SERVICES

To get a quote for your project contact us with the type of services you are interested in and we will get in touch with you shortly!

AMPLICON DATA BASED SERVICES

  • Barcode primer check
  • Library preparation
  • Arrange sequencing
  • Demultiplexing samples
  • Quality control, decontamination and chimera filtering
  • Taxonomic assignment
  • Community data (in OTU or ASV format)
  • Krona plot 
  • Functional prediction based on 16S rRNA gene data

METAGENOMIC SERVICES FOR ILLUMINA SHORT READ DATA

We can perform Nanopore Minion sequencing in our lab and can conduct work as follows:

  • Library preparation prior to sequencing
  • Sequencing
  • Effective raw reads calling with powerful GPU
  • Quality control on sequencing data
  • Assembly and gene calling
  • Genomic binning to MAGs
  • Taxonomic and functional annotation
  • Pathway analysis
  • Phylogenetic tree of MAGs

METAGENOMIC SERVICES FOR OXFORD NANOPORE LONG READ DATA

  • Raw data (paired-end or single-end) quality check
  • Decontamination
  • Assembly short reads to contigs (long reads)
  • Gene calling, quantification from contigs
  • Genomic binning (Metagenome-Assembled Genomes, MAGs) and taxonomic assignment
  • Functional annotation for genes on contigs or MAGs
  • Pathway analysis based on contigs or MAGs
  • Phylogenetic tree of MAGs

METATRANSCRIPTOMIC ANALYSIS SERVICES (Illumina)

  • Raw data (paired-end or single-end) quality check
  • Assembly and gene calling
  • Functional and taxonomic annotation of genes

CONSULTATION SERVICES

  • Consultation on experiment design
  • Data analysis strategy
  • Recommendation of right sequencing platform suitable to answer your question
  • Quotation of service

DOWNSTREAM ANALYSIS AND BIOSTATISTICS

  • Rarefaction and rank abundance curve
  • Alpha diversity and beta diversity
  • Indicator species
  • Generalist and specialist species
  • Dissimilarity measure calculations (e.g. Bray-Curtis, Euclidian, Jaccard distance)
  • Ordination (e.g. PCA, CA, NMDs, PCoA, CCA)
  • Correlation with environmental and chemical measurements
  • Network analysis (dissimilarity- or correlation-based) 
  • Module/cluster identification from network
  • Data visualization in various format (e.g. bubble plot, heatmap, Venn diagram, Chord diagram, Sankey or custom advance plots)
  • PERMANOVA (e.g. adonis, db-RDA)
  • Mantel test
  • LEfSe (Liner discriminant analysis effect size) differential abundance analysis
  • Structural equation modelling (Path analysis, confirmative factor analysis)

ACESSORY SERVICES

  • Raw data download from your service company
  • Data submission to Archive database (e.g. SRA, ENA, DDBJ)
  • Raw data storage on local machine
  • Reference database for specific genes, proteins or taxonomic groups
  • Manuscript assistant in bioinformatics and statistics
  • Cooperation (e.g. bioinformatic partner) in funding application