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01.12.2018 | Research | Ausgabe 1/2018 Open Access

Reproductive Biology and Endocrinology 1/2018

Integration analysis of microRNA and mRNA paired expression profiling identifies deregulated microRNA-transcription factor-gene regulatory networks in ovarian endometriosis

Zeitschrift:
Reproductive Biology and Endocrinology > Ausgabe 1/2018
Autoren:
Luyang Zhao, Chenglei Gu, Mingxia Ye, Zhe Zhang, Li’an Li, Wensheng Fan, Yuanguang Meng
Wichtige Hinweise

Electronic supplementary material

The online version of this article (https://​doi.​org/​10.​1186/​s12958-017-0319-5) contains supplementary material, which is available to authorized users.

Abstract

Background

The etiology and pathophysiology of endometriosis remain unclear. Accumulating evidence suggests that aberrant microRNA (miRNA) and transcription factor (TF) expression may be involved in the pathogenesis and development of endometriosis. This study therefore aims to survey the key miRNAs, TFs and genes and further understand the mechanism of endometriosis.

Methods

Paired expression profiling of miRNA and mRNA in ectopic endometria compared with eutopic endometria were determined by high-throughput sequencing techniques in eight patients with ovarian endometriosis. Binary interactions and circuits among the miRNAs, TFs, and corresponding genes were identified by the Pearson correlation coefficients. miRNA-TF-gene regulatory networks were constructed using bioinformatic methods. Eleven selected miRNAs and TFs were validated by quantitative reverse transcription-polymerase chain reaction in 22 patients.

Results

Overall, 107 differentially expressed miRNAs and 6112 differentially expressed mRNAs were identified by comparing the sequencing of the ectopic endometrium group and the eutopic endometrium group. The miRNA-TF-gene regulatory network consists of 22 miRNAs, 12 TFs and 430 corresponding genes. Specifically, some key regulators from the miR-449 and miR-34b/c cluster, miR-200 family, miR-106a-363 cluster, miR-182/183, FOX family, GATA family, and E2F family as well as CEBPA, SOX9 and HNF4A were suggested to play vital regulatory roles in the pathogenesis of endometriosis.

Conclusion

Integration analysis of the miRNA and mRNA expression profiles presents a unique insight into the regulatory network of this enigmatic disorder and possibly provides clues regarding replacement therapy for endometriosis.
Zusatzmaterial
Additional file 1: Clinical characteristics of 30 enrolled patients with ovarian endometriosis. (DOCX 19 kb)
12958_2017_319_MOESM1_ESM.docx
Additional file 2: Supplementary methods introduction for small RNA-seq and mRNA seq. (DOCX 21 kb)
12958_2017_319_MOESM2_ESM.docx
Additional file 3: Primers had been used in qRT-PCR (DOCX 14 kb)
12958_2017_319_MOESM3_ESM.docx
Additional file 4: Summary of the Small RNA sequencing data after filtering and mapping (DOCX 15 kb)
12958_2017_319_MOESM4_ESM.docx
Additional file 5: List of 107 differentially expressed miRNAs in ectopic endometria compared with eutopic endometria (DOCX 17 kb)
12958_2017_319_MOESM5_ESM.docx
Additional file 6: Summary of the mRNA sequencing data after filtering and mapping (DOCX 16 kb)
12958_2017_319_MOESM6_ESM.docx
Additional file 7: Top 25 up-regulated and down-regulated mRNAs in ectopic endometria compared with paired eutopic endometria in ovarian endometriosis. (DOCX 15 kb)
12958_2017_319_MOESM7_ESM.docx
Literatur
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