i did a mapping study using BOWTIE and TOPHAT for a sample read file:
1. The mapped statistics says:
number of genes in the mapping using bowtie: 47
number of repeat regions in the mapping using bowtie: 12
number of CDS regions in the mapping using bowtie: 42
while,
number of genes in the mapping using TOPHAT: 22
number of repeat regions in the mapping using TOPHAT: 6
number of CDS regions in the mapping using TOPHAT: 21
Why is this so. is there any relationship between these quantatities. i know that we use TOPHAT for mapping RNA-Seq data, but i did this for unmapped reads
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The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...-
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