Our Metranscriptomics platform elucidates three aspects of a microbial community, including gene activity diversity, gene expression abundance, and differential gene expression analysis by utilizing the most advanced next and third generation sequencing technologies and integrated bioinformatics analysis. The gene expression analysis can tell which genes exhibit the highest change in expression levels in different conditions to identify potential biomarkers and expression signatures.
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Metatranscriptomics is the study of the function and activity of the complete set of transcripts from environmental samples. It reveals the transcripts of metagenomes and the rule of transcriptional regulation in certain circumstances, and/or certain period at a holistic level. One significant advantage of metatranscriptomics is the avoidance of isolation and culture of certain microbial species, which effectively expand the available space of resources.
Our workflow for metatranscriptomics studies generally includes four parts: sample preparation, library preparation, high-throughput sequencing, and integrated bioinformatics analysis. We have a wide range of sequencing platforms, including Sanger sequencing, Illumina MiSeq/HiSeq, Roche 454, and PacBio SMRT sequencing systems. The appropriate sequencing strategies are determined based on your sample type and research purpose. Comprehensive and custom bioinformatics analyses are conducted by our experienced expert team.
The raw data of sequencing will have a certain proportion of low-quality data. So, the raw data need to be pre-processed to obtain clean data. Our bioinformatics Analysis primarily includes functional annotation, expression analysis, taxonomic analysis, enrichment analysis, comparative analysis.
|Bioinformatics analysis||Problems to be solved|
|Raw data preprocessing||Filter low-quality data and remove adapter sequence to get clean data|
|Expression analysis||Gene expression profiling of a certain population|
|Enrichment analysis||KEGG pathway||Gene-enriched signaling pathway, linking genomic information with higher order functional information.|
|GO analysis||Gene product annotations in the areas of molecular function, biological process and cellular component|
|eggNOG/COG||Annotation of orthologous groups of genes, prediction of evolutionary genealogy of genes|
|Multi-sample comparative analysis||Clustering||Discover classifications within complex data sets|
|PCoA||Differences in functional distribution between different samples, explore the functional composition of multiple samples|
|Correlation analysis||Network analysis||Study the relationships between microbes and environmental factors|
RIN ≥ 7.0, 28s/18s ≥ 1.5, no DNA contamination.
RNA amount ≥ 6 μg, concentration ≥ 50 ng/μL
Deliverables: raw sequencing data (FASTQ), clean data, trimmed and stitched sequences (FASTA), quality-control dashboard, sample contamination report, statistic data, and your designated bioinformatics result report.