From RNA seq data I am trying to find out the cell types enriched in particular cluster from DE genes, Is there any specific pathway or tool that can allow me to assign the cell identity using from DE genes. thanks
What you are aiming to do is generally referred to 'cellular deconvolution'. Earlier methods were designed for microarray data and it is only now that methods for bulk and single cell RNA-seq are being developed.
It is suggested that one of the earlier efforts originally developed for microarray, i.e., CIBERSORT, can be used for RNA-seq data too. Other methods are in development. A worry that I have (for bulk RNA-seq) is that it is no longer the prime method for doing what you want to do. Single cell RNA-seq is superior in order to define cellular lineages, and methods are coming out more for single cell than they are for bulk RNA-seq, in that regard.
- BSEQ-sc: Deconvolution of Bulk Sequencing Experiments using Single Cell Data
- Estimation of immune cell content in tumour tissue using single-cell RNA-seq data
You may additionally want to look at the data available by tissue-specific consortia, such as:
What I suggest is that you obtain that data, identify the genes that define each tissue type, and then 'map' (deconvolute) your own data against those custom tissue signatures. Then you will have developed your own deconvolution method.