Hello everyone. I'm working on the transcriptome of parasitic plant, Rafflesia sp. My question here is I have only 2 biological replicates due to the limitation to get the samples from wild. I need your help to share with me some journal links that were published with 2 or no biological replicates, so that I can have a better view on this matter. Thanks in advance.
2 replicates is not very reliable. You will have a high rate of false positives and false negatives. That is just a fact of life.
Now with that out of the way, you could read the following:
- EdgeR paper, which talks about small number of replicates https://academic.oup.com/bioinformatics/article/26/1/139/182458
- This evaluiation of replicate number https://rnajournal.cshlp.org/content/22/6/839.long
I hope you know the importance of replicates in transcriptome studies.
Having said that you need to search for transcriptome studies on plants where sample collection is difficult. You should search the web for such plants. Don't expect people to do the search for you. Litchi is one such plant. Flower collection is very difficult. I have read some studies on litchi ovule with no replicates. There are other plants similar in characteristics to Rafflesia and are also found in the same region. There are published transcriptomic studies with 2 replicates on them.