| Advantages | Limitations | Examples | |
|---|---|---|---|
| Short-Read | · Higher sequence fidelity · Cheap · Can sequence fragmented DNA |
· Not able to resolve structural variants, phasing alleles or distinguish highly homologous genomic regions · Unable to provide coverage of some repetitive regions |
* Ion Torrent * 454 * Illumina * SOLiD * cPAS * MPSS |
| Long-Read | · Able to sequence genetic regions that are difficult to characterize with short-read seq due to repeat sequences · Able to resolve structural rearrangements or homologous regions · Able to read through an entire RNA transcript to determine the specific isoform · Assists de novo genome assembly |
· Lower per read accuracy · Bioinformatic challenges, caused by coverage biases, high error rates in base allocation, scalability and limited availability of appropriate pipelines |
Pac-Bio (2nd) * Single molecule real time sequencing (3rd Gen) Nanopore (3rd Gen) |
(adapted from technologynetworks.com, wikipedia.org)
Also:
Whole-genome vs Whole-exome sequencing
Whole-exome (DNA sequencing) vs RNA-Seq (RNA sequencing)
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