Journal of Proteome Research, 1535-3893

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  1. Detection and identification of protein isoforms using cluster analysis of MALDI-MS mass spectra

    Alm, R., Johansson, P., Hjerno, K., Cecilia Emanuelsson, Markus Ringnér & Jari Häkkinen, 2006, In : Journal of Proteome Research. 5, 4, p. 785-792

    Research output: Contribution to journalArticle

  2. Proteomic variation is as large within as between strawberry varieties

    Alm, R., Ekefjard, A., Krogh, M., Jari Häkkinen & Cecilia Emanuelsson, 2007, In : Journal of Proteome Research. 6, 8, p. 3011-3020

    Research output: Contribution to journalArticle

  3. Automating MALDI Sample Plate Loading

    Andersson, T., Johansson, M., Bolmsjö, G. & Peter James, 2007, In : Journal of Proteome Research. 6, 2, p. 894-896

    Research output: Contribution to journalArticle

  4. Critical Comparison of Multidimensional Separation Methods for Increasing Protein Expression Coverage

    Antberg, L., Cifani, P., Sandin, M., Fredrik Levander & Peter James, 2012, In : Journal of Proteome Research. 11, 5, p. 2644-2652

    Research output: Contribution to journalArticle

  5. Mass Spectrometry Analysis of a Protein Kinase CK2 beta Subunit Interactome Isolated from Mouse Brain by Affinity Chromatography.

    Arrigoni, G., Pagano, M., Sarno, S., Cesaro, L., Peter James & Pinna, L., 2008, In : Journal of Proteome Research. 7, 3, p. 990-1000

    Research output: Contribution to journalArticle

  6. Comparison of MS/MS methods for protein identification from 2D-PAGE

    Arrigoni, G., Celine Fernandez, Cecilia Holm, Scigelova, M. & Peter James, 2006, In : Journal of Proteome Research. 5, 9, p. 2294-2300

    Research output: Contribution to journalArticle

  7. Automated PreScan function for scanning fluorescently stained 2D-PAGE gels

    Bäck, P., Waldemarson, S. & Peter James, 2005, In : Journal of Proteome Research. 4, 5, p. 1511-1515

    Research output: Contribution to journalArticle

  8. Automating gel image acquisition

    Bäck, P., Nagard, F., Bolmsjö, G., Waldemarson, S. & Peter James, 2003, In : Journal of Proteome Research. 2, 6, p. 662-664

    Research output: Contribution to journalArticle

  9. Quantification of Membrane Proteins Using Nonspecific Protease Digestions

    Bendz, M., Carlsson Möller, M., Arrigoni, G., Wåhlander, Å., Stella, R., Cappadona, S., Fredrik Levander, Lars Hederstedt & Peter James, 2009, In : Journal of Proteome Research. 8, 12, p. 5666-5673

    Research output: Contribution to journalArticle

  10. Large-Scale Proteomics Analysis of Human Ovarian Cancer for Biomarkers

    Bengtsson, S., Krogh, M., Al-Khalili Szigyarto, C., Uhlen, M., Schedvins, K., Silfversward, C., Linder, S., Auer, G., Alaiya, A. & Peter James, 2007, In : Journal of Proteome Research. 6, 4, p. 1440-1450

    Research output: Contribution to journalArticle

  11. Biology/Disease-Driven Initiative on Protein-Aggregation Diseases of the Human Proteome Project: Goals and Progress to Date

    Boersema, P. J., Melnik, A., Hazenberg, B. P. C., Melinda Rezeli, György Marko-Varga, Kamiie, J., Portelius, E., Blennow, K., Zubarev, R. A., Polymenidou, M. & Picotti, P., 2018 Dec 7, In : Journal of Proteome Research. 17, 12, p. 4072-4084

    Research output: Contribution to journalArticle

  12. Analytical Validation Considerations of Multiplex Mass-Spectrometry-Based Proteomic Platforms for Measuring Protein Biomarkers

    Boja, E. S., Fehniger, T., Baker, M. S., György Marko-Varga & Rodriguez, H., 2014, In : Journal of Proteome Research. 13, 12, p. 5325-5332

    Research output: Contribution to journalDebate/Note/Editorial

  13. Blood Metabolic Signatures of Body Mass Index: A Targeted Metabolomics Study in the EPIC Cohort

    Carayol, M., Leitzmann, M. F., Ferrari, P., Zamora-Ros, R., Achaintre, D., Stepien, M., Schmidt, J. A., Travis, R. C., Overvad, K., Tjønneland, A., Hansen, L., Kaaks, R., Kühn, T., Boeing, H., Bachlechner, U., Trichopoulou, A., Bamia, C., Palli, D., Agnoli, C., Tumino, R. & 18 othersVineis, P., Panico, S., Quirós, J. R., Sánchez-Cantalejo, E., Huerta, J. M., Ardanaz, E., Arriola, L., Agudo, A., Nilsson, J., Olle Melander, Bueno de Mesquita, B., Peeters, P. H., Wareham, N., Khaw, K-T., Jenab, M., Key, T. J., Scalbert, A. & Rinaldi, S., 2017 Sep 1, In : Journal of Proteome Research. 16, 9, p. 3137-3146 10 p.

    Research output: Contribution to journalArticle

  14. Characterization of the outer membrane protein profile from disease-related Helicobacter pylori isolates by subcellular fractionation and nano-LC FT-ICR MS analysis

    Carlsohn, E., Nyström, J., Karlsson, H., Svennerholm, A-M. & Carol L Nilsson, 2006 Nov, In : Journal of Proteome Research. 5, 11, p. 3197-204 8 p.

    Research output: Contribution to journalArticle

  15. Data Processing Has Major Impact on the Outcome of Quantitative Label-Free LC-MS Analysis

    Chawade, A., Sandin, M., Teleman, J., Johan Malmström & Fredrik Levander, 2015, In : Journal of Proteome Research. 14, 2, p. 676-687

    Research output: Contribution to journalArticle

  16. Normalyzer: A Tool for Rapid Evaluation of Normalization Methods for Omics Data Sets

    Chawade, A., Alexandersson, E. & Fredrik Levander, 2014, In : Journal of Proteome Research. 13, 6, p. 3114-3120

    Research output: Contribution to journalArticle

  17. Targeted Proteomics Approach for Precision Plant Breeding

    Chawade, A., Alexandersson, E., Bengtsson, T., Andreasson, E. & Fredrik Levander, 2016 Feb 5, In : Journal of Proteome Research. 15, 2, p. 638-642 9 p.

    Research output: Contribution to journalArticle

  18. Hunting for Protein Markers of Hypoxia by Combining Plasma Membrane Enrichment with a New Approach to Membrane Protein Analysis

    Cifani, P., Bendz, M., Wårell, K., Hansson, K. M., Fredrik Levander, Sandin, M., Krogh, M., Ovenberger, M., Fredlund, E., Marica Vaapil, Alexander Pietras, Sven Påhlman & Peter James, 2011, In : Journal of Proteome Research. 10, 4, p. 1645-1656

    Research output: Contribution to journalArticle

  19. Molecular Portrait of Breast-Cancer-Derived Cell Lines Reveals Poor Similarity with Tumors.

    Cifani, P., Kirik, U., Waldemarson, S. & Peter James, 2015, In : Journal of Proteome Research. 14, 7, p. 2819-2827

    Research output: Contribution to journalArticle

  20. Proteomic profiling of plasma in Huntington's disease reveals neuroinflammatory activation and biomarker candidates

    Dalrymple, A., Wild, E. J., Joubert, R., Sathasivam, K., Bjorkqvist, M., Åsa Petersén, Jackson, G. S., Isaacs, J. D., Kristiansen, M., Bates, G. P., Leavitt, B. R., Keir, G., Ward, M. & Tabrizi, S. J., 2007, In : Journal of Proteome Research. 6, 7, p. 2833-2840

    Research output: Contribution to journalArticle

  21. Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera

    Tommaso De Marchi, Kuhn, E., Dekker, L. J. M., Stingl, C., Braakman, R. B. H., Opdam, M., Linn, S. C., Sweep, F. C. G. J., Span, P. N., Luider, T. M., Foekens, J. A., Martens, J. W. M., Carr, S. A. & Umar, A., 2016 Apr 1, In : Journal of Proteome Research. 15, 4, p. 1230-42 13 p.

    Research output: Contribution to journalArticle

  22. Design of recombinant antibody microarrays for cell surface membrane proteomics

    Dexlin Mellby, L., Ingvarsson, J., Frendeus, B., Carl Borrebaeck & Christer Wingren, 2008, In : Journal of Proteome Research. 7, 1, p. 319-327

    Research output: Contribution to journalArticle

  23. Integration of Proteomics and Transcriptomics Data Sets for the Analysis of a Lymphoma B-Cell Line in the Context of the Chromosome-Centric Human Proteome Project

    Diez, P., Droste, C., Degano, R. M., Gonzalez-Munoz, M., Ibarrola, N., Perez-Andres, M., Garin-Muga, A., Segura, V., György Marko-Varga, LaBaer, J., Orfao, A., Corrales, F. J., De Las Rivas, J. & Fuentes, M., 2015, In : Journal of Proteome Research. 14, 9, p. 3530-3540

    Research output: Contribution to journalArticle

  24. Discovery of a novel B-Raf fusion protein related to c-Met drug resistance

    Dillon, R., Carol L Nilsson, Shi, S. D-H., Lee, N. V., Krastins, B. & Greig, M. J., 2011 Nov 4, In : Journal of Proteome Research. 10, 11, p. 5084-94 11 p.

    Research output: Contribution to journalArticle

  25. Genomics, transcriptomics, and peptidomics of Daphnia pulex neuropeptides and protein hormones

    Dircksen, H., Neupert, S., Predel, R., Verleyen, P., Huybrechts, J., Strauss, J., Hauser, F., Stafflinger, E., Schneider, M., Pauwels, K., Schoofs, L. & Grimmelikhuijzen, C. J. P., 2011 Oct 7, In : Journal of Proteome Research. 10, 10, p. 4478-4504

    Research output: Contribution to journalArticle

  26. Aqueous two-phase partitioning for proteomic monitoring of cell surface biomarkers in human peripheral blood mononuclear cells

    Everberg, H., Peterson Wulff, R., Rak, S., Folke Tjerneld & Cecilia Emanuelsson, 2006, In : Journal of Proteome Research. 5, 5, p. 1168-1175

    Research output: Contribution to journalArticle

  27. Contribution of Antibody-based Protein Profiling to the Human Chromosome-centric Proteome Project (C-HPP)

    Fagerberg, L., Oksvold, P., Skogs, M., Algenas, C., Lundberg, E., Ponten, F., Sivertsson, A., Odeberg, J., Klevebring, D., Kampf, C., Asplund, A., Sjostedt, E., Szigyarto, C. A-K., Edqvist, P-H., Olsson, I., Rydberg, U., Hudson, P., Takanen, J. O., Berling, H., Bjorling, L. & 12 othersTegel, H., Rockberg, J., Nilsson, P., Navani, S., Karin Jirström, Mulder, J., Schwenk, J. M., Zwahlen, M., Hober, S., Forsberg, M., von Feilitzen, K. & Uhlen, M., 2013, In : Journal of Proteome Research. 12, 6, p. 2439-2448

    Research output: Contribution to journalArticle

  28. Four Areas of Engagement Requiring Strengthening in Modern Proteomics Today.

    Fehniger, T., Boja, E. S., Rodriguez, H., Baker, M. S. & György Marko-Varga, 2014, In : Journal of Proteome Research. 13, 12, p. 5310-5318

    Research output: Contribution to journalDebate/Note/Editorial

  29. Exploring the context of the lung proteome within the airway mucosa following allergen challenge.

    Fehniger, T. E., Sato-Folatre, J-G., Johan Malmström, Berglund, M., Lindberg, C., Brange, C., Lindberg, H. & Marko-Varga, G., 2004, In : Journal of Proteome Research. 3, 2, p. 307-320

    Research output: Contribution to journalReview article

  30. Metabolomic and proteomic analysis of a clonal insulin-producing beta-cell line (INS-1 832/13).

    Celine Fernandez, Krus, U., Hallgard, E., Peter Spégel, Cecilia Holm, Krogh, M., Wårell, K., Peter James & Hindrik Mulder, 2008, In : Journal of Proteome Research. 7, 1, p. 400-411

    Research output: Contribution to journalArticle

  31. Omics Analyses Reveal a Potential Link between Hormone-Sensitive Lipase and Polyamine Metabolism.

    Fernandez, C., Krogh, M., Wårell, K., Alm, K., Stina Oredsson, Lo Persson, Peter James & Cecilia Holm, 2009, In : Journal of Proteome Research. 8, p. 5008-5019

    Research output: Contribution to journalArticle

  32. Integrated protein microchip assay with dual fluorescent- and MALDI read-out

    Finnskog, D., Ressine, A., Thomas Laurell & György Marko-Varga, 2004, In : Journal of Proteome Research. 3, 5, p. 988-994

    Research output: Contribution to journalArticle

  33. Reproducibility of tryptic digestion investigated by quantitative fourier transform ion cyclotron resonance mass spectrometry

    Hagman, C., Ramstrom, M., Bentz, M., Peter James, Hakansson, P. & Bergquist, J., 2005, In : Journal of Proteome Research. 4, 2, p. 394-399

    Research output: Contribution to journalArticle

  34. Structural analysis of 2D-gel-separated glycoproteins from human cerebrospinal fluid by tandem high-resolution mass spectrometry

    Håkansson, K., Emmett, M. R., Marshall, A. G., Davidsson, P. & Carol L Nilsson, 2003 Dec 25, In : Journal of Proteome Research. 2, 6, p. 581-8 8 p.

    Research output: Contribution to journalArticle

  35. The Proteios Software Environment: an extensible multiuser platform for management and analysis of proteomics data

    Jari Häkkinen, Vincic, G., Månsson, O., Wårell, K. & Fredrik Levander, 2009, In : Journal of Proteome Research. 8, 6, p. 3037-3043

    Research output: Contribution to journalArticle

  36. Inflammatory response in white adipose tissue in the non-obese hormone-sensitive lipase null mouse model.

    Ola Hansson, Ström, K., Güner, N., Nils Wierup, Sundler, F., Peter Höglund & Cecilia Holm, 2006, In : Journal of Proteome Research. 5, 7, p. 1701-1710

    Research output: Contribution to journalArticle

  37. Glycomic and transcriptomic response of GSC11 glioblastoma stem cells to STAT3 phosphorylation inhibition and serum-induced differentiation

    He, H., Carol L Nilsson, Emmett, M. R., Marshall, A. G., Kroes, R. A., Moskal, J. R., Ji, Y., Colman, H., Priebe, W., Lang, F. & Conrad, C. A., 2010 May 7, In : Journal of Proteome Research. 9, 5, p. 2098-2108 11 p.

    Research output: Contribution to journalArticle

  38. An Integrated Workflow for Multiplex CSF Proteomics and Peptidomics-Identification of Candidate Cerebrospinal Fluid Biomarkers of Alzheimer's Disease

    Holtta, M., Lennart Minthon, Oskar Hansson, Holmen-Larsson, J., Pike, I., Ward, M., Kuhn, K., Ruetschi, U., Zetterberg, H., Blennow, K. & Gobom, J., 2015, In : Journal of Proteome Research. 14, 2, p. 654-663

    Research output: Contribution to journalArticle

  39. Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project

    Horvatovich, P., Lundberg, E., Chen, Y-J., Sung, T-Y., He, F., Nice, E., Goode, R., Yu, S., Ranganathan, S., Baker, M., Domont, R., Valesquez, E., Li, D., Liu, S., Wang, Q., He, Q-Y., Menon, R., Guan, Y., Corrales, F., Segura, V. & 33 othersCasal, I., Pascual-Montano, A., Albar, J. P., Fuentes, M., Gonzalez-Gonzalez, M., Diez, P., Ibarolla, N., Degano, R., Mohammed, Y., Borchers, C., Urbani, A., Soggiu, A., Yamamoto, T., Archakov, A., Ponomarenko, E., Lisitsa, A., Lichti, C., Mostovenko, E., Kroes, R., Melinda Rezeli, Végvári, Á., Fehniger, T., Bischoff, R., Vizcaíno, J. A., Deutsch, E., Lane, L., Nilsson, C., György Marko-Varga, Omenn, G., Jeong, S-K., Cho, J-Y., Paik, Y-K. & Hancock, W., 2015, In : Journal of Proteome Research. 14, 9, p. 3415-3431

    Research output: Contribution to journalArticle

  40. In vitro Transcription/Translation System: A Versatile Tool in the Search for Missing Proteins

    Horvatovich, P., Végvári, Á., Saul, J., Park, J., Qiu, J., Syring, M., Pirrotte, P., Petritis, K., Tegeler, T., Aziz, M., Fuentes, M., Diez, P., Gonzalez-Gonzalez, M., Ibarrola, N., Droste, C., De Las Rivas, J., Gil, C., Clemente, F., Hernaez, M. L., Corrales, F. & 6 othersNilsson, C., Berven, F., Bischoff, R., Fehniger, T., LaBaer, J. & György Marko-Varga, 2015, In : Journal of Proteome Research. 14, 9, p. 3441-3451

    Research output: Contribution to journalArticle

  41. Elucidating the Molecular Composition of Cartilage by Proteomics

    Hsueh, M. F., Khabut, A., Sven Kjellström, Patrik Önnerfjord & Kraus, V. B., 2016 Feb 5, In : Journal of Proteome Research. 15, 2, p. 374-388 15 p.

    Research output: Contribution to journalArticle

  42. Design of recombinant antibody microarrays for serum protein profiling: Targeting of complement proteins

    Ingvarsson, J., Larsson, A., Sjöholm, A., Lennart Truedsson, Bo Jansson, Carl Borrebaeck & Christer Wingren, 2007, In : Journal of Proteome Research. 6, 9, p. 3527-3536

    Research output: Contribution to journalArticle

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