ralfne

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Academic Interests

Most aspects of bioinformatics, especially related to sequencing data and non-coding RNA annotation.

Understanding the role of non-coding RNA in the evolution of animal multicellularity.

The analysis of biological pathways.

 

Higher education and employment history

Education:

Master degree in Psychology (NTNU, 1998)

Master degree in Biology (UiO, 2010)

 

Employment:

IT development consultant (XCon Data, GreenTrip, Ringnes/Carlsberg, Anticimex, 1999-2008)

Research assistent (bioinformatics) at the MERG group (UoO, 2010-2011)

Part-time bioinformatics consultant for NEXTERA (2014-)

 

 

Publications

  • Yao, Ying; Zia, Asima; Neumann, Ralf Stefan; Pavlović, Milena; Balaban, Gabriel & Lundin, Knut Erik Aslaksen [Show all 8 contributors for this article] (2021). T cell receptor repertoire as a potential diagnostic marker for celiac disease. Clinical Immunology. ISSN 1521-6616. 222, p. 1–7. doi: 10.1016/j.clim.2020.108621.
  • Risnes, Louise Fremgaard; Eggesbø, Linn Margrethe; Zühlke, Stephanie; Dahal-Koirala, Shiva; Neumann, Ralf Stefan & Lundin, Knut Erik Aslaksen [Show all 8 contributors for this article] (2021). Circulating CD103+ γδ and CD8+ T cells are clonally shared with tissue-resident intraepithelial lymphocytes in celiac disease. Mucosal Immunology. ISSN 1933-0219. 14(4), p. 842–851. doi: 10.1038/s41385-021-00385-8.
  • Dahal-Koirala, Shiva; Risnes, Louise Fremgaard; Neumann, Ralf Stefan; Christophersen, Asbjørn; Lundin, Knut E. A. & Sandve, Geir Kjetil [Show all 8 contributors for this article] (2021). Comprehensive Analysis of CDR3 Sequences in Gluten-Specific T-Cell Receptors Reveals a Dominant R-Motif and Several New Minor Motifs. Frontiers in Immunology. ISSN 1664-3224. 12:639672, p. 1–13. doi: 10.3389/fimmu.2021.639672. Full text in Research Archive
  • Ting, Yi Tian; Dahal-Koirala, Shiva; Kim, Hui Shi Keshia; Qiao, Shuo Wang; Neumann, Ralf Stefan & Lundin, Knut Erik Aslaksen [Show all 10 contributors for this article] (2020). A molecular basis for the T cell response in HLA-DQ2.2 mediated celiac disease. Proceedings of the National Academy of Sciences of the United States of America. ISSN 0027-8424. 117(6), p. 3063–3073. doi: 10.1073/pnas.1914308117. Full text in Research Archive
  • Iversen, Rasmus; Roy, Bishnudeo; Stamnæs, Jorunn; Høydahl, Lene Støkken; Hnida, Kathrin & Neumann, Ralf Stefan [Show all 9 contributors for this article] (2019). Efficient T cell–B cell collaboration guides autoantibody epitope bias and onset of celiac disease. Proceedings of the National Academy of Sciences of the United States of America. ISSN 0027-8424. 116(30), p. 15134–15139. doi: 10.1073/pnas.1901561116. Full text in Research Archive
  • Bartolomé Casado, Raquel; Landsverk, Ole J. B.; Chauhan, Sudhir Kumar; Richter, Lisa Maria; Phung, Danh & Greiff, Victor [Show all 18 contributors for this article] (2019). Resident memory CD8 T cells persist for years in human small intestine. Journal of Experimental Medicine (JEM). ISSN 0022-1007. 216(10), p. 2412–2426. doi: 10.1084/jem.20190414. Full text in Research Archive
  • Eggesbø, Linn Margrethe; Risnes, Louise Fremgaard; Neumann, Ralf Stefan; Lundin, Knut Erik Aslaksen; Christophersen, Asbjørn & Sollid, Ludvig Magne (2019). Single-cell TCR sequencing of gut intraepithelial γδ T cells reveals a vast and diverse repertoire in celiac disease. Mucosal Immunology. ISSN 1933-0219. p. 1–9. doi: 10.1038/s41385-019-0222-9. Full text in Research Archive
  • Dahal-Koirala, Shiva; Neumann, Ralf Stefan; Jahnsen, Jørgen; Lundin, Knut Erik Aslaksen & Sollid, Ludvig Magne (2019). On the immune response to barley in celiac disease: Biased and public T-cell receptor usage to a barley unique and immunodominant gluten epitope. European Journal of Immunology. ISSN 0014-2980. p. 1–14. doi: 10.1002/eji.201948253. Full text in Research Archive
  • Dahal-Koirala, Shiva; Ciacchi, Laura; Petersen, Jan; Risnes, Louise Fremgaard; Neumann, Ralf Stefan & Christophersen, Asbjørn [Show all 11 contributors for this article] (2018). Discriminative T-cell receptor recognition of highly homologous HLA-DQ2-bound gluten epitopes . Journal of Biological Chemistry. ISSN 0021-9258. 294(3), p. 941–952. doi: 10.1074/jbc.RA118.005736. Full text in Research Archive
  • Bråte, Jon; Neumann, Ralf Stefan; Fromm, Bastian; Haraldsen, Arthur Alexander Blørstad; Tarver, James E. & Suga, Hiroshi [Show all 11 contributors for this article] (2018). Unicellular origin of the animal microRNA machinery. Current Biology. ISSN 0960-9822. 28(20), p. 3288–3295.e5. doi: 10.1016/j.cub.2018.08.018. Full text in Research Archive
  • Risnes, Louise Fremgaard; Christophersen, Asbjørn; Dahal-Koirala, Shiva; Neumann, Ralf Stefan; Sandve, Geir Kjetil & Sarna, Vikas Kumar [Show all 9 contributors for this article] (2018). Disease-driving CD4+ T cell clonotypes persist for decades in celiac disease. Journal of Clinical Investigation. ISSN 0021-9738. 128(6), p. 2642–2650. doi: 10.1172/JCI98819. Full text in Research Archive
  • Gunnarsen, Kristin Støen; Høydahl, Lene Støkken; Neumann, Ralf Stefan; Bjerregaard-Andersen, Kaare; Nilssen, Nicolay Rustad & Sollid, Ludvig Magne [Show all 8 contributors for this article] (2018). Soluble T-cell receptor design influences functional yield in an E. coli chaperone-assisted expression system. PLOS ONE. ISSN 1932-6203. 13:e0195868(4), p. 1–15. doi: 10.1371/journal.pone.0195868. Full text in Research Archive
  • Gunnarsen, Kristin Støen; Høydahl, Lene Støkken; Risnes, Louise Fremgaard; Dahal-Koirala, Shiva; Neumann, Ralf Stefan & Bergseng, Elin [Show all 15 contributors for this article] (2017). A TCRα framework–centered codon shapes a biased T cell repertoire through direct MHC and CDR3β interactions. JCI Insight. ISSN 2379-3708. 2(17). doi: 10.1172/jci.insight.95193. Full text in Research Archive
  • Roy, Bishnudeo; Neumann, Ralf Stefan; Snir, Omri; Iversen, Rasmus; Sandve, Geir Kjetil & Lundin, Knut Erik Aslaksen [Show all 7 contributors for this article] (2017). High-Throughput Single-Cell Analysis of B Cell Receptor Usage among Autoantigen-Specific Plasma Cells in Celiac Disease. Journal of Immunology. ISSN 0022-1767. 199((2)), p. 782–791. doi: 10.4049/jimmunol.1700169. Full text in Research Archive
  • Kumar, Surendra; Krabberød, Anders Kristian; Neumann, Ralf Stefan; Michalickova, Katerina; Zhao, Sen & Zhang, Xiaoli [Show all 7 contributors for this article] (2015). BIR pipeline for preparation of phylogenomic data. Evolutionary Bioinformatics. ISSN 1176-9343. 11, p. 79–83. doi: 10.4137/EBO.S10189.
  • Bråte, Jon; Adamski, Marcin; Neumann, Ralf Stefan; Shalchian-Tabrizi, Kamran & Adamska, Maja (2015). Regulatory RNA at the root of animals: dynamic expression of developmental lincRNAs in the calcisponge Sycon ciliatum. Proceedings of the Royal Society of London. Biological Sciences. ISSN 0962-8452. 282(1821), p. 1–9. doi: 10.1098/rspb.2015.1746. Full text in Research Archive
  • Neumann, Ralf Stefan; Kumar, Surendra; Haverkamp, Thomas Hendricus Augustus & Shalchian-Tabrizi, Kamran (2014). BLASTGrabber: A bioinformatic tool for visualization, analysis and sequence selection of massive BLAST data. BMC Bioinformatics. ISSN 1471-2105. 15(128). doi: 10.1186/1471-2105-15-128. Full text in Research Archive
  • Neumann, Ralf Stefan; Kumar, Surendra & Shalchian-Tabrizi, Kamran (2014). BLAST output visualization in the new sequencing era. Briefings in Bioinformatics. ISSN 1467-5463. 15(4), p. 484–503. doi: 10.1093/bib/bbt009.

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  • Haraldsen, Arthur Alexander Blørstad; Bråte, Jon; Neumann, Ralf Stefan; Fromm, Bastian; Grini, Paul Eivind & Shalchian-Tabrizi, Kamran (2016). Pre-metazoan origin of animal microRNAs.
  • Bjorbækmo, Marit Markussen; Neumann, Ralf Stefan; Haraldsen, Arthur Alexander Blørstad & Shalchian-Tabrizi, Kamran (2015). HIDDEN PROTIST PARASITES: HOW CAN THEY BE DETECTED?
  • Bjorbækmo, Marit Markussen; Neumann, Ralf Stefan; Haraldsen, Arthur Alexander Blørstad & Shalchian-Tabrizi, Kamran (2015). Expanding our knowledge about parasites using PATHOS-DB (The PArasiTe–HOSt-DataBase).
  • Høydahl, Lene Støkken; Neumann, Ralf Stefan; Qiao, Shuo Wang; Sollid, Ludvig Magne; Sandlie, Inger & Løset, Geir Åge (2011). Development of a High Affinity TCR Reagent by Phage Display to Study Antigen Presentation in Celiac Disease. Scandinavian Journal of Immunology. ISSN 0300-9475. 73(4), p. 372–372.

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Published May 12, 2014 11:11 AM - Last modified Apr. 24, 2015 12:56 PM