I want know how do we calculate gene expression using RNA-seq data available on NCBI. For example I want analyze gene expression of a family of transcription factors, I've the sequences of all these transcription factors and then i download the RNA-seq data from NCBI's SRA database. What do i do next in order to get the FPKM value for creating a heatmap. I am very new to Bioinformatics and learning on my own and also do not know any language except some Biopython and R. Thank you
RNA-seq workflow: gene-level exploratory analysis and differential expression
Check out RNA-seqlopedia, lots of information on understanding the process, not just the technical bioinformatics http://rnaseq.uoregon.edu