Appendix D Create And Run An Hid Plate; Hid Analysis Requirements - Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer User Manual

D

HID analysis requirements

212
Create and run an HID plate
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HID analysis requirements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 212
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Pull-up reduction feature . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 213
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Resolution algorithm . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 214
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Workflow: HID analysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 215
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HID install run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 215
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HID run module, dye sets, size standard definitions, and kits . . . . . . . . . . . . . 216
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Manage kits (HID applications only) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 217
• Cartridge-Use SeqStudio
which has been validated for HID analysis. The v1 cartridge has not been
validated.
To check the Cat. No., you must remove the cartridge from the instrument. See
"Store the cartridge" on page 163 for instructions.
• Manual dye calibration and HID install check-When the instrument is
installed, the field service representative will perform a manual J6 dye calibration
and an HID install check.
Before you use any other dye sets, perform a manual dye calibration to optimize
the pull-up reduction function. For more information, see "Calibrate dyes" on
page 192.
• Allelic ladder-We recommend that you inject one allelic ladder for each set of
24 samples in HID runs (1 allelic ladder per 6 injections).
Allelic ladders that are injected under the same conditions are recommended to
accurately genotype samples in the secondary analysis software.
IMPORTANT! Variation in laboratory temperature can cause changes in fragment
migration speed that can, in turn, cause sizing variation. We recommend the
frequency of allelic ladder injections described above to account for normal
variation in fragment migration speed. However, during internal HID validation
studies, verify the required allelic ladder injection frequency to ensure accurate
genotyping of all samples in your laboratory environment.
™
• GeneMapper ID-X Software compatibility-The data files that are generated
by the instrument are compatible with GeneMapper
™
Genetic Analyzer Cartridge v2 (Cat. No. A41331),
SeqStudio Genetic Analyzer Instrument and Software User Guide
™
™
ID-X Software v1.6 or later.