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Thread | Thread Starter | Forum | Replies | Last Post |
Different flow cell ànd reagents for single-end and paired end sequencing (HiSeq)? | GraceM | Illumina/Solexa | 1 | 10-24-2015 09:07 AM |
Confusion about single end vs paired end read output on Illumina HiSeq | acidcoated | Illumina/Solexa | 1 | 03-19-2015 08:56 AM |
Identify differentially expressed genes from single-end Vs. paired end samples | DAnand | Bioinformatics | 2 | 11-04-2014 11:35 AM |
Combination of paired-end and single-end samples in Chip-seq TF study | feralBiologist | Bioinformatics | 0 | 11-22-2013 05:24 AM |
Can Cuffdiff treat paired-end and single-end reads at the same time? | zun | RNA Sequencing | 3 | 06-12-2012 05:37 PM |
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#1 |
Junior Member
Location: Muenster Join Date: Apr 2016
Posts: 5
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We are in the planning phase for an experiment that requires sequencing of a DNA pool of length about 140bp. It is crucial that the entire fragment is sequenced. Platform will be Nextseq500 or MiSeq, depending on what the Power Analysis will demand as sufficient read depth for what we want to do. Anyway, I would like to ask for your advice on the running mode. Should we perform 150bp single-end or 2x75bp paired-end sequencing? I ask because typically base quality decreases towards the end 3' end. Is it therefore advisable to run it paired and then merge the two reads into a consensus sequence?
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#2 | |
Senior Member
Location: Aberdeen, Scotland Join Date: Jan 2010
Posts: 347
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#3 |
Senior Member
Location: Melbourne Join Date: Jan 2013
Posts: 1,138
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150 cycle kit have enough reagents for 175 cycles so if you are doing single index read or no index read then you can can increase paired end read length to paired end 83-84 to have enough sequence for flashing. Paired end data quality should be better then single end longer read.
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Tags |
miseq, nextseq, paired, single |
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