Hi, I am doing RNAseq analysis on various tissues such as placenta & cord blood, parent blood. There are case control groups (each around 40) based on health outcomes of infants and no biological duplicate of samples.

1. After quantifying through salmon, I want to know what is the best approach for proceeding for Differentially expressed genes? I am doing separate analysis for each tissue type till the significant list of DEGs of a group and then comparison or correlation of these genes with each of the tissue type i.e., DEGs of case control from placenta with that of cord blood. Also I will compare them at functional levels.
2. How can I compare gene expression pattern of parents with infants?
3. can I process via DESeq2 as the dispersion for 10 pilot samples looks fine if I am not wrong.

Thank you so much.

This support site is primarily intended to help people with technical software issues rather than analysis of specific datasets. You could try over on biostars.org, or better yet find a local statistician who might be able to help.