SUBMITTING SAMPLES

Samples can be submitted for genotyping using the following process and guidelines:

Process

1

Enter your order request online using dnaLIMS

Choose the correct filter set based on the appropriate size standard

2

Submit samples with a printed copy of your request form

  • A minimum of 5µl labeled PCR products are submitted (8-strip tubes or 96-well plate - see the orientation grid)
  • Please contact us to discuss processing requirements for 384-well plates

3

Drop off in-person, by campus mail, or by courier to:

Sequencing and Bioinformatics Consortium
University of British Columbia
Room 3124 - PharmSci Building
2405 Wesbrook Mall
Vancouver, BC V6T 1Z3

Storefront Hours: 9am-12noon
Samples can be dropped off at any time in the basket outside the storefront.


Size Standards

An appropriate size standard is chosen based on the expected fragment sizes for the project, and it is imperative that the same size standard be used for the duration of that project. Based on the Local Southern Size-Calling Method, there must be two size standard peaks smaller than the shortest fragment, and two size standard peaks larger than the longest fragment.

Local Southern Size-calling Method

  • A curve is created by using three standard points (two points below and one point above the fragment), then a fragment size is determined.
  • Another curve is created by looking at an additional set of three points (one point below and two points above the fragment), then another value is assigned
  • The two size values are averaged to determine the unknown fragment l

The fluorophore label on the size standard determines the level of multiplexing available. The ROX™ size standards can accomodate sample fragments labeled with up to three different fluorophores, whereas the LIZ™ size standards permit multiplexing with four different fluorophores.

SBC maintains stocks of the following size standards:

4-COLOUR FLUORESCENCE – each DNA fragment labeled with ROX™ Fluorophore

GeneScan™ 400HD ROX™ Size Standard (High Density)

Designed for sizing DNA fragments in the 50-400 nucleotides range

Provides 21 labeled fragments of:

50, 60, 90, 100, 120, 150, 160, 180, 190, 200, 220, 240, 260, 280, 290, 300, 320, 340, 360, 380 and 400 nucleotides

GeneScan™ 500 ROX™ Size Standard

Designed for sizing DNA fragments in the 35-500 nucleotides range

Provides 16 single-stranded labeled fragments of:

35, 50, 75, 100, 139, 150, 160, 200, 250, 300, 340, 350, 400, 450, 490 and 500 nucleotides

5-COLOUR FLUORESCENCE – each DNA fragment labeled with LIZ® Fluorophore

GeneScan™ 120 LIZ® Size Standard

Designed for sizing DNA fragments in the 15-120 nucleotides range

Provides 9 single-stranded labeled fragments of:

15, 20, 25, 35, 50, 62, 80, 110 and 120 nucleotides.

The sizing curve generated from these short fragments makes this size standard ideal for use with the ABI Prism SNaPshot® Multiplex Kit, as well as other short fragment analysis applications.

GeneScan™ 500 LIZ® Size Standard

Designed for sizing DNA fragments in the 35-500 nucleotides range

Provides 16 single-stranded labeled fragments of:

35, 50, 75, 100, 139, 150, 160, 200, 250, 300, 340, 350, 400, 450, 490 and 500 nucleotides

GeneScan™ 600 LIZ® Size Standard (High Density)

Designed for sizing DNA fragments in the 20-600 nucleotides range

Provides 36 single-stranded labeled fragments of:

20, 40, 60, 80, 100, 114, 120, 140, 160, 180, 200, 214, 220, 240, 250, 260, 280, 300, 314, 320, 340, 360, 380, 400, 414, 420, 440, 460, 480, 500, 514, 520, 540, 560, 580 and 600 nucleotides

GeneScan™ 1200 LIZ® Size Standard (High Density)

Designed for sizing DNA fragments in the 20-1200 nucleotides range

Provides 68 single-stranded labeled fragments of:

20, 30, 40, 60, 80, 100, 114, 120, 140, 160, 180, 200, 214, 220, 240, 250, 260, 280, 300, 314, 320, 340, 360, 380, 400, 414, 420, 440, 460, 480, 500, 514, 520, 540, 560, 580, 600, 614, 620, 640, 660, 680, 700, 714, 720, 740, 760, 780, 800, 820, 840, 850, 860, 880, 900, 920, 940, 960, 980, 1000, 1020, 1040, 1060, 1080, 1100, 1120, 1160, 1200 nucleotides


Filter Sets
 


Orientation Grid