-
Whole transcriptome sequencing – Illumina
Whole transcriptome sequencing is designed to profile all types of RNA molecules, including coding (mRNA) and non-coding RNAs (including lncRNA, circRNA and miRNA) which are transcribed by specific cells at a certain time. Whole transcriptome sequencing, also known as “total RNA sequencing” aims at revealing comprehensive regulatory networks at transcriptome level. Taking advantage of NGS technology, sequences of entire transcriptome products are available for ceRNA analysis and joint RNA analysis, which provides the first step towards functional characterization. Revealing regulatory network of circRNA-miRNA-mRNA based ceRNA.
-
Chromatin Immunoprecipitation Sequencing (ChIP-seq)
ChIP-Seq provides genome-wide profiling of DNA targets for histone modification, transcription factors, and other DNA-associated proteins. It combines the selectivity of chromatin immuno-precipitation (ChIP) to recover specific protein-DNA complexes, with the power of next-generation sequencing (NGS) for high-throughput sequencing of the recovered DNA. Additionally, because the protein-DNA complexes are recovered from living cells, binding sites can be compared in different cell types and tissues, or under different conditions. Applications range from transcriptional regulation to developmental pathways to disease mechanisms and beyond.
Platform: Illumina NovaSeq Platform
-
Metagenomic Sequencing -NGS
Metagenome refers to a collection of total genetic material of a mixed community of organisms, such as environmental metagenome, human metagenome, etc. It contains genomes of both cultivatable and uncultivatable microorganisms. Metagenomic sequencing is a molecular tool used to analyze the mixed genomic materials extracted from environmental samples, which provides detailed information in species diversity and abundancy, population structure, phylogenetic relationship, functional genes and correlation network with environmental factors.
Platform：Illumina NovaSeq Platform
-
Metagenomic Sequencing-Nanopore
Metagenomics is a molecular tool used to analyse the mixed genomic materials extracted from environmental samples, which provides detailed information in species diversity and abundancy, population structure, phylogenetic relationship, functional genes and correlation network with environmental factors, etc. Nanopore sequencing platforms has recently introduced to metagenomic studies. Its outstanding performance in read length largely enhanced down stream metagenomic analysis, especially metagenome assembly. Taking advantages of read-length, Nanopore-based metagenomic study is able to achieve more continuous assembly comparing with shot-gun metagenomics. It has been published that Nanopore-based metagenomics successfully generated complete and closed bacterial genomes from microbiomes (Moss, E. L., et. al, Nature Biotech, 2020)
Platform：Nanopore PromethION P48
-
Whole genome bisulfite sequencing
DNA methylation at the fifth position in cytosine (5-mC) has a fundamental influence on gene expression and cellular activity. Abnormal methylation patterns have been associated with several conditions and diseases, such as cancer. WGBS has become the gold standard for studying genome-wide methylation at single base resolution.
Platform: Illumina NovaSeq Platform
-
Assay for Transposase-Accessible Chromatin with High Throughput Sequencing (ATAC-seq)
ATAC-seq is a high-throughput sequencing method for analysis of genome-wide chromatin accessibility, which is important for global epigenetic control of gene expression. Sequencing adapters are inserted into open chromatin regions by hyperactive Tn5 transposase. After PCR amplification, a sequencing library is constructed. All the open chromatin regions can be obtained under a specific space-time condition, not only limited to the binding sites of a transcription factor, or a certain histone modified region.
-
16S/18S/ITS Amplicon Sequencing-PacBio
The subunit on 16S and 18S rRNA containing both highly conserved and hyper-variable regions is a perfect molecular fingerprint for prokaryotic and eukaryotic organisms identification. Taking advantage of sequencing, these amplicons can be targeted based on the conserved parts and the hyper-variable regions can be fully characterized for microbial identification contributing to studies covering microbial diversity analysis, taxonomy, phylogeny, etc. Single-molecule real-time(SMRT) sequencing of PacBio platform enables obtaining of highly accurate long reads, which could cover full-length amplicons (approx. 1.5 Kb). The widen view of genetic field greatly enhanced the resolution in species annotation in bacteria or fungi community.
Platform：PacBio Sequel II
-
16S/18S/ITS Amplicon Sequencing-NGS
16S/18S/ITS amplicon sequencing aims at revealing phylogeny, taxonomy, and species abundance in a microbial community by investigating PCR products of housekeeping genetic markers that contain both highly conversed and hypervariable parts. The introduction of these perfect molecular fingerprint by Woeses et al,(1977) empowers isolation-free microbiome profiling. Sequencing of 16S (bacteria), 18S (fungi) and Internal transcribed spacer(ITS, fungi) allows identification of both abundant species as well as rare and unidentified species. This technology has becoming a widely applied and major tool in identifying differential microbial composition in various environments, such as human mouth, intestines, feces, etc.
Platform：Illumina NovaSeq Platform
-
Bacterial and Fungal Whole Genome Re-Sequencing
Bacterial and fungal whole genome re-sequencing is a critical tool to complete the genomes of known bacterium and fungi, as well as to compare multiple genomes or to map genomes of new organisms. It is of great importance to sequence entire genomes of bacterium and fungi in order to generate accurate reference genomes, to do microbial identification and other comparative genome studies.
Platform:Illumina NovaSeq Platform
-
PacBio-Full-length 16S/18S/ITS Amplicon Sequencing
Amplicon (16S/18S/ITS) platform is developed with years of experience in microbial diversity project analysis, which contains standardized basic analysis and personalized analysis: basic analysis covers the mainstream analysis content of current microbial research, the analysis content is rich and comprehensive, and analysis results are presented in the form of project reports; The content of personalized analysis is diverse. Samples can be selected and parameters can be set flexibly according to the basic analysis report and research purpose, to realize personalized requirements. Windows operating system, simple and fast.
-
PacBio-Full-length Transcriptome (Non-Reference)
Taking Pacific Biosciences (PacBio) Isoform sequencing data as input, this App is able to identify full-length transcript sequences (without assembly). By mapping full-length sequences against reference genome, transcripts can be optimized by known genes, transcripts, coding regions, etc. In this case, more accurate identification of mRNA structures, such as alternative splicing, etc, can be achieved. Joint analysis with NGS transcriptome sequencing data enables more comprehensive annotation and more accurate quantification in expression at transcript level, which largely benefits downstream differential expression and functional analysis.
-
Reduced Representation Bisulfite Sequencing (RRBS)
DNA methylation research has always been a hot topic in disease research, and is closely related to gene expression and pheno-typic traits. RRBS is an accurate, efficient and economical method for DNA methylation research. Enrichment of promoter and CpG island regions by enzymatic cleavage (Msp I), combined with Bisulfite sequencing, provides high resolution DNA methylation detection.
Platform: Illumina NovaSeq Platform
