Microbial Transcriptomics is one of the research methods to reveal the mechanism of the growth and development regulation of microorganisms, stress tolerance, disease resistance, and host-pathogen interaction. With the development of next-generation sequencing technology (NGS), the ability to generate large amounts of sequence data has revolutionized the microbial transcriptomics field. Here we provide a robust eukaryotic RNA sequencing (RNA-seq) using NGS and/or long-read sequencing for clinical medical research and agricultural applications.
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Eukaryotic RNA sequencing, based on high-throughput sequencing, refers to studying all transcripts of specific tissues or cells of eukaryotic organisms. it has been a powerful tool for studying the complexity of the eukaryotic transcriptome. According to the availability of reference transcriptomes/genomes or not, eukaryotic RNA-seq can be divided into reference-based transcriptome assembly and de novo transcriptome assembly. Here, we have established standardized eukaryotic RNA-seq platforms based on NGS, PacBio SMRT, and Oxford nanopore instruments to identify common and novel transcripts in microbial eukaryotes such as fungi and yeast, without bias. PacBio SMRT sequencing and Oxford nanopore sequencing can not only provide full-length transcript sequences, but detect more transcript overlaps, polycistronic RNAs, splice and transcript variants.
Eukaryotic RNA-seq detects both unknown and rare transcripts, provides quantitative analysis of transcripts, reveals differences in gene expression levels of different samples, and performs structural analysis for discovering variable splicing sites, gene fusions, SNPs and InDel sites. Eukaryotic RNA sequencing is important for revealing the regulation of gene expression in eukaryotic cells, exploring host-pathogen interaction, and monitor disease progression. We also provide microbial single-cell RNA-seq to advance our knowledge of microbial eukaryotes.
Our bioinformatics analyses include read QC, transcript assembly, statistics analysis, functional profiling, differential gene expression analysis and other analysis, which are flexible to your needs. Please feel free to contact us to discuss your project.
|Read QC||Filtering, trimming, optional error correction if possible|
|Transcript Assembly||Mapping to known genomes or transcriptomes; de novo assembly and annotation to protein database; outcome evaluation; transcript and isoform quantification|
|Statistics Analysis||Length distribution of transcripts and unigens; GC contents|
|Functional Profiling||NR, Swissport, KOG, KEGG, Pfam; analysis of KEGG metabolic pathways|
|Differential Gene Expression||Expression abundance analysis of genes and transcripts; gene differential expression analysis (clustering diagram, scatter diagram, volcanic diagram)|
|Other Analyses||Detection of SNV/SNP/InDel, SSRs, variable splicing, gene fusion; prediction of new transcript; negotiate and determine the content of customized information analysis based on customer needs|