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FASTYPETM HLA-DNA SSP TYPING SYSTEM PROTOCOL
3. TYPING PROTOCOL
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FOR RESEARCH USE ONLY
FASTYPETM HLA-DNA SSP TYPING SYSTEM PROTOCOL
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FOR RESEARCH USE ONLY
FASTYPETM HLA-DNA SSP TYPING SYSTEM PROTOCOL
5.1. Refer to Typing Sheet and Specificity Table for product sizes and primer information.
5.2. All Internal control band has a size of 410 bp. The intensity of the internal control PCR product may vary due to the
presence of positive amplifications.
5.3. If the PCR products have bands other than the predicted size, disregard the band for it may be none specific or primer-
dimer artifacts.
5.4. The presence of a 95bp band in contamination control lane implies a contamination of Post-PCR Product. The presence
of a 410bp band alone or accompanied by a 95bp band implies a contamination of genomic DNA.
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FOR RESEARCH USE ONLY
TROUBLE SHOOTING AND TECHNICAL GUIDE
2. Heavy smear of bands or dim specific Template DNA is in excess. Check DNA concentration and adjust
bands accordingly.
3. Missing internal control bands in Repeat typing with another good quality
one or several lanes DNA sample.
4. False negative of a specific band Repeat typing with a control DNA sample
while the internal control appears which has the same specific allele.
normal.
Contamination with previously amplified a. Separate the pre-PCR room from the
5. More than two specific alleles are PCR products or with other DNA samples post-PCR room.
detected during the DNA extraction or PCR prepara- b. Kept a different lab coat between rooms.
tion. c. Clean the working area with 10% bleach.
d. Change protective gloves frequently,
especially transfer from post- PCR room to
pre-PCR room.
6. Ambiguous results Report to Technical Support
a. The electrophoresis buffer might a. Lower the voltage during gel
7. Blurred bands become too hot due to high voltage. electrophoresis.
b. Wrong buffer composition. b. Use the recommended 0.5 x TBE buffer.
c. Old buffer
7. TECHNICAL GUIDE
NOTE:
1. “CC” refers to built-in contamination control.
2. The “COLOR CODE” refers to the plate color, the ring color if it is a
8-well strip, or unless specified otherwise.
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FOR RESEARCH USE ONLY
MASTER MIX GUIDE Appendix A
T aq + Re ag e n t
S a m p le D N A C re s o l Re d
d d iH 2 O E m ix t u r e T o t a l V o lu m e
( ~ 5 0 n g /u l) n Dye (10X)
(5 u n its /u l)
(u l) (u l) (u l) (u l) (u l)
1 1 8 1 0 .1 1 0 .1
2 2 1 6 2 0 .2 2 0 .2
3 3 2 4 3 0 .3 3 0 .3
4 4 3 2 4 0 .4 4 0 .4
5 5 4 0 5 0 .5 5 0 .5
6 6 4 8 6 0 .6 6 0 .6
7 7 5 6 7 0 .7 7 0 .7
8 8 6 4 8 0 .8 8 0 .8
9 1 0 8 0 1 0 1 1 0 1
1 0 1 1 8 8 1 1 1 .1 1 1 1 .1
1 1 1 2 9 6 1 2 1 .2 1 2 1 .2
1 2 1 3 1 0 4 1 3 1 .3 1 3 1 .3
1 3 1 4 1 1 2 1 4 1 .4 1 4 1 .4
1 4 1 5 1 2 0 1 5 1 .5 1 5 1 .5
1 5 1 6 1 2 8 1 6 1 .6 1 6 1 .6
1 6 1 7 1 3 6 1 7 1 .7 1 7 1 .7
1 7 1 9 1 5 2 1 9 1 .9 1 9 1 .9
1 8 2 0 1 6 0 2 0 2 2 0 2
1 9 2 1 1 6 8 2 1 2 .1 2 1 2 .1
2 0 2 2 1 7 6 2 2 2 .2 2 2 2 .2
2 1 2 3 1 8 4 2 3 2 .3 2 3 2 .3
2 2 2 4 1 9 2 2 4 2 .4 2 4 2 .4
2 3 2 5 2 0 0 2 5 2 .5 2 5 2 .5
2 4 2 6 2 0 8 2 6 2 .6 2 6 2 .6
2 5 2 7 2 1 6 2 7 2 .7 2 7 2 .7
2 6 2 8 2 2 4 2 8 2 .8 2 8 2 .8
2 7 2 9 2 3 2 2 9 2 .9 2 9 2 .9
2 8 3 0 2 4 0 3 0 3 3 0 3
2 9 3 1 2 4 8 3 1 3 .1 3 1 3 .1
3 0 3 2 2 5 6 3 2 3 .2 3 2 3 .2
3 1 3 3 2 6 4 3 3 3 .3 3 3 3 .3
3 2 3 4 2 7 2 3 4 3 .4 3 4 3 .4
3 3 3 6 2 8 8 3 6 3 .6 3 6 3 .6
3 4 3 7 2 9 6 3 7 3 .7 3 7 3 .7
3 5 3 8 3 0 4 3 8 3 .8 3 8 3 .8
3 6 3 9 3 1 2 3 9 3 .9 3 9 3 .9
3 7 4 0 3 2 0 4 0 4 4 0 4
3 8 4 1 3 2 8 4 1 4 .1 4 1 4 .1
3 9 4 2 3 3 6 4 2 4 .2 4 2 4 .2
4 0 4 3 3 4 4 4 3 4 .3 4 3 4 .3
4 1 4 4 3 5 2 4 4 4 .4 4 4 4 .4
4 2 4 5 3 6 0 4 5 4 .5 4 5 4 .5
4 3 4 6 3 6 8 4 6 4 .6 4 6 4 .6
4 4 4 7 3 7 6 4 7 4 .7 4 7 4 .7
4 5 4 8 3 8 4 4 8 4 .8 4 8 4 .8
4 6 4 9 3 9 2 4 9 4 .9 4 9 4 .9
4 7 5 0 4 0 0 5 0 5 5 0 5
4 8 5 1 4 0 8 5 1 5 .1 5 1 5 .1
5 0 5 4 4 3 2 5 4 5 .4 5 4 5 .4
5 2 5 6 4 4 8 5 6 5 .6 5 6 5 .6
5 4 5 8 4 6 4 5 8 5 .8 5 8 5 .8
5 6 6 0 4 8 0 6 0 6 6 0 6
5 8 6 2 4 9 6 6 2 6 .2 6 2 6 .2
6 0 6 4 5 1 2 6 4 6 .4 6 4 6 .4
6 2 6 6 5 2 8 6 6 6 .6 6 6 6 .6
6 4 6 8 5 4 4 6 8 6 .8 6 8 6 .8
6 6 7 1 5 6 8 7 1 7 .1 7 1 7 .1
6 8 7 3 5 8 4 7 3 7 .3 7 3 7 .3
7 0 7 5 6 0 0 7 5 7 .5 7 5 7 .5
7 2 7 7 6 1 6 7 7 7 .7 7 7 7 .7
7 4 7 9 6 3 2 7 9 7 .9 7 9 7 .9
7 6 8 1 6 4 8 8 1 8 .1 8 1 8 .1
7 8 8 3 6 6 4 8 3 8 .3 8 3 8 .3
8 0 8 5 6 8 0 8 5 8 .5 8 5 8 .5
8 2 8 8 7 0 4 8 8 8 .8 8 8 8 .8
8 4 9 0 7 2 0 9 0 9 9 0 9
8 6 9 2 7 3 6 9 2 9 .2 9 2 9 .2
8 8 9 4 7 5 2 9 4 9 .4 9 4 9 .4
9 0 9 6 7 6 8 9 6 9 .6 9 6 9 .6
9 2 9 8 7 8 4 9 8 9 .8 9 8 9 .8
9 4 1 0 0 8 0 0 1 0 0 1 0 1 0 1 0
9 6 1 0 2 8 1 6 1 0 2 1 0 .2 1 0 3 0 .2
Note: “n” is the number of reactions. To compensate for pipette variations, each master mix above ( where n > 16) is adjusted with 2 extra reaction to (n+2).
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Appendix B
PCR Recommended
Amplification Suppliers 10X TBE Buffer
1L pH 8.0
Thermal Cycler Perkin-Elmer
GeneAmp PC Tris-base 108g
system 9600 or Boric Acid 55g
EDTA 14.8 g
9700
(Sodium Salt)
Taq Polymerase Dissolve all ingredients in ddiH2O and adjust
AmpliTaq DNA
the volume to 1L.
Polymerase
Filter the solution to remove particles.
Perkin-Elmer
Store in bottles at room temperature (25oC).
N801-0060
Sterile Water
0.5X TBE Buffer
Gel Electrophoresis
Dilute 500ml 10X TBE buffer to 10 L ddiH2O
Gel box Bio-TyperTM Store in ambient condition.
Electrophoresis
System
20-0180-25 / Ethidium Bromide Solution
20-0180-09 100 ml
PCR LICENSE
The use of polymerase chain reaction (PCR) for in-vitro diagnostic procedure requires a license. The PCR is
covered by United States Patents 4,683,195 and 4,683,202 and corresponding patent rights in other territories,
owned by F. Hoffmann-La Roche Inc.
License can be obtained from:
Director of Licensing
Roche Molecylar Systems
1145 Atlantic Avenue
Alameda, CA 94501 USA
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REFERENCES
10. REFERENCES
1. Bidwell, J.H. Application of the Polymerase Chain Reaction to HLA Class II Typing, Vox Sang 63: 81-8. (1992)
2. Bunce, M., et. al. Phototyping: comprehensive DNA typing for HLA-A, B,C DRB1, DRB3, DRB4, DRB5 & DQB1by
PCR with 144 primer mixes utilizing sequence-specific primers (PCR-SSP). Tissue Antigens 46: 355-367. (1995)
3. Chen, R., et.al. High Resolution Typing of HLA-DR by PCR amplification with sequence -specific primers (PCR-SSP).
Human Immunology 22nd Annual ASHI Metti8ng Abstracts 49 7.4 #182:133 (1996)
4. Innis, M.A., et. al. PCR Protocols: A guide to methods and applications. Academic Press, San Diego, CA. 1990.
5. Olerup, O., et. al. HLA-DR typing by PCR amplification with sequence-specific primers (PCR-SSP) in 2 hours: An
alternative to serological DR typing in clinical practice including donor-recipient matching in cadaveric transplantation.
Tissue Antigens 39: 225-35. (1992)
6. Olerup, O., et. al. HLA-DQB1 and DQA1 typing by PCR amplification with sequence-specific primers (PCR-SSP) in 2
hours. Tissue Antigens 41: 119-134. (1993)
7. Robinson J, Malik A, Parham P, Bodmer JG, Marsh SGE: “IMGT/HLA database - a sequence database for the human
major histocompatibility complex.” Tissue Antigens (2000) 55 280-287
http://www.anthonynolan.org.uk/HIG/data.html
8. Saiki, R.K., et. al. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase, Science 238:
487-9. (1988)
9. Sambrook, J. et. al. Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory, Cold Spring Harbor,
N.Y., 1989.
10. Zetterquist, H. et. al. Identification of the HLA DRB1*04, -DRB1*07 and -DRB1*09 alleles by PCR amplification with
sequence-specific primers (PCR-SSP) in 2 hours. Human Immunology 34: 64-74. (1992)
This warranty becomes null and void when any product(s) have been modified, repackaged or resold without Bio-Synthesis’ consent,
or when any product(s) have been subjected to misuse or mishandling.
Bio-Synthesis Incorporated will replace or refund to the original purchaser if the purchaser is dissatisfied with the overall performance
of FastypeTM system within the first thirty (30) days of purchase. If the purchaser has any other concern, please contact our service
support at 1800-227-0627.
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FOR RESEARCH USE ONLY