis assesses the diversity within a single sample. Various indices are calculated to quantify species richness and evenness, providing insights into the complexity of the microbial communities.
Reporting
The final step involves compiling all the findings into a comprehensive report. This report summarizes the analysis, presents visualizations, and interprets the results in the context of the research objectives.

Deliverables

Raw data (FASTQ.GZ): The unprocessed sequencing data in compressed FASTQ format.
Cleaned data (FASTQ.GZ): The filtered and quality-assessed sequencing data in compressed FASTQ format.
Taxa-level abundance tables (TSV): Tables summarizing the abundance of different taxa identified in the samples, formatted as TSV files.
Taxa-level abundance plots (PNG): Visual representations of taxa-level abundances, provided as PNG images.
PCoA Plot (PNG): A graphical representation of the Principal Co-ordinate Analysis, illustrating the relationships between samples, provided as a PNG image.
Heatmap (PNG): A heatmap visualizing the abundance of taxa across samples, provided as a PNG image.
Alpha diversity indices table (TSV): A table containing various alpha diversity indices calculated for each sample, formatted as a TSV file.
Analysis Summary Report (HTML): A comprehensive report summarizing the analysis process, findings, and interpretations, presented in HTML format.