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You take a list of SNPs and a list of gene expression values and you plug it into something like this: http://www.bios.unc.edu/research/genomic_software/Matrix_eQTL/ So, how can it be possible that one gene (let say GENE22, location: 10-100) is mapped to eQTL(SNP within GENE22, location: 12) in one dietary condition but is not mapped to eQTL in another ...


There is nothing called the 3' to 5' strand. Both strands are have the same polarity but the DNA helix is anti-parallel. Both the strands contain approximately equal number of genes. Sometimes the transcription from both the strands can overlap, leading to production of antisense-transcripts. So RNA polymerase will read the other strand from its 3' to 5'. ...


Both strands have a 5' and 3' end. Some genes will be on one strand and some on the other. The coding sequence will always be 5' to 3', but RNA polymerase reads the template 3' to 5' to polymerize mRNA.


Upstream means towards 5' direction from the reference point (conversely for downstream). Reference point can be a single position such as transcription start site (TSS) or a bigger segment such as a gene. When we say upstream of a gene, it means some region of DNA that is towards 5' direction from the TSS of the reference gene. Downstream of a gene refers ...


Gene isoforms are all the different RNAs that can be synthesised from a single gene. You may be referring to splice variants, which are systems of getting different mRNAs from the same sequence using different combinations of introns and exons. Translating your wikipedia article: Gene isoforms are the different RNA products obtainable from a gene that can ...


A chimeric gene is formed from fragments of other genes whereas a fusion gene is formed from the entirety of other genes. Often in the literature you'll see the term fusion gene used for both cases.

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