My worst (recent) experience with peer review

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My colleagues and I just published a paper on validation of genomic results in BMC Bioinformatics. It is “highly accessed” and we are really happy with how it turned out. 

But it was brutal getting it published. Here is the line-up of places I sent the paper. 

  • Science: Submitted 10/6/10, rejected 10/18/10 without review. I know this seems like a long shot, but this paper on validation was published in Science not too long after. 
  • Nature Methods: Submitted 10/20/10, rejected 10/28/10 without review. Not much to say here, moving on…
  • Genome Biology: Submitted 11/1/10, rejected 1/5/11. 2/3 referees thought the paper was interesting, few specific concerns raised. I felt they could be addressed so appealed on 1/10/11, appeal accepted 1/20/11, paper resubmitted 1/21/11. Paper rejected 2/25/11. 2/3 referees were happy with the revisions. One still didn’t like it. 
  • Bioinformatics: Submitted 3/3/11, rejected 3/1311 without review. I appealed again, it turns out “I have checked with the editors about this for you and their opinion was that there was already substantial work in validating gene lists based on random sampling.” If anyone knows about one of those papers let me know :-). 
  • Nucleic Acids Research: Submitted 3/18/11, rejected with invitation for revision 3/22/11. Resubmitted 12/15/11 (got delayed by a few projects here) rejected 1/25/12. Reason for rejection seemed to be one referee had major “philosophical issues” with the paper.
  • BMC Bioinformatics: Submitted 1/31/12, first review 3/23/12, resubmitted 4/27/12, second revision requested 5/23/12, revised version submitted 5/25/12, accepted 6/14/12. 
An interesting side note is the really brief reviews from the Genome Biology submission inspired me to do this paper. I had time to conceive the study, get IRB approval, build a web game for peer review, recruit subjects, collect the data, analyze the data, write the paper, submit the paper to 3 journals and have it come out 6 months before the paper that inspired it was published! 
Ok, glad I got that off my chest.
What is your worst peer-review story?
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  • PB

    All who want to publish a paper probably have the same or worst experience, specialy if you don´t have a friend in the journal! :-)

  • Jy

    BMC Bioinformatics is one of the most responsible and rigorously peer reviewed journals in computational biology and applied statistics. I say this based on my recent experiences with this journal's peer-review system. I find myself trusting BMC Bioinformatics' content way more than all these fancy journals up there in your list. I don't think the statistical content in Science and Nature are anything more than p-value hacking all around. One recent review from one of these journals indicated that the p-value was not low enough. It's laughable and reeks of statistical mediocrity. Ioannidis is a super-star now. I don't think his papers are held to any regular peer-review standards anymore.