The NNF Center for Protein Research

  1. 2020
  2. Published

    Membrane Protein Cryo-EM: Cryo-Grid Optimization and Data Collection with Protein in Detergent

    Bloch, Magnus Borup, Santiveri, Mònica & Taylor, Nicholas M I, 2020, Expression, Purification, and Structural Biology of Membrane Proteins. Perez, C. & Maier, T. (eds.). Humana Press, p. 227-244 18 p. (Methods in Molecular Biology, Vol. 2127).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  3. 2019
  4. Published

    A Guide to Dictionary-Based Text Mining

    Cook, H. V. & Jensen, Lars Juhl, 2019, Bioinformatics and Drug Discovery. Larson, R. S. & Oprea, T. I. (eds.). 3 ed. Humana Press, Vol. 1939. p. 73-89 17 p. (Methods in Molecular Biology).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  5. Published

    Combing the Hairball: Improving Visualization of miRNA-Target Interaction Networks

    Russo, Francesco, Hjaltelin, Jessica Xin, Romero Herrera, Jose Alejandro & Brunak, Søren, 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 279-289 11 p. (Methods in Molecular Biology, Vol. 1970).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  6. Published

    Identification of Disease-miRNA Networks Across Different Cancer Types Using SWIM

    Fiscon, G., Conte, F., Farina, L., Pellegrini, M., Russo, Francesco & Paci, P., 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 169-181 13 p. (Methods in Molecular Biology, Vol. 1970).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  7. Published

    Tail Structure and Dynamics

    Bhatt, Shweta, Leiman, P. G. & Taylor, Nicholas M I, 2019, Reference Module in Life Sciences. Elsevier

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearch

  8. 2018
  9. Published

    An Integrative Approach to Virus-Host Protein-Protein Interactions

    Cook, H. V. & Jensen, Lars Juhl, 2018, Computational Cell Biology. von Stechow, L. & Delgado, A. S. (eds.). Humana Press, p. 175-196 22 p. (Methods in Molecular Biology, Vol. 1819).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  10. Published

    Interplay Between Long Noncoding RNAs and MicroRNAs in Cancer

    Russo, Francesco, Fiscon, G., Conte, F., Rizzo, M., Paci, P. & Pellegrini, M., 2018, Computational Cell Biology. von Stechow, L. & Delgado, A. S. (eds.). Humana Press, p. 75-92 18 p. (Methods in Molecular Biology, Vol. 1819).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  11. Published

    Proteomics in the Study of Liver Diseases

    Niu, Lili, Geyer, P. E. & Mann, Matthias, 2018, The Human Gut-Liver-Axis in Health and Disease. Krag, A. & Hansen, T. (eds.). Springer, p. 165-193

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  12. Published

    The Interplay of Non-coding RNAs and X Chromosome Inactivation in Human Disease

    Russo, Francesco, De Masi, F., Brunak, Søren & Belling, Kirstine G, 2018, Systems Biology. Rajewsky, N., Jurga, S. & Barciszewski, J. (eds.). Springer, p. 229-238 (RNA Technologies).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  13. 2017
  14. Published

    Proteome-Wide Identification of In Vivo ADP-Ribose Acceptor Sites by Liquid Chromatography-Tandem Mass Spectrometry

    Buch-Larsen, Sara Charlotte, Leutert, M., Bilan, V., Martello, R., Jungmichel, S., Young, C., Hottiger, M. O. & Nielsen, Michael Lund, 2017, Poly(ADP-Ribose) Polymerase. Tulin, A. V. (ed.). Humana Press, Vol. 1608. p. 149-162 14 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  15. Published

    Quantitation of Poly(ADP-Ribose) by Isotope Dilution Mass Spectrometry

    Zubel, T., Martello, R., Bürkle, A. & Mangerich, A., 2017, Poly(ADP-Ribose) Polymerase . Tulin, A. V. (ed.). Humana Press, Vol. 1608. p. 3-18 16 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  16. 2016
  17. Published

    Methods for the identification of PTEN-targeting microRNAs

    Tuccoli, A., Vitiello, M., Marranci, A., Russo, Francesco & Poliseno, L., 1 Jan 2016, Methods in Molecular Biology. Humana Press, p. 111-138 28 p. (Methods in Molecular Biology, Vol. 1388).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  18. Published

    From Phosphosites to Kinases

    Munk, S., Refsgaard, J. C., Olsen, Jesper Velgaard & Jensen, Lars Juhl, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer, Vol. 1355. p. 307-21 15 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  19. Published

    Offline High pH Reversed-Phase Peptide Fractionation for Deep Phosphoproteome Coverage

    Batth, Tanveer Singh & Olsen, Jesper Velgaard, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer, Vol. 1355. p. 179-92 14 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  20. Published

    Search Databases and Statistics: Pitfalls and Best Practices in Phosphoproteomics

    Refsgaard, J. C., Munk, S. & Jensen, Lars Juhl, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer Publishing Company, Vol. 1355. p. 323-39 17 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  21. Published

    Simple and Reproducible Sample Preparation for Single-Shot Phosphoproteomics with High Sensitivity

    Jersie-Christensen, R. R., Sultan, A. & Olsen, Jesper Velgaard, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). p. 251-60 10 p. (Methods in molecular biology (Clifton, N.J.), Vol. 1355).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  22. Published

    Systems Analysis for Interpretation of Phosphoproteomics Data

    Munk, S., Refsgaard, J. C. & Olsen, Jesper Velgaard, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer, Vol. 1355. p. 341-60 20 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  23. 2015
  24. Published

    Large-Scale Identification of the Arginine Methylome by Mass Spectrometry

    Sylvestersen, K. B. & Nielsen, Michael Lund, 2 Nov 2015, Current Protocols in Protein Science. Vol. 82. 17 p. (Current Protocols in Protein Science).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  25. Published

    Computational design of artificial RNA molecules for gene regulation

    Laganà, A., Veneziano, D., Russo, Francesco, Pulvirenti, A., Giugno, R., Croce, C. M. & Ferro, A., 10 Jan 2015, RNA Bioinformatics. Springer New York LLC, p. 393-412 20 p.

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  26. Published

    Protein-Protein Interaction Databases

    Szklarczyk, D. & Jensen, Lars Juhl, 2015, Protein-Protein Interactions: Methods and Applications. Meyerkord, C. L. & Fu, H. (eds.). 2 ed. New York: Springer Publishing Company, Vol. 1278. p. 39-56 18 p. (Methods in Molecular Biology, Vol. 1278).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  27. 2014
  28. Published

    Identification of thioredoxin target disulfides using isotope-coded affinity tags

    Hägglund, Per Mårten, Bunkenborg, J., Maeda, K., Finnie, C. & Svensson, B., 2014, Plant Proteomics: Methods and Protocols. Humana Press, p. 677-685 9 p. (Methods in Molecular Biology, Vol. 1072).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  29. 2011
  30. Published

    GeLCMS for in-depth protein characterization and advanced analysis of proteomes

    Lundby, Alicia & Olsen, Jesper Velgaard, 1 Jan 2011, Gel-Free Proteomics Methods and Protocols. Vol. 753. p. 143-55 13 p.

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  31. 2009
  32. Published

    Homologous and non-homologous sequence methods for assigning protein function

    Yeats, C., orengo, C., Veuthey, A. L., Boeckmann, B., Jensen, Lars Juhl, Valencia, A., Rausell, A. & Bork, P., 2009, Modern Genome Annotation: The BioSapien Network. Springer Publishing Company, p. 213-238

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  33. Published

    Protein-protein interactions: analysis and prediction

    Frishman, D., Albert, M., Blankenburg, H., Bork, P., Harrington, E. D., Hermjakob, H., Jensen, Lars Juhl, Juan, D. A., Pagel, P., Schachter, V. & Valencia, A., 2009, Modern Genome Annotation: The BioSapien Network. Springer Publishing Company, p. 353-410 (Modern Genome Annotation: The BioSapiens network).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearch

  34. 2008
  35. Published

    αAmylases. Interaction with Polysaccharide Substrates, Proteinaceous Inhibitors and Regulatory Proteins

    Seo, E. S., Nielsen, M. M., Andersen, J. M., Vester-Christensen, M. B., Jensen, J. M., Christiansen, C., Dilokpimol, A., Hachem, M. A., Hägglund, Per Mårten, Maedal, K., Finnie, C., Blennow, Andreas & Svensson, B., Sep 2008, Carbohydrate-Active Enzymes: Structure, Function and Applications. Elsevier Ltd, p. 20-36 17 p.

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

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