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DNA Analysis Arrays
FREQUENTLY ASKED QUESTIONS
What fluidics script should I use for my DNA analysis arrays?
Are there data analysis tools available for doing linkage analysis for 10,000 SNPs?
Are there enough SNPs on the Mapping 100K for whole-genome association studies?
How does the Mapping 100K Set data quality compare with HapMap data?
What is the density & distribution of the Mapping 100K Set?
From where are the SNPs on the Mapping 100K Set selected?
How did you validate the SNPs you chose for Mapping arrays?
What additional equipment or reagents do I need to run the Mapping 100K Set or Mapping 10K 2.0 Arrays?
What is the difference between the GeneChip Mapping 10K Array and the GeneChip Mapping 10K 2.0 Array?
Can the GeneChip Mapping 10K Array or the GeneChip Mapping 100K Set be used to study chromosomal amplification, deletion, and loss of heterozygosity?
Is there a genetic map and other SNP annotations with the Mapping arrays?
How many bases can I resequence on a CustomSeq™ array?
Do I need to resequence one long region or may I also use this to sequence several shorter regions?
How many arrays do I need to order?
What is the turnaround time for a new CustomSeq array design?
Do I need new instrumentation, hardware, or software to run CustomSeq™ arrays on my existing GeneChip system?
What publications are currently available on CustomSeq arrays?
Have you done head-to-head comparisons vs. capillary sequencing?
What is your overall accuracy? How does it compare to capillary sequencing?
What is your accuracy for heterozygote detection? How does it compare to capillary sequencing?
Do I need to manually check heterozygotes?
What is your call rate? How does it compare to capillary sequencing?
What is your reproducibility?
Can I detect Insertions or Deletions on a resequencing array?
How much DNA is required?
Can I analyze only one strand? Your array holds 60 kb but you tile 30 kb doublestranded - can I just tile one strand and sequence a full 60 kb?
Can the CustomSeq™ array detect heterozygotes?
What does the quality score stand for?
How does the quality score compare to Phred/ Phrap scores?
Can I use CustomSeq™ arrays to genotype for individual SNPs in many genes?
What is the difference between GDAS software and the ABACUS program offered through JHU?