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We have sequenced a transcriptome of a species who does not have a sequenced genome, using 454 and our initial goal is to find a set of ESTs that represent genes. The 454 reads were assembled using Newbler 2.5 and the initial assembly gave ~26000 isotigs and 18,000. Contigs. After talking to the several people, I used CD-Hits program to combine the isotigs, contigs and singltons that were not assembled. After combining these sequences, I got ~4000 isotigs, ~17,000 contigs and ~30, 000 Singlton that were not assembled. Is this the correct way to do this? I couldn’t find any publication that has mentioned this method.
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Amplicon sequencing is a targeted approach that allows researchers to investigate specific regions of the genome. This technique is routinely used in applications such as variant identification, clinical research, and infectious disease surveillance. The amplicon sequencing process begins by designing primers that flank the regions of interest. The DNA sequences are then amplified through PCR (typically multiplex PCR) to produce amplicons complementary to the targets. RNA targets...03-21-2023, 01:49 PM -
Targeted sequencing is an effective way to sequence and analyze specific genomic regions of interest. This method enables researchers to focus their efforts on their desired targets, as opposed to other methods like whole genome sequencing that involve the sequencing of total DNA. Utilizing targeted sequencing is an attractive option for many researchers because it is often faster, more cost-effective, and only generates applicable data. While there are many approaches...03-10-2023, 05:31 AM