Dear all:
I'm new in the sequencing analysis.
Recently, I've downloaded the RNA-seq data of Illumina Body Map 2.0.
(The accession number is GSE30611.)
The data was applied this following processes:
(1) All the SRA files were converted to Sanger FASTAQ.
(2) Sanger FASTQ files without any manipulation was uploaded to Galaxy.
(3) Fastx toolkit was used to draw the quality plot of these sequences.
Finally, I got some strange results of quality control.
For example, both of single-end and pair-end sequence from Brian tissue shows bad QC from the first base to 10th base nucleotide (shown in following figures). It's not a typical QC plot for Illumian sequencing.
Single-end:
Pair-end:
I think there may be some problems in library-constructing step.
Does anyone can give me any idea why I got these results?
Thanks!
Best,
Yi
I'm new in the sequencing analysis.
Recently, I've downloaded the RNA-seq data of Illumina Body Map 2.0.
(The accession number is GSE30611.)
The data was applied this following processes:
(1) All the SRA files were converted to Sanger FASTAQ.
(2) Sanger FASTQ files without any manipulation was uploaded to Galaxy.
(3) Fastx toolkit was used to draw the quality plot of these sequences.
Finally, I got some strange results of quality control.
For example, both of single-end and pair-end sequence from Brian tissue shows bad QC from the first base to 10th base nucleotide (shown in following figures). It's not a typical QC plot for Illumian sequencing.
Single-end:
Pair-end:
I think there may be some problems in library-constructing step.
Does anyone can give me any idea why I got these results?
Thanks!
Best,
Yi
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