Illumina Genotyping Sample Submission
We expect that your samples will be supplied in the correct containers and at the
required concentration and quality (requirements are stated below). Timely
completion of your project depends on you following these guidelines.
This document provides guidelines as to how to submit samples for all Illumina
genotyping projects.
DNA Submission Guidelines
Beadchip
Portfolio
Minimum
Volume Volume Allowance Total
Concentration Required for
for
Volume
Of DNA
for Assay Picogreen pipetting ( µl)
sample
(µl)
Infinium Methylation Assay
50ng/µl
10 - 20
2
3
15 - 25
50ng/µl
4
2
3
10
50ng/µl
4
2
3
10
50ng/µl
4
2
3
10
50ng/µl
4
2
3
10
50ng/µl
15
2
3
21
HumanMethylation450KBeadChip
Infinium HD Ultra Assay
HumanCytoSNP-12 BeadChip
Human Cardio-Metabochip
HumanOmniExpress BeadChip
Infinium HD Super Assay
Human Omni1Quad
Infinium LCG
Human Omni2.5-8
Human Omni5-quad
Infinium Multi-Sample Assay
Custom iSelect BeadChip and
Infinium focused content
Infinium Multi-Use Assay (e.g.
2.5M, 2.5M S, 5M)
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DNA Quality for Infinium Assay:
Sample DNA should be at a minimum concentration of 50 ng/µl in TE solution
(10mM Tris, 1mM EDTA) or water.
Sufficient sample DNA should be provided to allow for additional testing
requirements such as accurate quantification using Picogreen assay and
spectrophotometer readings using a Nanodrop. The 260/280 ratio from a UV
spectrophotometer reading should be 1.65-2.1.
If the samples do not meet the minimum requirements, we reserve the right to
refrain from processing them further unless an agreement is made to continue
despite our recommendation for providing samples for replacement. A charge for QC
checks for suboptimal sample identification will incur.
DNA Quality for Golden Gate Assay:
Sample DNA should be at a minimum concentration of 50 ng/µl in TE solution
(10mM Tris, 1mM EDTA) or water.
Sufficient sample DNA should be provided to allow for additional testing
requirements such as accurate quantification using Picogreen assay and
spectrophotometer readings using a Nanodrop. The 260/280 ratio from a UV
spectrophotometer reading should be 1.65-2.1.
We require a total volume of 10µl of DNA for all Golden Gate applications.
If the samples do not meet the minimum requirements, we reserve the right to
refrain from processing them further unless an agreement is made to continue
despite our recommendation for providing samples for replacement. A charge for QC
checks for suboptimal sample identification will incur.
DNA Quality for Methylation Assay:
Sample DNA should be at a minimum concentration of 50 ng/µl in TE or water
(10mM Tris,1mM EDTA) solution.
We require a total volume of 16µl (at 50 ng/µl) of DNA for all Methylation
applications.
Sufficient sample DNA should be provided to allow for additional testing
requirements such as accurate quantification using Picogreen assay and
spectrophotometer readings using a Nanodrop. The 260/280 ratio from a UV
spectrophotometer reading should be 1.65-2.1.
If the samples do not meet the minimum requirements, we reserve the right to
refrain from processing them further unless an agreement is made to continue
despite our recommendation for providing samples for replacement. A charge for QC
checks for suboptimal sample identification will incur.
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Plating:
Do not use a flat-bottom plate for the DNA.
Plate DNA into a 96 well 0.2µl skirted plate (Thermofisher, ABgene, ref AB-800) in
columns (A1, B1, … etc), and seal plate using adhesive seals (ABgene or foil seals,
capable of withstanding different temperatures ensuring each well is properly
sealed).
Completion of the sample record sheet:
Plate Label: Plate ID, make sure that manifest name matches what is written on the
actual plate
Well: Note that the DNA well locations are shown as in columns.
Sample Label: Unique sample ID
Sex : depending on whether you have the information
Volume : in µl
Concentration: minimum concentration should be 50ng/µl in TE (10mM Tris,1mM
EDTA) solution or water.
Family ID: if applicable
Paternal ID: sample ID of the case study's father, if applicable
Maternal ID: sample ID of case study's mother, if applicable
Replicates: if included please label -rep1, -rep2,…)
Dispatching samples:
Please contact Christine Blancher (project manager) or the person responsible for
your project prior to shipping your samples, or provide a courier tracking ID.
Ship DNA plate with plenty of dry ice between Monday to Wednesday and ensure
from couriers the samples will reach the destination on a working day before the
weekend.
Please ensure the plates can withstand dry ice temperatures, and the plates are
cushioned and well sealed, preferably using a dry ice temperature resistant adhesive
sealant.
Please ensure all plates are clearly labeled, we reserve the rights to process plates
should they arrive cracked, at room temperature, with punctured plate seals or if see
seals not adhered, indicating contamination.
Further queries can be addressed by emailing: christin@well.ox.ac.uk or
genomicsinfo@well.ox.ac.uk
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Shipping address:
FAO: Dr Christine Blancher
Wellcome Trust Centre For Human Genetics,
University of Oxford,
Department of High-Throughput Genomics,
Roosevelt Drive,
Headington
Oxford, OX3 7BN
UK
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