FAQ

FAQ

Do you accept samples from international researchers?

Yes we do. Our sequencing services are readily available worldwide.

What sequencing services do you offer?

We have extensive experience in providing whole genome sequencing (WGS) and now, with the recent validation of the NovaSeq 6000, can apply our expertise and laboratory skills to a broader range of sequencing to suit your projects needs.

Services cover a range of sequencing applications including; 

  • Whole Genome Sequencing
  • Whole Exome Sequencing 
  • Targeted Sequencing
  • Single-cell RNA-Seq 
  • Transcriptomics
  • DeNovo Sequencing 
  • Linked-read sequencing 

We are happy to discuss other applications of the sequencing service to try and fit your needs.

What is the online manifest?

Researchers are given access to an online electronic manifest into which several sample characteristics, required for the processing of the sample, must be entered. The manifest is pre-filled with a barcode corresponding to each FluidX 2D tube provided for your samples. The barcode provides a unique identification code for each submitted sample.

How is data delivered?

Data will be delivered via DNAnexus, a cloud-based platform. Your data will be shipped with a detailed project summary report describing the yield and quality of sequence data for each sample. With your data, you will also find documentation that describes the file structure of your sequencing data and a project summary report. In accordance with our terms and conditions, we guarantee yield ≥100Gb and Q30 ≥75% of bases.

Can I view data from a reference sample that has been sequenced on your HiSeq X Ten platform?

These data are from the Coriell Cell Repository NA12878 reference cell line, which has been extensively analysed by the Genome in a Bottle Consortium. The sequencing libraries were generated with Illumina’s TruSeq Nano V2.5 kit using the Hamilton Microlab STAR robotics platform, achieving >400bp inserts. Each library was sequenced on a single lane of an Illumina HiSeq X patterned flow cell, achieving over 130Gb of yield, with > 83% of bases with quality > Q30 in just 2.8 days. The four data sets are of similar quality, and are provided to allow you to assess the reproducibility of the technology. Each data set substantially surpasses the minimum coverage and quality guaranteed by Illumina and is indicative of the potential for the Illumina HiSeq X Ten sequencing system.

Each of the four datasets consists of raw paired-end data (fastq.gz files) and results obtained with the GATK DNAseq best practices pipeline run on each library independently with the recommended parameters for whole genome sequencing.

Download the data to your computer or server, using the links below.

Human Sample Data

  Replicate 1 Replicate 2
FASTQ R1 NA12878_V2.5_Robot_1_R1.fastq.gz NA12878_V2.5_Robot_2_R1.fastq.gz
FASTQ R2 NA12878_V2.5_Robot_1_R2.fastq.gz NA12878_V2.5_Robot_2_R2.fastq.gz
BAM NA12878_V2.5_Robot_1.dedup.realigned.recalibrated.bam NA12878_V2.5_Robot_2.dedup.realigned.recalibrated.bam
BAI NA12878_V2.5_Robot_1.dedup.realigned.recalibrated.bam.bai NA12878_V2.5_Robot_2.dedup.realigned.recalibrated.bam.bai
VCF NA12878_V2.5_Robot_1.hc.vqsr.vep.vcf.gz NA12878_V2.5_Robot_2.hc.vqsr.vep.vcf.gz
TBI NA12878_V2.5_Robot_1.hc.vqsr.vep.vcf.gz.tbi NA12878_V2.5_Robot_2.hc.vqsr.vep.vcf.gz.tbi
  Replicate 3 Replicate 4
FASTQ R1 NA12878_V2.5_Robot_3_R1.fastq.gz NA12878_V2.5_Robot_4_R1.fastq.gz
FASTQ R2 NA12878_V2.5_Robot_3_R2.fastq.gz NA12878_V2.5_Robot_4_R2.fastq.gz
BAM NA12878_V2.5_Robot_3.dedup.realigned.recalibrated.bam NA12878_V2.5_Robot_4.dedup.realigned.recalibrated.bam
BAI NA12878_V2.5_Robot_3.dedup.realigned.recalibrated.bam.bai NA12878_V2.5_Robot_4.dedup.realigned.recalibrated.bam.bai
VCF NA12878_V2.5_Robot_3.hc.vqsr.vep.vcf.gz NA12878_V2.5_Robot_4.hc.vqsr.vep.vcf.gz
TBI NA12878_V2.5_Robot_3.hc.vqsr.vep.vcf.gz.tbi NA12878_V2.5_Robot_4.hc.vqsr.vep.vcf.gz.tbi
MD5sum NA12878_V2.5_Robot.md5sum

Key Metrics

Library NA12878_V2.5_Robot_1 NA12878_V2.5_Robot_2 NA12878_V2.5_Robot_3 NA12878_V2.5_Robot_4
Flowcell H7LH3CCXX H7KMTCCXX H7CYCCCXX H7CYCCCXX
Lane 5 6 1 2
Read length 151bp PE 151bp PE 151bp PE 151bp PE
Raw Read Pairs (PF) 439,013,514 510,726,469 464,350,208 479,861,658
Raw Yield (Gb) 131.704 153.218 139.305 143.958
% bases >=Q30 (R1/R2) 92.39/81.23 93.18/73.37 89.89/77.44 93.00/78.75
% bases >=Q30 (mean) 86.81 83.28 83.67 85.88
Alignment % 98.448 98.972 95.53 97.911
Duplication % 10.6 11.549 10.592 12.032
Coverage (mean) 34.8873 39.51173 35.69027 37.34294
Coverage (stdev) 10.52019 11.37284 10.24081 10.57043

What are your payment options?

We have flexible payment options available. Please contact us to discuss further. 

How do I request a quote?