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Bonnal RJ, Ranzani V, Arrigoni A, et al. De novo transcriptome profiling of highly purified human lymphocytes primary cells. Sci Data. 2015;2:150051doi: 10.1038/sdata.2015.51.
Bonnal, R. J., Ranzani, V., Arrigoni, A., Curti, S., Panzeri, I., Gruarin, P., Abrignani, S., Rossetti, G., & Pagani, M. (2015). De novo transcriptome profiling of highly purified human lymphocytes primary cells. Scientific data, 2150051. https://doi.org/10.1038/sdata.2015.51
Bonnal, Raoul J P, et al. "De novo transcriptome profiling of highly purified human lymphocytes primary cells." Scientific data vol. 2 (2015): 150051. doi: https://doi.org/10.1038/sdata.2015.51
Bonnal RJ, Ranzani V, Arrigoni A, Curti S, Panzeri I, Gruarin P, Abrignani S, Rossetti G, Pagani M. De novo transcriptome profiling of highly purified human lymphocytes primary cells. Sci Data. 2015 Sep 29;2:150051. doi: 10.1038/sdata.2015.51. eCollection 2015. PMID: 26451251; PMCID: PMC4587370.
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Sci Data. 2015 Sep 29;2:150051. doi: 10.1038/sdata.2015.51. eCollection 2015.

De novo transcriptome profiling of highly purified human lymphocytes primary cells.

Scientific data

Raoul J P Bonnal, Valeria Ranzani, Alberto Arrigoni, Serena Curti, Ilaria Panzeri, Paola Gruarin, Sergio Abrignani, Grazisa Rossetti, Massimiliano Pagani

Affiliations

  1. Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi' , Via F. Sforza 35, Milan 20122, Italy.
  2. Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi' , Via F. Sforza 35, Milan 20122, Italy ; Department of Clinical Sciences and Community Health, Università degli Studi di Milano , Via Festa del Perdono 7, Milano 20122, Italy.
  3. Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi' , Via F. Sforza 35, Milan 20122, Italy ; Department of Medical Biotechnology and Translational Medicine, Università degli Studi di Milano , Via Festa del Perdono 7, Milano 20122, Italy.

PMID: 26451251 PMCID: PMC4587370 DOI: 10.1038/sdata.2015.51

Abstract

To help better understand the role of long noncoding RNAs in the human immune system, we recently generated a comprehensive RNA-seq data set using 63 RNA samples from 13 subsets of T (CD4(+) naive, CD4(+) TH1, CD4(+) TH2, CD4(+) TH17, CD4(+) Treg, CD4(+) TCM, CD4(+) TEM, CD8(+) TCM, CD8(+) TEM, CD8(+) naive) and B (B naive, B memory, B CD5(+)) lymphocytes. There were five biological replicates for each subset except for CD8(+) TCM and B CD5(+) populations that included 4 replicates. RNA-Seq data were generated by an Illumina HiScanSQ sequencer using the TruSeq v3 Cluster kit. 2.192 billion of paired-ends reads, 2×100 bp, were sequenced and after filtering a total of about 1.7 billion reads were mapped. Using different de novo transcriptome reconstruction techniques over 500 previously unknown lincRNAs were identified. The current data set could be exploited to drive the functional characterization of lincRNAs, identify novel genes and regulatory networks associated with specific cells subsets of the human immune system.

References

  1. Nat Methods. 2011 Jun;8(6):469-77 - PubMed
  2. Nucleic Acids Res. 2012 Jan;40(Database issue):D290-301 - PubMed
  3. Nucleic Acids Res. 2013 Apr 1;41(6):e74 - PubMed
  4. BMC Genomics. 2013;14:778 - PubMed
  5. Genes Dev. 2011 Sep 15;25(18):1915-27 - PubMed
  6. Genome Res. 2012 Sep;22(9):1775-89 - PubMed
  7. Nat Immunol. 2013 Nov;14(11):1190-8 - PubMed
  8. Bioinformatics. 2009 May 1;25(9):1105-11 - PubMed
  9. Bioinformatics. 2013 Jan 1;29(1):15-21 - PubMed
  10. Science. 2013 Aug 16;341(6147):789-92 - PubMed
  11. Nat Biotechnol. 2010 May;28(5):511-5 - PubMed
  12. Bioinformatics. 2014 Aug 1;30(15):2114-20 - PubMed
  13. Front Immunol. 2015 Apr 15;6:175 - PubMed
  14. Immunol Rev. 2013 May;253(1):82-96 - PubMed
  15. Nucleic Acids Res. 2014 Jan;42(Database issue):D222-30 - PubMed
  16. BMC Genomics. 2013;14 Suppl 2:S7 - PubMed
  17. BMC Bioinformatics. 2010;11:431 - PubMed
  18. Bioinformatics. 2010 Mar 15;26(6):841-2 - PubMed
  19. Bioinformatics. 2005 May 1;21(9):1859-75 - PubMed
  20. Nat Immunol. 2015 Mar;16(3):318-25 - PubMed
  21. Genome Biol. 2009;10(3):R25 - PubMed
  22. Bioinformatics. 2011 Jul 1;27(13):i275-82 - PubMed
  23. Bioinformatics. 2011 Sep 1;27(17):2325-9 - PubMed
  24. Nucleic Acids Res. 2015 Jan;43(Database issue):D662-9 - PubMed
  25. Nucleic Acids Res. 2015 Jan;43(Database issue):D670-81 - PubMed
  26. Nucleic Acids Res. 2013 Sep;41(17):e166 - PubMed
  27. Nature. 2013 Jan 10;493(7431):231-5 - PubMed
  28. Genome Biol. 2008;9(1):R7 - PubMed
  29. Nature. 2011 Sep 15;477(7364):295-300 - PubMed
  30. Nat Rev Genet. 2009 Mar;10(3):155-9 - PubMed
  31. Genome Biol. 2014;15(12):550 - PubMed

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