Difference between revisions of "BioMicroCenter:Wafergen"

From OpenWetWare
Jump to: navigation, search
(Replacing page with '{{BioMicroCenter}} THIS SERVICE IS DISCONTINUED.')
(7 intermediate revisions by one other user not shown)
Line 1: Line 1:
[[Image:BioMicroCenter-Smartchip.jpg|thumb|right|200px|Image of Wafergen's SmartChip]]
The Wafergen SmartChip System is a highly flexible nanoliter qPCR instrument. The system is based on aluminum chips that contain a grid of 72x72 nanowells. Each well can hold up to 150ul of volume. The system itself is composed of two halves: a robot for loading the chips and a PCR machine for cycling and scanning the chips.<BR><BR><BR>.
Wafergen reactions come in two flavors: prefilled arrays and "MyDesign". Prefilled arrays have specific primer sets laid out across the nanowells. MyDesign arrays are filled in two steps: cDNA followed by primers. <BR><BR>
Primers and cDNA are filled from specific 384 well plates in master mix already diluted to 1x. Technical replicates must be pipetted the desired number of times on the plate. eg. if you want to run your primers 3x on the cDNA, you should use 3 wells for each primer set and only 1 for each cDNA. Even though each dispense uses only 50nL, more material is required for pipetting. The matrix below outlines the preprogrammed sample/primer set ratios and the volumes of sample and primer required.
{| border=1; align="center"; cellpadding="5"
! colspan="2" | Samples
! colspan="2" | Primer Sets
|12 ||18ul x4 wells||384 ||12ul
|24 ||18ul x2 wells||216 ||12.5ul
|36 ||20.5ul ||144 ||13.5ul
|48 ||18ul ||108 ||14ul
|54 ||17.5ul ||96 ||14.5ul
|64 ||16.5ul ||80 ||15.5ul
|72 ||16ul ||72 ||16ul
|80 ||15.5ul ||64 ||16.5ul
|96 ||14.5 ||54 ||17.5ul
|108 ||14ul ||48 ||18ul
|144 ||13.5ul ||36 ||20.5ul
|216 ||12.5ul ||24 ||18ul x2 wells
|384 ||12ul ||12 ||18ul x4 wells
Wafergen recommends samples normalized to a concentration of 10 ng/uL. Although normalization is not required, the minimum acceptable concentration is 1 ng/uL.<br>
Primers should be reconstituted to a concentration of 1.5 uM.<br>
Also required are two Excel spreadsheets detailing the names of the samples and the primers, respectively, arranged in the order they will be dispensed.
The Wafergen system is offered as a walkup service in the BioMicro Center. However, due to the complexity of the Wafergen system, a single brief training session is not sufficient for us to be comfortable letting users operate on their own. Instead, new users must use the robot under the guidance of the BioMicro Center technician for the first 2-3 runs (there is a higher cost associated with this). Once the user has completed their guided usage, you are free to use the system without supervision.
Users may sign up for the Wafergen system on the [[BioMicroCenter:Wafer_CAL|'''calendar''']]‎. New users should confirm their schedule with BioMicro Center staff (biomicro@mit.edu).
Each chip currently costs $150.<BR>
Training runs will cost an additional $100 for the first three runs.<BR>
384 plates specific for the Wafergen system (two required) are $10 each.<BR>

Latest revision as of 07:44, 28 April 2014


<html> <style type="text/css">

  1. menuh-container{

position: absolute; top: 1em; left: 1em; }

  1. menuh{

font-family: arial, helvetica, sans-serif; width:100%; float:left; margin:2em; margin-top: 1em; }

  1. menuh top_parent{

/* border-style: none; */ }

  1. menuh a{

text-align: center; display:block; white-space:nowrap; margin:0; padding: 0.3em; }

  1. menuh a:link, #menuh a:visited, #menuh a:active{ /* menu at rest */

color: black; background-color: white; text-decoration:none; }

  1. menuh a:hover{ /* menu at mouse-over */

color: black; background-color: #f0f0d1; text-decoration:none; }

  1. menuh a.top_parent, #menuh a.top_parent:hover{ /* attaches down-arrow to all top-parents */

font-size: 10pt; background-image: url(navdown_white.gif); background-position: right center; background-repeat: no-repeat; }

  1. menuh a.parent, #menuh a.parent:hover{ /* attaches side-arrow to all parents */

font-size: 10pt; background-image: url(nav_white.gif); background-position: right center; background-repeat: no-repeat; }

  1. menuh ul{

font-size: 8pt; font-family: arial, helvetica, sans-serif; list-style:none; margin:0; padding:0; float:left; width:13em; /* width of all menu boxes */ }

  1. menuh li{

position:relative; min-height: 1px; /* Sophie Dennis contribution for IE7 vertical-align: bottom; /* Sophie Dennis contribution for IE7 */ }

  1. menuh ul ul{

position:absolute; z-index:500; top:auto; display:none; padding: 1em; margin:-1em 0 0 -1em; }

  1. menuh ul ul ul{

top:0; left:100%; } div#menuh li:hover{ cursor:pointer; z-index:100; } div#menuh li:hover ul ul, div#menuh li li:hover ul ul, div#menuh li li li:hover ul ul, div#menuh li li li li:hover ul ul {display:none;}

div#menuh li:hover ul, div#menuh li li:hover ul, div#menuh li li li:hover ul, div#menuh li li li li:hover ul {display:block;}

/* End CSS Drop Down Menu */ </style> <style type="text/css" media="screen">

  1. menuh-container{

font-size: 1em; position: relative; top:0; left: 5%; width: 90%; margin: 0px; border: 1px solid white; } </style>