transcriptome assembly and differential expression experiment
I need your confirmation for your help regarding my Phd thesis. It is an experiment comparing the RNA seq of two treatments. The first for growth of Dunaliella cells in inorganic autotrophic medium, the second is the same cells growing in mixture of organic and inorganic mixotrophic medium. The RNA seq data are already analyzed, and I have the resulting heat map and Gene ontologies and a combined transcriiptome assembly for the used 6 replicates (3 replicates for each treatment of the 2 treatments). I have no experience to guide with detailed instructions. I needed abstract, introduction, materials and methods, results, and discussion for the thesis. It needs no software experience but I think you may need use user friendly bioinformatics websites to help you to find interpretations and detect the pathways that are up or down regulated in response to the different conditions of growth for the cells. I also may need to understand some information that you will provide me on your written manuscriipt as lt is my first RNAseq experiment.