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W.M. Keck Facility
Yale University
300 George Street
Addresses
Contact Us
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Keck
Home Page > Affymetrix GeneChip Service >
Sample Submission
MICROARRAY RESOURCE
SAMPLE SUBMISSION REQUIREMENTS
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SAMPLE REQUIREMENTS- TOTAL RNA |
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Total RNA of very high quality (OD 260/280 >
1.8, OD 260/230 > 1.8)
in DEPC-H2O is the best way to begin. |
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Samples should be cleaned with Qiagen Rneasy columns, including Trizol-isolated
RNA. See protocols. |
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Dnase-treatment is highly recommended as RNeasy columns alone may not
completely remove genomic DNA. |
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Total RNA isolated from whole blood needs to be globin-reduced. |
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Samples should be submitted in 1.5 ml microcentrifuge tubes to speed sample
processing. |
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Samples that need to be concentrated at our facility will be assessed an
additional fee. |
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Samples that require pooling at our facility will be assessed an additional
fee. |
| platform |
assay |
min. amount |
min. concentration |
| affymetrix |
standard 3' expression |
> 7 ug |
> 0.5 ug/ul |
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2-cycle expression |
> 2 ug |
> 50 ng/ul |
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exon |
> 3 ug |
> 750 ng/ul |
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gene array |
> 2 ug |
> 100 ng/ul |
| illumina |
expression |
> 3 ug |
> 75 ng/ul |
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expression hyb only (cRNA) |
> 1.5 ug |
> 150 ng/ul |
| nimblegen |
expression |
> 10 ug |
> 1 ug/ul |
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expression hyb only |
> 13 ug |
> 1 ug/ul |
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SAMPLE REQUIREMENTS- GENOMIC DNA |
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Genomic DNA must be run on an agarose gel (e.g. 150 ng/sample on a 1% gel).
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If a gel cannot be run, a note of permission to process without gel image
should be included with the sample submission. |
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Gel purification is not recommended for sample isolation. |
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NanoDrop readings of genomic DNA may not be as accurate as larger volume
spectrophotometers (page 3-3 in NanoDrop manual). |
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Samples that need to be concentrated at our facility will be assessed an
additional fee. |
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*AFFYMETRIX buffer requirement: reduced TE buffer (10 mM Tris, 1mM EDTA, pH
8.0) |
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ILLUMINA buffer requirement: TE buffer (10 mM Tris, 1mM EDTA, pH 8.0) |
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ILLUMINA: additional sample requirements found
here. |
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SEQUENOM: additional sample requirements found
here. |
| platform |
assay |
min. amount |
min. concentration |
| affymetrix* |
500k 5.0 |
> 2 ug |
> 60 ng/ul |
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1 million 6.0 |
> 2 ug |
> 60 ng/ul |
| illumina |
infinium II |
> 2 ug |
> 60 ng/ul |
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golden gate |
> 2 ug |
> 60 ng/ul |
| nimblegen |
genotyping |
> 2.5 ug |
> 1 ug/ul |
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genotyping hyb only |
> 13 ug |
> 1 ug/ul |
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| address to ship
samples overnight on dry ice |
Sheila
Westman, Keck Facility Microarray Resource, 300 George Street, Room 2117,
New Haven, CT 06511, 203-785-7869 |
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It is the responsibility of
the user to collect any unused sample from us within 30 days of receiving
the data. Samples will be discarded without notice after this
timeframe. |
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*Microarrays
ordered through the Keck Facility will be assessed an additional 15%
administrative fee. Microarrays can be purchased directly from the
manufacturer. |
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Unsure about something?
Please contact
sheila.westman@yale.edu
or microarrays@yale.edu |
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