At 1st BASE, we offer an assortment of standard to personalised bioinformatics options to translate these data into useful information that is critical to complete the picture.

For Standard Bioinformatics Analysis, you may request demo report before committing the project. Should you need custom analysis to be conducted, please feel free to contacts us.

All project information and data are kept confidential. Non-disclosure agreement is available upon request. All sequencing raw data and analysed data have the delivery options of either downloading through our secure servers (Cloud or Web Services) or through Illumina BaseSpace account. We are also able to send the NGS data in flash drive or external hard disk to you if you have concern about your internet download speed.

Standard Bioinformatics Analysis

Name of ServiceService DescriptionProduct No.
Whole Genome Re-sequencing
*For human, animal, plant, fungi, bacterium, virus, or insect
    • Sequence QC
    • Mapping onto reference genome; statistics of sequencing depth and coverage
    • Variant (SNP & InDel) calling, annotation and statistics
NGS-0100 Series
De novo Whole Genome Sequencing
*For fungi, bacterium, or virus
    • Sequence QC
    • De novo assembly for genome size <10Mb
    • Gene Prediction
NGS-0200 Series
Low Coverage Whole Genome Sequencing
*For animal, plant, or insect
    • Sequence QC
    • Tabulation of variants in vcf table
    • Tabulation of Phylogeny
NGS-0300 Series
Whole Exome Sequencing
*For human or mouse
    • Sequence QC
    • Mapping onto reference genome; statistics of sequencing depth and coverage
    • Variant (SNP & InDel) calling, annotation and statistics
    • Somatic variant (SNP, InDel or CNV) calling, annotation and statistics (paired tumor samples)
NGS-0400 Series
Transcriptome Re-sequencing
*For mRNA, small RNA or lnRNA
    • Sequence QC
    • Mapping Reads to Reference Genome (provided by customer)
    • Gene Expression Quantification
    • Correlation analysis (For biological replicates only)
    • Differential Expression Analysis (two or more groups of samples)
    • GO Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
    • KEGG Pathway Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
NGS-0500 Series
De novo Transcriptome Sequencing
*For mRNA only
    • Sequence QC
    • De novo Transcriptome Assembly
    • Gene Functional Annotation Using different databases (e.g. NR, NT, KO, Swiss-Prot, GO and/or PFAM)
    • GO, COG, KEGG Classification
    • CDS Prediction
    • Gene Expression Analysis
    • Correlation analysis (For biological replicates only)
    • Differential Expression Analysis (two or more groups of samples)
    • GO Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
    • KEGG Pathway Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
Shotgun Metagenomics Sequencing
*For environmental DNA
    • Sequence QC
    • Filtering host genome sequences
    • Assembly
    • Species annotation (microorganic sequences extracted from NCBI NR database)
    • Gene prediction
    • Gene annotation (KEGG, eggNOG, CAZy database)
    • Species/Gene/Function abundance statistics and cluster analysis
    • Comparative analysis (among samples)
Amplicon Sequencing (16s/18s/ITS) – OTU Clustering
*For bacterial 16s region (v1-v3, v4, v3-v4, v4-v5, v4-v6 or v7-v9)
*For archaeal 16s region (v4, v3-v5 or v3-v6)
*For eukaryotic 18s region (v4 or v9)
*For fungal ITS region (ITS1 or ITS2)

Note1: Underlined = popular region.
Note2: If you have any target taxonomy in the standard analysis, the selection of the specific region must refer to the existing literature review.

    • Sequence QC
    • OTUs (Operational Taxonomic Units) Clustering and Filtering
    • OTUs Analysis and Species Annotation, including KRONA results, OTUs Heatmap, Taxonomic Abundance and up to 5 Venn diagrams
    • Alpha-diversity Analysis, including Alpha Indices table with ANOVA, Rarefaction curve, Rank abundance curve
    • Beta-diversity Analysis, including Ordination (CCA, RDA, DPCoA, NMDS, MDS, PCoA), Unifrac distance analysis, UPGMA (Unweighted Pair-group Method with Arithmetic Means)
    • Phylogenetic Trees, including OTU co-occurrence networks & Metacoder
    • Statistics Between Groups: DESeq2, ANOSIM, LEfSE
    • Metagenome Functional Prediction using Picrust2
Amplicon Sequencing (16s/18s/ITS) - DADA2
    • Data QC and trimming
    • Amplicon Sequence Variants (ASV) table
    • Taxonomic characterization
    • Alpha diversity analysis
    • Beta diversity analysis
    • Phylogenetic tree
Metabarcoding Sequencing
*For any custom gene used for DNA barcoding
    • Sequence QC
    • OTUs (Operational Taxonomic Units) Clustering and Filtering
    • Species Annotation by comparing unique sequences against a curated reference database from NCBI
    • OTU Analysis, including KRONA results, OTUs Heatmap, Taxonomic Abundance and up to 5 Venn diagrams*.
    • Alpha-diversity Analysis, including Alpha Indices table with ANOVA, Rarefaction curve, Rank abundance curve.
    • Beta-diversity Analysis, including Ordination (CCA, RDA, PCoA, NMDS, MDS) and PCoA Plots.
Whole Genome Bisulfite Sequencing (WGBS)
*For human only
    • Sequence QC
    • mCs detection, methylation level calculation
    • Methylation level and frequency distribution
    • Differentially Methylated Site (DMS) detection
    • Differentially Methylated Regions (DMRs), Differentially Methylated Promoter (DMPs) detection and annotation
    • Function enrichment of DMR-associated genes and DMP-associated genes
    • Visualization of BS seq data
    • Comparative analysis (among samples)
ChIP (Chromatin Immuno Precipitation) Sequencing
*For any organism with suitable reference genome available
    • Sequence QC
    • Mapping onto reference genome
    • Peak calling
    • Motif prediction
    • Peak annotation and functional analysis of peak-associated genes
    • Summary of differential peaks and functional analysis of differential peak related genes
    • Visualization of ChIP-seq data

 

Custom Bioinformatics Analysis

Name of ServiceService DescriptionProduct No.
Customized Analysis Hybrid WGS Bacterium
    • Data trimming to pick out the best reads comprising 40X coverage
    • Assemble the reads into long contigs, polish the assembly using the PacBio reads
    • Error correction with Illumina clean reads
    • Annotate the assembled genome with open reading frames
    • Assembly of Plasmids
NGS-0108
Customized Analysis Hybrid WGS Fungi
    • Data trimming to pick out the best reads comprising 40X coverage
    • Assemble the reads into long contigs, polish the assembly using the PacBio reads
    • Error correction with Illumina clean reads
    • Annotate the assembled genome with open reading frames 
NGS-0109
Customized Analysis for Data Integration (DNA and RNA)
    • Data intergration from whole genome sequencing (hybrid assembly of Pacbio long reads and Illumina short reads) and (no.) sets of Transcriptomic data (6Gb/12Gb each)
    • Assemble the reads into long contigs with RNA evidences
    • Annotate the assembled genome with open reading frames
    • Deliverables in fna and gtf format
NGS-0112

 

For others, please enquire.

Step 1: Download Order Form

Download and complete Order Form (under Downloads tab) with your order requirements.

For the source of sample(s) derived from inactivated pathogenic agents, we will need you to fill-up Biosafety Declaration Form (from Download Tab) to confirm the acceptance of your Order.

For NGS order requires Standard Bioinformatics Analysis, we will email you the respective Bioinformatics (BI) Analysis Form separately. We need the BI Analysis Form to reach us before the sequencing raw data is available to avoid delays in releasing the results.


Step 2: Email
 the form to our email address below:

Singapore
Email: ngs@axilscientific.com
Tel: +65 6775 7318

Malaysia / International
Email: ngs@apicalscientific.com
Tel: +603 8943 3252

For customers who ship or courier us the orders directly, please indicate your airway bill number or courier tracking number in your email to ensure speedy processing of your orders.


Click below for Guides on Preparations and Requirements

Download
Technical Bulletin
Biosafety Declaration Form

 

What our Customers Say about our NGS Services:

"We tried a couple of NGS service providers and eventually chosen Axil Scientific as our long-term service provider. The turnaround time for the service is fast (5-7 working days). In general, we are quite satisfied with the service and the quality of the data."

Simon Ng, A*STAR



"The team members from Axil Scientific had generously awarded us with an amazing technical and scientific supports as a one-stop solution for all our needs from library preparation to target identifications and personalized bioinformatics solutions. The team had helped us to prepare for the highest quality transcriptome sequencing data from the beginning of workflow, and offered effective steps to the troubleshooting at all stages. The bioinformatics solutions are of best quality covering all computationally intensive stages from reads mapping, transcripts alignments and downstream discovery analysis. I am amazed with the resultant output datasets which are very comprehensive, listing all detailed statistical data generated at each step. Given the complexity of getting pure subpopulations from cancer cells after undergoing fluorescence-activated cell sorting, we succeeded to achieve good QC and able to sequence with alignment rate of over 97% from low input RNA samples. Looking at the high quality and vast amount of data we have generated in short period of time, this has given us a unique opportunity and advantage to speed up the analysis. Time is always the limiting factor in science and by receiving supports from group of experts in Axil, we definitely find better solutions. Thank you very much to Axil Scientific for the NGS service award given and for supporting our research."

Siti Sarah Daud, NUS



“Axil provide a very good NGS service, the whole 16s rDNA sequencing takes only about 2 weeks, which is very fast and helpful to my research. The quality of their NGS result is good for the following bioinformatics analysis. Besides, the product specialist, Mr. Yu Tiam Meng, is a very nice and polite man, and he is one of the best product specialist I have even met in Singapore.”

Yang Yi, NUS



“It was a pleasure working with 1st base. They were fast and responded quickly to our inquiries and efficient in obtaining the samples, generating libraries and sequencing our RNA. Their customer service was good with clear communications and the data was easy to access. We are still analysing our data but so far it seems to be of high quality and sufficient coverage for our purposes. We look forward to working with them in the future.”

Aaron Irving, DUKE-NUS



“The service that I got from 1st BASE was excellent in every respect.”

Md. Monjurul Alam, Bangladesh Jute Research Institute