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. 2018 Mar 1;8:3832. doi: 10.1038/s41598-018-19427-6

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Computational pipeline to discover novel miRNAs expressed within two lymphoblastoid cell lines (PGF and COX). RNA-Seq was performed on two biological replicates of two homozygous BLCLs with completely characterized MHC haplotypes, PGF and COX. Mapped reads were utilized to discover significantly expressed novel miRNAs from each RNA-seq run using miRDeep*. In total 89 unique miRNAs were discovered from all four datasets, with 87 of them having additional functional evidence (either loaded onto the Argonaute silencing complex or are formed in a Dicer dependent manner).