Ralf Stefan Neumann

Image of Ralf  Stefan Neumann
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Room 4131
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Visiting address Sognsvannsveien 20 Rikshospitalet 0372 OSLO
Postal address Postboks 4950 Nydalen 0424 OSLO

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

  • Ting, Yi Tian; Dahal-Koirala, Shiva; Kim, Hui Shi Keshia; Qiao, Shuo Wang; Neumann, Ralf Stefan; Lundin, Knut Erik Aslaksen; Petersen, Jan; Reid, Hugh H.; Sollid, Ludvig Magne & Rossjohn, Jamie (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), s 3063- 3073 . doi: 10.1073/pnas.1914308117
  • Bartolomé Casado, Raquel; Landsverk, Ole J. B.; Chauhan, Sudhir Kumar; Richter, Lisa Maria; Phung, Danh; Greiff, Victor; Risnes, Louise Fremgaard; Yao, Ying; Neumann, Ralf Stefan; Yaqub, Sheraz; Øyen, Ole; Horneland, Rune; Aandahl, Einar Martin; Paulsen, Vemund; Sollid, Ludvig Magne; Qiao, Shuo Wang; Bækkevold, Espen Sønderaal & Jahnsen, Frode Lars (2019). Resident memory CD8 T cells persist for years in human small intestine. Journal of Experimental Medicine.  ISSN 0022-1007.  216(10), s 2412- 2426 . doi: 10.1084/jem.20190414 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.  s 1- 14 . doi: 10.1002/eji.201948253 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.  s 1- 9 . doi: 10.1038/s41385-019-0222-9
  • Iversen, Rasmus; Roy, Bishnudeo; Stamnæs, Jorunn; Høydahl, Lene Støkken; Hnida, Kathrin; Neumann, Ralf Stefan; Korponay-Szabó, Ilma R.; Lundin, Knut Erik Aslaksen & Sollid, Ludvig Magne (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), s 15134- 15139 . doi: 10.1073/pnas.1901561116 Full text in Research Archive.
  • Bråte, Jon; Neumann, Ralf Stefan; Fromm, Bastian; Haraldsen, Arthur Alexander Blørstad; Tarver, James E.; Suga, Hiroshi; Donoghue, Philip C.J.; Peterson, Kevin J.; Ruiz-Trillo, Iñaki; Grini, Paul Eivind & Shalchian-Tabrizi, Kamran (2018). Unicellular origin of the animal microRNA machinery. Current Biology.  ISSN 0960-9822.  28(20), s 3288- 3295.e5 . doi: 10.1016/j.cub.2018.08.018 Full text in Research Archive.
  • Dahal-Koirala, Shiva; Ciacchi, Laura; Petersen, Jan; Risnes, Louise Fremgaard; Neumann, Ralf Stefan; Christophersen, Asbjørn; Lundin, Knut Erik Aslaksen; Reid, Hugh H.; Qiao, Shuo Wang; Rossjohn, Jamie & Sollid, Ludvig Magne (2018). Discriminative T-cell receptor recognition of highly homologous HLA-DQ2-bound gluten epitopes. Journal of Biological Chemistry.  ISSN 0021-9258.  294(3), s 941- 952 . doi: 10.1074/jbc.RA118.005736 Full text in Research Archive.
  • Gunnarsen, Kristin Støen; Høydahl, Lene Støkken; Neumann, Ralf Stefan; Bjerregaard-Andersen, Kaare; Nilssen, Nicolay Rustad; Sollid, Ludvig Magne; Sandlie, Inger & Løset, Geir Åge (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), s 1- 15 . doi: 10.1371/journal.pone.0195868 Full text in Research Archive. Show summary
  • Risnes, Louise Fremgaard; Christophersen, Asbjørn; Dahal-Koirala, Shiva; Neumann, Ralf Stefan; Sandve, Geir Kjetil; Sarna, Vikas Kumar; Lundin, Knut Erik Aslaksen; Qiao, Shuo Wang & Sollid, Ludvig Magne (2018). Disease-driving CD4+ T cell clonotypes persist for decades in celiac disease. Journal of Clinical Investigation.  ISSN 0021-9738.  128(6), s 2642- 2650 . doi: 10.1172/JCI98819 Full text in Research Archive.
  • Gunnarsen, Kristin Støen; Høydahl, Lene Støkken; Risnes, Louise Fremgaard; Dahal-Koirala, Shiva; Neumann, Ralf Stefan; Bergseng, Elin; Frigstad, Terje; Frick, Rahel; du Pré, Marie Fleur; Dalhus, Bjørn; Lundin, Knut Erik Aslaksen; Qiao, Shuo Wang; Sollid, Ludvig Magne; Sandlie, Inger & Løset, Geir Åge (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 & Sollid, Ludvig Magne (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)), s 782- 791 . doi: 10.4049/jimmunol.1700169 Full text in Research Archive.
  • 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), s 1- 9 . doi: 10.1098/rspb.2015.1746 Full text in Research Archive. Show summary
  • Kumar, Surendra; Krabberød, Anders Kristian; Neumann, Ralf Stefan; Michalickova, Katerina; Zhao, Sen; Zhang, Xiaoli & Shalchian-Tabrizi, Kamran (2015). BIR pipeline for preparation of phylogenomic data. Evolutionary Bioinformatics.  ISSN 1176-9343.  11, s 79- 83 . doi: 10.4137/EBO.S10189
  • 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), s 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). Expanding our knowledge about parasites using PATHOS-DB (The PArasiTe–HOSt-DataBase).
  • Bjorbækmo, Marit Markussen; Neumann, Ralf Stefan; Haraldsen, Arthur Alexander Blørstad & Shalchian-Tabrizi, Kamran (2015). HIDDEN PROTIST PARASITES: HOW CAN THEY BE DETECTED?.
  • 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), s 372- 372

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

Projects

No ongoing projects