A high-resolution map of the human small non-coding transcriptome.

A high-resolution map of the human small non-coding transcriptome. Fehlmann, T., Backes, C., Alles, J., Fischer, U., Hart, M., Kern, F., Langseth, H., Rounge, T., Umu, S. U., Kahraman, M., Laufer, T., Haas, J., Staehler, C., Ludwig, N., Hübenthal, M., Meder, B., Franke, A., Lenhof, H., Meese, E., & Keller, A. Bioinformatics (Oxford, England), 34:1621–1628, May, 2018.
doi abstract bibtex

Although the amount of small non-coding RNA-sequencing data is continuously increasing, it is still unclear to which extent small RNAs are represented in the human genome. In this study we analyzed 303 billion sequencing reads from nearly 25 000 datasets to answer this question. We determined that 0.8% of the human genome are reliably covered by 874 123 regions with an average length of 31 nt. On the basis of these regions, we found that among the known small non-coding RNA classes, microRNAs were the most prevalent. In subsequent steps, we characterized variations of miRNAs and performed a staged validation of 11 877 candidate miRNAs. Of these, many were actually expressed and significantly dysregulated in lung cancer. Selected candidates were finally validated by northern blots. Although isolated miRNAs could still be present in the human genome, our presented set likely contains the largest fraction of human miRNAs. c.backes@mx.uni-saarland.de or andreas.keller@ccb.uni-saarland.de. Supplementary data are available at Bioinformatics online.

@Article{Fehlmann2018,
  author       = {Fehlmann, Tobias and Backes, Christina and Alles, Julia and Fischer, Ulrike and Hart, Martin and Kern, Fabian and Langseth, Hilde and Rounge, Trine and Umu, Sinan Ugur and Kahraman, Mustafa and Laufer, Thomas and Haas, Jan and Staehler, Cord and Ludwig, Nicole and Hübenthal, Matthias and Meder, Benjamin and Franke, Andre and Lenhof, Hans-Peter and Meese, Eckart and Keller, Andreas},
  title        = {A high-resolution map of the human small non-coding transcriptome.},
  journal      = {Bioinformatics (Oxford, England)},
  year         = {2018},
  volume       = {34},
  pages        = {1621--1628},
  month        = may,
  issn         = {1367-4811},
  abstract     = {Although the amount of small non-coding RNA-sequencing data is continuously increasing, it is still unclear to which extent small RNAs are represented in the human genome. In this study we analyzed 303 billion sequencing reads from nearly 25 000 datasets to answer this question. We determined that 0.8% of the human genome are reliably covered by 874 123 regions with an average length of 31 nt. On the basis of these regions, we found that among the known small non-coding RNA classes, microRNAs were the most prevalent. In subsequent steps, we characterized variations of miRNAs and performed a staged validation of 11 877 candidate miRNAs. Of these, many were actually expressed and significantly dysregulated in lung cancer. Selected candidates were finally validated by northern blots. Although isolated miRNAs could still be present in the human genome, our presented set likely contains the largest fraction of human miRNAs. c.backes@mx.uni-saarland.de or andreas.keller@ccb.uni-saarland.de. Supplementary data are available at Bioinformatics online.},
  country      = {England},
  doi          = {10.1093/bioinformatics/btx814},
  issn-linking = {1367-4803},
  issue        = {10},
  nlm-id       = {9808944},
  owner        = {NLM},
  pii          = {4769492},
  pmid         = {29281000},
  pubmodel     = {Print},
  pubstatus    = {ppublish},
  revised      = {2018-05-11},
}

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