Hi all,
I have fastq files from this link. I am new to Bio and I don't know this dna sequence in fastq are for which chromosome?
can anybody help me please?
Thanks
Hi all,
I have fastq files from this link. I am new to Bio and I don't know this dna sequence in fastq are for which chromosome?
can anybody help me please?
Thanks
(Very) generally speaking, RNAseq is the sequencing of the of a cell / tissue / organism whole RNA (or some particular RNA, depending on the protocol, e.g., poly-A mRNA, or miRNA) at a given moment. The WikiPedia page on RNAseq has lots of information and bibliography to get you started.
What you downloaded from the page you linked are (I believe) the raw sequencing files of mRNA and miRNA sequencing I don't know the details of the GEUVADIS project, so you will have to read the references to find out if the reads have been prepossessed or not, from what tissue they have been extracted, if the sequencing was single- or paired-end, and so on.
However, these details are not important for answering your question:
this dna sequence in fastq are for which chromosome?
Being a sampling of the mRNA or miRNA from the cells / tissue (or whatever biological material they used to extract the RNA), the sequencing reads from the fastq files are from all chromosomes. You will have to map the files (with, for example, STAR or HISAT2) to figure the most likely genomic origin of each read - or you can download the bam file from the same page you linked, the bam file contains the reads already mapped to the human genome.
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