... This question could use some clarification as it is not clear what you are trying to achieve. There will not be anything like a 1-to-1 relationship between pubchem CIDs (which refer to *chemical compounds*) and Uniprot IDs (which refer to protein structures).
Are you interested in interactions b ...
... Current Topics in Genome Analysis 2016
A lecture series covering contemporary areas in genomics and bioinformatics
February 17 - May 25, 2016
Given the rapid advances in genomics and bioinformatics that have taken place in the past few years, an intensive review of the major areas of ongoing geno ...
... You can use the tool RegTools to get this information from a BAM file. So you would align your reads to the reference genome first using TopHat2, STAR, HISAT2, etc. Then use regtools to both extract and annotate the exon-exon junctions (i.e. exon-intron ... intron-exon). The
Code is here:
... Some additional options: