[three_fourth padding="0 15px 0 0"]
<h6>The Microarray Core Facility offers Gene Expression Profiling, SNP, miRNA, and CNV analysis using array technologies from Affymetrix. The Microarray Core specializes in processing RNA extracted from Formalin-Fixed Parafin embedded tissue.</h6>
<h4>Arrays</h4>
The core can process almost any of the arrays that are available from Affymetrix.
<table width="399" border="0" cellspacing="0" cellpadding="0"><colgroup> <col width="140" /> <col width="194" /> <col width="65" /> </colgroup>
<tbody>
<tr>
<td width="140" height="5"><strong>3'Arrays</strong></td>
<td width="194"><strong>Whole Transcript Gene Arrays</strong></td>
<td width="65"><strong>SNP Arrays</strong></td>
</tr>
<tr>
<td height="5">Human Genome U133+ 2.0</td>
<td>Human Transcriptome Array (HTA) 2.0</td>
<td>Human Cytoscan HD</td>
</tr>
<tr>
<td height="5">Mouse 430 2.0</td>
<td>Human Gene ST 1.0 and 2.0</td>
<td>Human SNP 6.0</td>
</tr>
<tr>
<td height="5">Human Primeview</td>
<td>Mouse Gene ST 1.0 and 2.0</td>
<td>Mouse Diversity</td>
</tr>
<tr>
<td height="5"></td>
<td>Mouse Exon 1.0 ST</td>
<td></td>
</tr>
</tbody>
</table>
Need help choosing an array? This picture might help. If not, contact us

<img class="size-full wp-image-976 alignleft" alt="Probes copy" src="http://stripeandfield.com/mbcf/wp-content/uploads/Probes-copy.jpg" width="886" height="602" />

&nbsp;
<h4>Sample Requirements</h4>
<table width="293" border="0" cellspacing="0" cellpadding="0"><colgroup> <col width="119" /> <col width="65" /> <col width="109" /> </colgroup>
<tbody>
<tr>
<td width="119" height="10"></td>
<td style="text-align: left;" width="65"><strong>Amount</strong></td>
<td style="text-align: left;" width="109"><strong>Notes</strong></td>
</tr>
<tr>
<td style="text-align: left;" height="10"><strong>3' Arrays</strong></td>
<td style="text-align: left;"></td>
<td style="text-align: left;"></td>
</tr>
<tr>
<td height="10">Standard</td>
<td>30-100ng</td>
<td>High Quality RNA</td>
</tr>
<tr>
<td height="10">Low Input</td>
<td>5-50ng</td>
<td>NuGen Ovation v2</td>
</tr>
<tr>
<td height="10"></td>
<td></td>
<td></td>
</tr>
<tr>
<td height="10"><strong>Whole Gene Arrays</strong></td>
<td></td>
<td></td>
</tr>
<tr>
<td height="10">Standard</td>
<td>50-100ng</td>
<td>High Quality RNA</td>
</tr>
<tr>
<td height="10">Low Input</td>
<td>1-50ng</td>
<td>Nugen Pico WTA</td>
</tr>
<tr>
<td height="10"></td>
<td></td>
<td></td>
</tr>
<tr>
<td style="text-align: left;" height="10"><strong>FFPE Whole Transcript</strong></td>
<td style="text-align: left;"></td>
<td style="text-align: left;"></td>
</tr>
<tr>
<td height="10">Low input</td>
<td>50-100ng</td>
<td>NuGen FFPE WTA</td>
</tr>
<tr>
<td style="text-align: left;" height="10">Very low input</td>
<td style="text-align: left;">&gt;20ng</td>
<td style="text-align: left;">AffymetrixSensation</td>
</tr>
</tbody>
</table>
<table width="300" border="0" cellspacing="0" cellpadding="0"><colgroup> <col width="119" /> <col width="65" /> <col width="116" /> </colgroup>
<tbody>
<tr>
<td width="119" height="10"><strong>SNP Arrays</strong></td>
<td width="65"></td>
<td width="116"></td>
</tr>
<tr>
<td height="10"></td>
<td>750ng</td>
<td>min. 10ul at 50ng/ul</td>
</tr>
</tbody>
</table>
<h4>Turnaround</h4>
Less than 4 weeks guaranteed
<h4>Data Analysis</h4>
The core provides support for basic analyses.
Useful links:
<ul>
	<li><a title="Affymetrix Expression Console" href="http://www.affymetrix.com/estore/browse/level_seven_software_products_only.jsp?productId=131414#1_1" target="_blank">Affymetrix Expression Console</a> - Data Normalization, QC, and Summarization</li>
	<li><a title="Affymetrix Transcriptome Analysis software" href="http://www.affymetrix.com/estore/browse/level_seven_software_products_only.jsp?productId=prod760001&amp;categoryId=35623&amp;productName=Affymetrix%2526%2523174%253B-Transcriptome-Analysis-Console-(TAC)-Software#1_1" target="_blank">Affymetrix Transcriptome Anlaysis Console</a> -indentification of differentially expressed genes and exons. Visualization of alternative splice variants</li>
	<li><a title="Bionconductor" href="http://www.bioconductor.org/" target="_blank">Bioconductor</a> -An open source and open development software project for the analysis and comprehension of genomic data.</li>
	<li><a title="GenePattern" href="http://www.broadinstitute.org/cancer/software/genepattern/" target="_blank">Broad Institute GenePattern</a> -genomic analysis platform</li>
</ul>
<h4>Pricing</h4>
Register and login to iLab for detailed pricing and quotations
<table width="429" border="0" cellspacing="0" cellpadding="0"><!--StartFragment--> <colgroup><col width="279" /> <col span="2" width="75" /> </colgroup>
<tbody>
<tr>
<td width="279" height="15"><span style="text-decoration: underline;"><strong>3'Array</strong></span></td>
<td width="75"><strong>DFCI</strong></td>
<td width="75"><strong>External</strong></td>
</tr>
<tr>
<td width="279" height="15">HG U133 Plus 2.0</td>
<td width="75"> $615</td>
<td width="75"> $800</td>
</tr>
<tr>
<td width="279" height="15">Primeview</td>
<td width="75"> $355</td>
<td width="75"> $460</td>
</tr>
<tr>
<td width="279" height="15">Mouse 430 2.0</td>
<td width="75"> $615</td>
<td width="75"> $800</td>
</tr>
<tr>
<td width="279" height="15">Mouse 430A 2.0</td>
<td width="75"> $470</td>
<td width="75"> $615</td>
</tr>
<tr>
<td width="279" height="15">Low Input (&lt;100ng)</td>
<td width="75"> +$70</td>
<td width="75"> +$85</td>
</tr>
<tr>
<td width="279" height="15"><span style="text-decoration: underline;"><strong>Whole Transcript Gene Arrays</strong></span></td>
<td width="75"></td>
<td width="75"></td>
</tr>
<tr>
<td width="279" height="15"> Human Transcriptome Array v2.0</td>
<td width="75"> $450</td>
<td width="75">$625</td>
</tr>
<tr>
<td width="279" height="15"> Mouse Exon v1.0 ST</td>
<td width="75"> $600</td>
<td width="75"> $780</td>
</tr>
<tr>
<td width="279" height="15"> Human Gene ST (1.0 and 2.0)</td>
<td width="75"> $385</td>
<td width="75"> $505</td>
</tr>
<tr>
<td width="279" height="15"> Mouse Gene ST (1.0 and 2.0)</td>
<td width="75"> $385</td>
<td width="75"> $505</td>
</tr>
<tr>
<td width="279" height="15">Low Input (&lt;100ng)</td>
<td style="text-align: left;" align="right" width="75"> +$90</td>
<td style="text-align: left;" align="right" width="75"> +$115</td>
</tr>
<!--EndFragment--></tbody>
</table>
<table width="532" border="0" cellspacing="0" cellpadding="0"><colgroup> <col width="254" /> <col width="55" /> <col width="73" /> <col span="2" width="75" /> </colgroup>
<tbody>
<tr>
<td width="254" height="13"></td>
<td style="text-align: center;" colspan="2" width="128"><strong>DFCI</strong></td>
<td style="text-align: center;" colspan="2" width="150"><strong>External</strong></td>
</tr>
<tr>
<td height="13"><span style="text-decoration: underline;"><strong> FFPE Whole Transcript</strong></span></td>
<td><span style="text-decoration: underline;">NuGEN</span></td>
<td><span style="text-decoration: underline;"> Affy</span></td>
<td><span style="text-decoration: underline;">NuGEN</span></td>
<td><span style="text-decoration: underline;"> Affy</span></td>
</tr>
<tr>
<td height="13"> Human Transcriptome Array v2.0</td>
<td>530</td>
<td>$580</td>
<td>$765</td>
<td>$810</td>
</tr>
<tr>
<td height="13"> Human Exon v1.0 ST</td>
<td>710</td>
<td>$760</td>
<td>$925</td>
<td>$975</td>
</tr>
<tr>
<td height="13"> Human Gene ST (1.0 and 2.0)</td>
<td>495</td>
<td>$545</td>
<td>$645</td>
<td>$695</td>
</tr>
</tbody>
</table>
&nbsp;

[/three_fourth]

[one_fourth_last]
<div class="genomics">
<h5>Place an Order</h5>
<a title="ilab" href="https://dfci.ilabsolutions.com/account/login">Login to iLab</a>
<h5>Sample Drop-Off</h5>
We collect our samples from the following locations:
- The Fish Room (near the 3rd floor elevator lobby of the Smith Building)
- CLS Building (11th floor, near the Spiegelman Lab)
- <em>For RNA</em>: Smith Building, 1129 (-80C)
<h5>Get Data</h5>
<a href="http://mbcftp.dfci.harvard.edu/Login" target="_blank">MBCFTP</a>
<h5>Ask a Question</h5>
Send an <a href="mailto:zherbert@mail.dfci.harvard.edu" target="_blank">email to Zach</a>

</div>
[/one_fourth_last]