Troubleshooting common amplification and ce errorsissues. Chapter 3 3730 3730xl data collection and fragment analysis 3730 3730xl data collection software and genemapper software v3. For fragment analysis, the software uses the internal size standard to assign a fragment size and a sizing quality value to each peak. Used applied biosystems abi 3730xl dna analyzer for sale. The applied biosystems 3730 and 3730xl dna analyzers include patented technology licensed from hitachi, ltd. Abi 3730xl dna analyzer the abi3730xl dna analyzer is a fully automated, 96capillary electrophoresis instrument. Chapter 2 3730 3730xl data collecti on software and dna sequencing. The genomics resources genetic analysis lab runs fragment analysis and snp analysis for genotyping using applied biosystems abi 3730xl dna analyzers. The uc dna sequencing facility offers a runonly fragment analyis service on our abi 3xl capillary electrophoresis genetic analyzer. Fragment analysis using dye labelled primers takes 45 minutes for a 96well plate liz. Used abi 3730 dna sequencer certified genetool, inc. Chromatographic traces are generated with the abi gene mapper v4.
Powerful, integrated data collection and primary analysis software provide realtime assessment of data quality. Several advantages were noted for the abi 3730xl system. We use the abi 3730xl capillary electrophoresis platform the same used in our sanger sequencing services, enabling highly multiplexed flp detection, and a lower cost per data point. Chapter 5 data analysis with genemapper software and peak. When all that is remaining to complete your fragment analysis assay is for the samples to be run on a abi 3730xl dna analyzer, ship your sample to. Fragment analysis advanced analysis centre university of guelph. The most common fragment analysis application is for microsatellites, which are repeats of 2, 3, 4 or more bases. Our used lab equipment is fully refurbished, guaranteed to work up to. Services include microsatellite, aflp and snp genotyping of samples submitted in either 96 or 384well plates for fluorescent dna fragment analysis with up to five dye detection. Analysis software dna analysis facility on science hill.
Applied biosystems 3730 3730xl dna analyzers user guide iii. Applied biosystems 3730 or 3730xl dna analyzers 3730 series instruments. Genetic fragment analysis for microsatellite, genotype, snp, and. Up to four fluorescent dyes, in addition to the size standard, can be detected. Applied biosystems 3730 or 3730xl dna analyzers 3730 series. Checking the plate after centrifuging the plate of. Software converts the data into a dna sequence agreen, gyellow, cblue, tred. Chapter 5 setting up the software for fragment analysis 89 37303730xl analyzer data collection and.
Applied biosystems 3500 series genetic analyzers for dna sequencing and fragment sizing thermo fisher scientific. Is there any free software for scoring fragment analysis data generated from abi machine. Microsatellites, ssrs, and other fluorescentlylabeled pcr products can be sized on our abi 3730xl dna analyzers. User guide dna fragment analysis by capillary electrophoresis publication number 4474504 rev. Accurate separation of fragments by capillary electrophoresis ce on abi 3730xl sequencing machine under standard conditions sequence data sent via email as. The 3730xl is a 96capillary array dna sequencer used for dna fragment analysis and traditional dna sequencing. Used dna sequencers, used 3500 dna sequencer certified. The applied biosystems 3730 dna analyzer has the ability to determine the size.
Optics incapillary detection by dualside illumination. Fragment analysis kits may be purchased through applied biosystems. The ab 3730 and 3730xl are also used for the analysis of microsatellites, aflp, trflp, snps, and other fragment applications. Radio frequency identification rfid technology tracks key consumables data and records. Automated fragment analysis with abi sequencer using the internal standard gs2500 or gs500 gives. Assign sizes to dna fragments red dna size standard this size standard has been adapted to dna fragment.
Applied biosystems 3500 series genetic analyzers for dna. Use this for dna fragment analysis applications such. Data analysis after editing, sequence data is blasted in the ncbi genebank for identification, data mining or is aligned against reference sequences by using different software. Both instruments are equipped with genemapper generic software so that they can be used for dna fragment sizing.
Of course, one can perform a complete uninstall of all abi related software, change the computer name, and then reinstall the abirelated. Applied biosystems 3730xl user manual pdf download. View online or download applied biosystems 3730xl user manual. It has been certified, deinstalled, and packaged by abi service. With the 3730xl dna analyzer, you get the highestquality data from a wide array of applications. Fragment analysis the other half of your applied biosystems. Fragment analysis field applications specialist team applied biosystems. Mlpa analysis multiplex ligationdependent probe amplification we are performing our standard fragment analysis services utilizing an abi 3730xl protocol that has been specifically developed and optimized for microsatellite and mlpa applications.
The 48capillary 3730 dna analyzer is the gold standard in mediumtohigh throughput genetic analysis. See the latest version of the 3730xl dna analyzer the 96capillary 3730xl dna analyzer is the gold standard for high throughput genetic analysis. Is there any free software for scoring fragment analysis. Our current offering in fragment analysis includes the ready2load service. University of minnesota genomics center fragment analysis. Review and cite fragment analysis protocol, troubleshooting and other methodology information contact experts in fragment analysis to get answers. To ensure high quality base calling, assembly and snp detection, cd genomics uses a. Troubleshooting common amplification and ce errorsissues april orbison sr.
This unit comes fully certified by our former abi technician. Fragment analysis shared resources fred hutchinson. Bac fingerprinting on the applied biosystems 37303730xl. Fragment separation by capillary electrophoresis on abi 96capillary 3730xl sequencer. In most fragment analysis applications, the unknown dna fragment to be analyzed is. Hid field applications specialist afdaa meeting austin, tx feb, 20. In addition to being ideal for highthroughput sequencing, the analyzers optimized application assays, instrument, and analysis software also provide a complete solution for genotyping and resequencing. The 3730xl is used for dna fragment analysis applications such as microsatellites, aflp, snp analysis. Use this for dna fragment analysis applications such as microsatellites, aflp, snp analysis, mutation.
The abi 3730xl sequencer, from thermofisher, is a highthroughput longread sanger sequencing instrument. If you are doing snplex, run the assays and bring the plates to de302, place the plates in the freezer, and the staff will load the plate onto the machine for analysis. High quality templates can easily achieve 1 kb reads with q20 phred scores. Fluorescently labeled fragments are detected using the. The 3730xl dna analyzer software suite allows you to generate more. Dna fragment analysis by capillary electrophoresis user guide.
Use this for dna fragment analysis applications such as microsatellites, aflp, snp. Applied biosystems 3730xl dna analyzer thermo fisher scientific. Fragment analysis samples should be provided in 96well format. Our fragment analysis service provides clients the ability to size their dna fragments using a fluorescencebased detection system on our 3730xl genetic analyzer. Genetic analysis staff will add a size standard and formamide to each sample and run the samples on the abi 3730xl.
The facility uses two abi applied biosystems sequencers. We perform quality dna sizing, allele calling, and relative quantitation using the genemapper v4. You can view and analyze sample files generated by this software with the following software products. Accurate size calling, consistent band intensities, and low runtorun migration. The sequencing is done on 3730xl with bigdye taq fs terminator v 3. Applied biosystems 35003500xl genetic analyzer user guide with 3500 series data collection software 3.597 177 1407 282 1180 970 614 1145 230 977 1294 1108 282 2 805 1368 28 1240 1422 720 90 1137 545 964 1500 1040 1179 1178 1189 153 101 1335 158 742 737 740