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(a) Per base sequence content as indicated by FastQC of the raw sequenced reads.
Using FASTQC tool (http://www.bioinformatics.babraham.ac.uk/projects/fastqc/), we conducted QC on raw sequenced reads.
The quality of the raw sequenced reads from RNA-Seq experiments was excellent as indicated by FASTQC.
Similar to PBMC data, we mapped CD4+ T cell raw sequenced reads to the human reference genome hg19 using TopHat, followed by gene expression abundance calculation using htseq-count.
We achieved high quality mapping of 507,719,814 reads, representing around 56% of the raw sequenced reads.
Repeats in raw sequenced reads obtained were removed using RepeatMasker (http://www.repeatmasker.org).org
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The raw sequence data (GSE110605) were deposited in the NCBI Sequence Read Archive.
The raw sequence data were processed in QIIME47.
Raw sequences have been deposited in NCBI under Bioproject PRJNA157077.
The raw sequence files are available on the NCBI database.
He said companies were being encouraged to build upon the raw sequence.
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