I am about to commit some serious time to analyzing data produced on a SOLiD 5500 and I had a few questions about sequence quality. First off, does quality matter that much if I have >10 million reads per sample? Second, does quality seriously alter mapping with TOPHAT (RNAseq analysis)? I would think this is less of a problem then if I was doing SNP detection or something. Finally, I can filter the reads with quality scores below 10 easily in GALAXY, but then I lose ~55% of the reads! Seems like a lot. Here are some images pre and post filtering. Am I just trying too hard to clean up the data or should I filter? Thanks in advance.
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Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...-
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The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.
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Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...-
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