Mathias Uhlen

Summary

Affiliation: Royal Institute of Technology
Country: Sweden

Publications

  1. ncbi request reprint The biotin-streptavidin interaction can be reversibly broken using water at elevated temperatures
    Anders Holmberg
    Department of Biotechnology, Royal Institute of Technology KTH, Stockholm, Sweden
    Electrophoresis 26:501-10. 2005
  2. doi request reprint Affinity as a tool in life science
    Mathias Uhlen
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden
    Biotechniques 44:649-54. 2008
  3. pmc Secretagogin is expressed in sensory CGRP neurons and in spinal cord of mouse and complements other calcium-binding proteins, with a note on rat and human
    Tie Jun Sten Shi
    School of Life Science and Technology, Harbin Institute of Technology, 150001 Harbin, China
    Mol Pain 8:80. 2012
  4. pmc Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae
    Marta Papini
    Novo Nordisk Foundation Center for Biosustainability, Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, SE, 412 96, Sweden
    Microb Cell Fact 11:136. 2012
  5. pmc Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer
    Patrick C O Leary
    UCD School of Biomolecular and Biomedical Science, UCD Conway Institute of Biomolecular and Biomedical Science, University College Dublin, Dublin 4, Ireland
    BMC Cancer 13:175. 2013
  6. pmc Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer
    Asa Ehlén
    Center for Molecular Pathology, Department of Laboratory Medicine, Lund University, Skane University Hospital, Malmo, Sweden
    J Transl Med 8:78. 2010
  7. pmc Tumor-specific HMG-CoA reductase expression in primary premenopausal breast cancer predicts response to tamoxifen
    Donal J Brennan
    UCD School of Biomolecular and Biomedical Science, UCD Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    Breast Cancer Res 13:R12. 2011
  8. pmc Characterization of Diaphanous-related formin FMNL2 in human tissues
    Maria Gardberg
    Department of Pathology, University of Turku and Turku University Central Hospital, Turku, Finland
    BMC Cell Biol 11:55. 2010
  9. pmc Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer
    Donal J Brennan
    Dept of Obstetrics and Gynaecology, National Maternity Hospital, Holles Street, Dublin 2, Ireland
    BMC Cancer 10:125. 2010
  10. doi request reprint Generation and validation of affinity reagents on a proteome-wide level
    Mathias Uhlen
    Department of Proteomics, School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    J Mol Recognit 22:57-64. 2009

Detail Information

Publications100

  1. ncbi request reprint The biotin-streptavidin interaction can be reversibly broken using water at elevated temperatures
    Anders Holmberg
    Department of Biotechnology, Royal Institute of Technology KTH, Stockholm, Sweden
    Electrophoresis 26:501-10. 2005
    ....
  2. doi request reprint Affinity as a tool in life science
    Mathias Uhlen
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden
    Biotechniques 44:649-54. 2008
    ..Recently, such affinity proteomics have allowed the detailed analysis of human protein expression in a comprehensive manner both in normal and disease tissue using tissue microarrays and confocal microscopy...
  3. pmc Secretagogin is expressed in sensory CGRP neurons and in spinal cord of mouse and complements other calcium-binding proteins, with a note on rat and human
    Tie Jun Sten Shi
    School of Life Science and Technology, Harbin Institute of Technology, 150001 Harbin, China
    Mol Pain 8:80. 2012
    ..Rat DRGs, TGs and spinal cord, as well as human DRGs and spinal cord were used to reveal phylogenetic variations...
  4. pmc Scheffersomyces stipitis: a comparative systems biology study with the Crabtree positive yeast Saccharomyces cerevisiae
    Marta Papini
    Novo Nordisk Foundation Center for Biosustainability, Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, SE, 412 96, Sweden
    Microb Cell Fact 11:136. 2012
    ..Here, we provide a systems biology based comparison between the two yeasts, uncovering the metabolism of S. stipitis during aerobic growth on glucose under batch and chemostat cultivations...
  5. pmc Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer
    Patrick C O Leary
    UCD School of Biomolecular and Biomedical Science, UCD Conway Institute of Biomolecular and Biomedical Science, University College Dublin, Dublin 4, Ireland
    BMC Cancer 13:175. 2013
    ....
  6. pmc Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer
    Asa Ehlén
    Center for Molecular Pathology, Department of Laboratory Medicine, Lund University, Skane University Hospital, Malmo, Sweden
    J Transl Med 8:78. 2010
    ..The aim of this study was to examine the prognostic value of RBM3 mRNA and protein expression in epithelial ovarian cancer (EOC) and the cisplatin response upon RBM3 depletion in a cisplatin-sensitive ovarian cancer cell line...
  7. pmc Tumor-specific HMG-CoA reductase expression in primary premenopausal breast cancer predicts response to tamoxifen
    Donal J Brennan
    UCD School of Biomolecular and Biomedical Science, UCD Conway Institute, University College Dublin, Belfield, Dublin 4, Ireland
    Breast Cancer Res 13:R12. 2011
    ..Here, the predictive value of HMG-CoAR expression in relation to tamoxifen response was examined...
  8. pmc Characterization of Diaphanous-related formin FMNL2 in human tissues
    Maria Gardberg
    Department of Pathology, University of Turku and Turku University Central Hospital, Turku, Finland
    BMC Cell Biol 11:55. 2010
    ..In spite of this, very little is known of the tissue distribution and cellular location of any mammalian formin. Here we have carried out a comprehensive analysis of the formin family member formin -like 2 (FMNL2) in human tissues...
  9. pmc Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer
    Donal J Brennan
    Dept of Obstetrics and Gynaecology, National Maternity Hospital, Holles Street, Dublin 2, Ireland
    BMC Cancer 10:125. 2010
    ..In the present study, the prognostic value of HMG-CoAR expression was examined in tumours from a cohort of patients with primary epithelial ovarian cancer...
  10. doi request reprint Generation and validation of affinity reagents on a proteome-wide level
    Mathias Uhlen
    Department of Proteomics, School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    J Mol Recognit 22:57-64. 2009
    ..proteinatlas.org) showing the human protein profiles in a large number of normal and cancer tissues as well as a large set of human cell lines...
  11. pmc A new era for proteomics research?
    Mathias Uhlen
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm SE 10691, Sweden
    Genome Biol 9:325. 2008
    ..A report of the 7th Annual Human Proteome Organization (HUPO) Conference, Amsterdam, the Netherlands, 16-20 August 2008...
  12. doi request reprint Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP)
    Linn Fagerberg
    Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden
    J Proteome Res 12:2439-48. 2013
    ..The status for each gene with regards to protein evidence is visualized in a chromosome-centric manner as part of a new version of the Human Protein Atlas ( www.proteinatlas.org )...
  13. pmc Antibody-based protein profiling of the human chromosome 21
    Mathias Uhlen
    Science for Life Laboratory, Royal Institute of Technology, SE 17121 Solna, Sweden
    Mol Cell Proteomics 11:M111.013458. 2012
    ..The path to generate a chromosome-specific resource, including integrated data from complementary assay platforms, such as mass spectrometry and gene tagging analysis, is discussed...
  14. pmc Parallel immunizations of rabbits using the same antigen yield antibodies with similar, but not identical, epitopes
    Barbara Hjelm
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden
    PLoS ONE 7:e45817. 2012
    ..The results suggest that polyclonal antibodies generated by repeated immunizations do not display an identical epitope pattern, although many of the epitopes are similar...
  15. pmc Generation of monospecific antibodies based on affinity capture of polyclonal antibodies
    Barbara Hjelm
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology, 10691 Stockholm, Sweden
    Protein Sci 20:1824-35. 2011
    ....
  16. doi request reprint A genecentric Human Protein Atlas for expression profiles based on antibodies
    Lisa Berglund
    Department of Proteomics, School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden
    Mol Cell Proteomics 7:2019-27. 2008
    ..The new version of the protein atlas thus is a resource for many areas of biomedical research, including protein science and biomarker discovery...
  17. ncbi request reprint Multiplexed PrEST immunization for high-throughput affinity proteomics
    Karin Larsson
    Department of Proteomics, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm, Sweden
    J Immunol Methods 315:110-20. 2006
    ....
  18. ncbi request reprint Microbead display of proteins by cell-free expression of anchored DNA
    Olof Nord
    Department of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    J Biotechnol 106:1-13. 2003
    ..The use of this technology, including alternative formats, for different proteomics applications is discussed...
  19. ncbi request reprint A novel affinity gene fusion system allowing protein A-based recovery of non-immunoglobulin gene products
    Susanne Gräslund
    Division of Molecular Biotechnology, Department of Biotechnology, Royal Institute of Technology KTH, SCFAB, SE 10691 Stockholm, Sweden
    J Biotechnol 99:41-50. 2002
    ..5 M guanidine hydrochloride. The convenience and robustness of the presented expression system should make it highly suitable for various high-throughput protein expression efforts...
  20. ncbi request reprint A novel flow cytometry-based method for analysis of expression levels in Escherichia coli, giving information about precipitated and soluble protein
    My Hedhammar
    Royal Institute of Technology, AlbaNova University Center, Department of Biotechnology, SE 106 91 Stockholm, Sweden
    J Biotechnol 119:133-46. 2005
    ..Finally, the newly developed method was used to evaluate two different purification tags, His(6) and Z(basic), and their effect on the expression pattern...
  21. doi request reprint Classification of protein profiles from antibody microarrays using heat and detergent treatment
    Anna Häggmark
    Science for Life Laboratory Stockholm, School of Biotechnology, KTH Royal Institute of Technology, Box 1031, SE 171 21 Solna, Sweden
    N Biotechnol 29:564-70. 2012
    ..The experimental scheme presented here can be used to systematically categorize antibodies and thereby combine antibodies with similar properties into targeted arrays for analysis of plasma and serum...
  22. ncbi request reprint Microfluidic analysis of antibody specificity in a compact disk format
    Cecilia Eriksson
    Royal Institute of Technology, AlbaNova University Center, Department of Biotechnology, SE 106 91 Stockholm, Sweden
    J Proteome Res 5:1568-74. 2006
    ..The method presented here is shown to be very sensitive, flexible and reproducible...
  23. doi request reprint Neuronal proteins are novel components of podocyte major processes and their expression in glomerular crescents supports their role in crescent formation
    Laleh Sistani
    Division of Matrix Biology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
    Kidney Int 83:63-71. 2013
    ..Thus, three neuronal proteins are highly expressed in podocyte major process. Using these new markers we found that podocytes contribute to the formation of glomerular crescents...
  24. pmc The genome sequence of Mycoplasma mycoides subsp. mycoides SC type strain PG1T, the causative agent of contagious bovine pleuropneumonia (CBPP)
    Joakim Westberg
    Department of Biotechnology, Royal Institute of Technology KTH, SE 106 91 Stockholm, Sweden
    Genome Res 14:221-7. 2004
    ....
  25. doi request reprint Validation of affinity reagents using antigen microarrays
    Ronald Sjöberg
    Science for Life Laboratory Stockholm, School of Biotechnology, KTH Royal Institute of Technology, Box 1031, SE 171 21 Solna, Sweden
    N Biotechnol 29:555-63. 2012
    ..The presented study illustrates the feasibility of using antigen microarrays for integrative, high-throughput validation of various types of binders and antigens...
  26. doi request reprint Large-scale protein profiling in human cell lines using antibody-based proteomics
    Linn Fagerberg
    Department of Proteomics, School of Biotechnology, AlbaNova University Center, KTH Royal Institute of Technology, SE 10691 Stockholm, Sweden
    J Proteome Res 10:4066-75. 2011
    ..This work also provides an extensive list of antibodies, for which high-resolution images as well as validation data are available on the Human Protein Atlas ( www.proteinatlas.org ), that are of potential use in cell line studies...
  27. ncbi request reprint Staphylococcal surface display in combinatorial protein engineering and epitope mapping of antibodies
    Nina Kronqvist
    Department of Molecular Biotechnology, School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Recent Pat Biotechnol 4:171-82. 2010
    ..In addition, strategies for characterization of recombinant proteins on the staphylococcal cell surface, with an emphasis on an approach for epitope mapping of antibodies, are included...
  28. doi request reprint Systematic antibody and antigen-based proteomic profiling with microarrays
    Burcu Ayoglu
    Science for Life Laboratory, Department of Proteomics, School of Biotechnology, KTH Royal Institute of Technology, Stockholm, Sweden
    Expert Rev Mol Diagn 11:219-34. 2011
    ....
  29. doi request reprint Validation of serum protein profiles by a dual antibody array approach
    Rebecca Rimini
    Department of Proteomics, KTH Royal Institute of Technology, AlbaNova University Center, Stockholm, Sweden
    J Proteomics 73:252-66. 2009
    ....
  30. ncbi request reprint Single-vector three-frame expression systems for affinity-tagged proteins
    Susanne Gräslund
    Department of Biotechnology, Royal Institute of Technology KTH, 106 91, Stockholm, Sweden
    FEMS Microbiol Lett 215:139-47. 2002
    ..Nevertheless, we believe that the presented results represent the first successful attempt to create single-vector three-frame expression systems, a concept that could become valuable in future combined cloning-expression vectors...
  31. doi request reprint A whole-genome bioinformatics approach to selection of antigens for systematic antibody generation
    Lisa Berglund
    School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    Proteomics 8:2832-9. 2008
    ..A genome-wide analysis demonstrates that antigens for approximately 80% of the human protein-coding genes can be selected with this strategy...
  32. ncbi request reprint Using Grid technology for computationally intensive applied bioinformatics analyses
    Jorge Andrade
    Department of Biotechnology, Royal Institute of Technology KTH, Stockholm, Sweden
    In Silico Biol 6:495-504. 2006
    ..This model should be of general interest in applied bioinformatics. Scripts and procedures are freely available from the authors...
  33. ncbi request reprint Affinity proteomics for systematic protein profiling of chromosome 21 gene products in human tissues
    Charlotta Agaton
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology, Roslagsvägen 30 B, 106 91 Stockholm, Sweden
    Mol Cell Proteomics 2:405-14. 2003
    ..The results suggest that this affinity proteomics strategy can be used to produce a proteome atlas, describing distribution and expression of proteins in normal tissues as well as in common cancers and other forms of diseased tissues...
  34. doi request reprint Pdlim2 is a novel actin-regulating protein of podocyte foot processes
    Laleh Sistani
    Division of Matrix Biology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
    Kidney Int 80:1045-54. 2011
    ..Hence, pdlim2 is a novel actin-regulating protein of podocyte foot processes that may have a role in the pathogenesis of glomerular diseases...
  35. doi request reprint Prediction of the human membrane proteome
    Linn Fagerberg
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm, Sweden
    Proteomics 10:1141-9. 2010
    ..A visualization tool displaying the topologies suggested by the eight prediction methods, for all predicted membrane proteins, is available on the public Human Protein Atlas portal (www.proteinatlas.org)...
  36. doi request reprint The correlation between cellular size and protein expression levels--normalization for global protein profiling
    Emma Lundberg
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, SE 106 91 Stockholm, Sweden
    J Proteomics 71:448-60. 2008
    ..The results demonstrate the value of large-scale, automated proteome analysis using immunohistochemistry, in revealing functional correlations and establishing methods to interpret and mine proteomic data...
  37. doi request reprint Comparative protein profiling of serum and plasma using an antibody suspension bead array approach
    Jochen M Schwenk
    Department of Proteomics, School of Biotechnology, KTH Royal Institute of Technology, AlbaNova University Center, Stockholm, Sweden
    Proteomics 10:532-40. 2010
    ....
  38. pmc Mutational analysis of the interaction between albumin-binding domain from streptococcal protein G and human serum albumin
    Martin Linhult
    Department of Biotechnology, Royal Institute of Technology KTH, SCFAB, S 106 91 Stockholm, Sweden
    Protein Sci 11:206-13. 2002
    ..The analysis shows that the HSA binding involves residues mainly in the second alpha-helix...
  39. ncbi request reprint Anti-idiotypic protein domains selected from protein A-based affibody libraries
    Malin Eklund
    Department of Biotechnology, Royal Institute of Technology KTH SCFAB, Stockholm, Sweden
    Proteins 48:454-62. 2002
    ..The use of this type of small, robust, and easily expressed anti-idiotypic affibody pair for affinity technology applications, including self-assembled protein networks, is discussed...
  40. ncbi request reprint Selective enrichment of monospecific polyclonal antibodies for antibody-based proteomics efforts
    Charlotta Agaton
    Department of Biotechnology, Royal Institute of Technology, AlbaNova University Center, KTH, Stockholm, Sweden
    J Chromatogr A 1043:33-40. 2004
    ..The results suggest that the protocol can be used in a highly parallel and automated manner to generate mono-specific polyclonal antibodies for large-scale, antibody-based proteomics efforts, i.e. affinity proteomics...
  41. ncbi request reprint Toward a confocal subcellular atlas of the human proteome
    Laurent Barbe
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology, SE 106 91 Stockholm, Sweden
    Mol Cell Proteomics 7:499-508. 2008
    ..The results suggest that this approach might be a valuable tool in conjunction with predictive models for protein localization...
  42. ncbi request reprint Affibody-beta-galactosidase immunoconjugates produced as soluble fusion proteins in the Escherichia coli cytosol
    Jenny Rönnmark
    Department of Biotechnology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    J Immunol Methods 281:149-60. 2003
    ..In addition, using human kidney biopsy samples from a nephropathy patient, IgA depositions in glomeruli could be detected by immunohistochemistry with low background staining of tissue...
  43. ncbi request reprint Strategy for highly selective ion-exchange capture using a charge-polarizing fusion partner
    Torbjörn Gräslund
    Department of Biotechnology, Royal Institute of Technology KTH, Stockholm, Sweden
    J Chromatogr A 942:157-66. 2002
    ..Methods for site-specific proteolysis of the fusion proteins to release native target proteins are also discussed...
  44. pmc Majority of differentially expressed genes are down-regulated during malignant transformation in a four-stage model
    Frida Danielsson
    Science for Life Laboratory, Royal Institute of Technology KTH, SE 17121 Solna, Sweden
    Proc Natl Acad Sci U S A 110:6853-8. 2013
    ..This shows that this comprehensive demonstration of the molecular changes underlying malignant transformation is a relevant model to study the process of tumor formation...
  45. pmc Multiplex epitope mapping using bacterial surface display reveals both linear and conformational epitopes
    Elton P Hudson
    School of Biotechnology, Alba Nova University Center, Royal Institute of Technology, Stockholm, Sweden
    Sci Rep 2:706. 2012
    ....
  46. pmc Defining the transcriptome and proteome in three functionally different human cell lines
    Emma Lundberg
    Science for Life Laboratory, Royal Institute of Technology, Stockholm, Sweden
    Mol Syst Biol 6:450. 2010
    ..Thus, this study shows a path to characterize the transcriptome and proteome in human cells from different origins...
  47. doi request reprint Antibodypedia, a portal for sharing antibody and antigen validation data
    Erik Björling
    School of Biotechnology, Royal Institute of Technology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Mol Cell Proteomics 7:2028-37. 2008
    ..The database thus provides a virtual resource of publicly available antibodies toward human proteins with accompanying experimental evidence supporting an individual validation score for each antibody in an application-specific manner...
  48. pmc Toward next generation plasma profiling via heat-induced epitope retrieval and array-based assays
    Jochen M Schwenk
    Science for Life Laboratory, Royal Institute of Technology KTH, Stockholm, Sweden
    Mol Cell Proteomics 9:2497-507. 2010
    ..The study shows a path of pursuit for large scale screening of biobank repositories in a flexible and proteome-wide fashion by utilizing heat-induced epitope retrieval and using an antibody suspension bead array format...
  49. doi request reprint Mapping the subcellular protein distribution in three human cell lines
    Linn Fagerberg
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm, SE 106 91, Sweden
    J Proteome Res 10:3766-77. 2011
    ..Our results show distinct organelle proteomes, well conserved across the cell types, and demonstrate that biochemically similar organelles are grouped together...
  50. doi request reprint Antibody suspension bead arrays within serum proteomics
    Jochen M Schwenk
    Department of Proteomics, School of Biotechnology, KTH Royal Institute of Technology, AlbaNova University Center, Stockholm, Sweden
    J Proteome Res 7:3168-79. 2008
    ..The feasibility of this workflow was shown in a study with more than 200 clinical serum samples tested for 20 serum proteins...
  51. ncbi request reprint Selection of protein epitopes for antibody production
    Mats Lindskog
    Royal Institute of Technology, Stockholm, Sweden
    Biotechniques 38:723-7. 2005
    ..The software and the strategy were evaluated on a human test data set and verified to fulfill the requested criteria...
  52. ncbi request reprint Integrated strategy for selective expanded bed ion-exchange adsorption and site-specific protein processing using gene fusion technology
    Torbjörn Gräslund
    Department of Biotechnology, Royal Institute of Technology KTH, SCFAB, S 106 91, Stockholm, Sweden
    J Biotechnol 96:93-102. 2002
    ..The strategy also includes an integrated site-specific removal of the Z(basic) purification handle to yield a free target protein...
  53. doi request reprint Immunofluorescence and fluorescent-protein tagging show high correlation for protein localization in mammalian cells
    Charlotte Stadler
    KTH Royal Institute of Technology, Science for Life Laboratory, School of Biotechnology, Stockholm, Sweden
    Nat Methods 10:315-23. 2013
    ..These results show that both IF and FP tagging are reliable techniques and demonstrate the usefulness of an integrative approach for a complete investigation of the subcellular human proteome...
  54. doi request reprint Plasma profiling reveals human fibulin-1 as candidate marker for renal impairment
    Maja Neiman
    Royal Institute of Technology, Solna, Sweden
    J Proteome Res 10:4925-34. 2011
    ....
  55. pmc Correlations between RNA and protein expression profiles in 23 human cell lines
    Marcus Gry
    Department of Proteomics, School of Biotechnology, AlbaNova University Center, KTH Royal Institute of Technology, Stockholm, Sweden
    BMC Genomics 10:365. 2009
    ....
  56. doi request reprint Epitope mapping using gram-positive surface display
    Johan Rockberg
    School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    Curr Protoc Immunol . 2010
    ..The protocol described here has been shown useful for mapping of both monoclonal and polyclonal binders with varying epitope lengths...
  57. pmc Tissue profiling of the mammalian central nervous system using human antibody-based proteomics
    Jan Mulder
    Department of Neuroscience, Karolinska Institutet, Stockholm, Sweden
    Mol Cell Proteomics 8:1612-22. 2009
    ..Furthermore optimized tissue processing and colchicine treatment allow a high quality, more extended annotation and detailed analysis of subcellular distributions and protein dynamics...
  58. pmc Prediction of antibody response using recombinant human protein fragments as antigen
    Johan Rockberg
    School of Biotechnology, Royal Institute of Technology, AlbaNova University Center, Stockholm SE 106 91, Sweden
    Protein Sci 18:2346-55. 2009
    ..The data set presented here can be used for further studies to design new prediction tools for the generation of antibodies to specific protein targets...
  59. ncbi request reprint A web-based tool for in silico biomarker discovery based on tissue-specific protein profiles in normal and cancer tissues
    Erik Björling
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, SE 10691 Stockholm, Sweden
    Mol Cell Proteomics 7:825-44. 2008
    ..The lists of candidate proteins can be used as a starting point for further validation in larger patient cohorts using both immunological approaches and technologies utilizing more classical proteomics tools...
  60. ncbi request reprint High-throughput solubility assay for purified recombinant protein immunogens
    Maria Stenvall
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, 106 91 Stockholm, Sweden
    Biochim Biophys Acta 1752:6-10. 2005
    ..This comparison showed only weak correlation between the theoretical and experimental values, which emphasizes the importance of experimental assays to determine the solubility of recombinant proteins...
  61. ncbi request reprint Determination of binding specificities in highly multiplexed bead-based assays for antibody proteomics
    Jochen M Schwenk
    Department of Proteomics, Royal Institute of Technology KTH, SE 10691 Stockholm, Sweden
    Mol Cell Proteomics 6:125-32. 2007
    ..This high throughput analysis will potentially have great impact on the possibility for the utilization of different antibody proteomics approaches where the quality assessment of antibodies is of the utmost importance...
  62. pmc Autoantibody profiling in multiple sclerosis using arrays of human protein fragments
    Burcu Ayoglu
    SciLifeLab Stockholm, School of Biotechnology, KTH Royal Institute of Technology, Stockholm, Sweden
    Mol Cell Proteomics 12:2657-72. 2013
    ....
  63. doi request reprint Discovery of epitopes for targeting the human epidermal growth factor receptor 2 (HER2) with antibodies
    Johan Rockberg
    School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Mol Oncol 3:238-47. 2009
    ..The work describes a new strategy to develop antibodies directed to non-overlapping epitopes and shows a path of pursuit to explore the epitope space of a target protein...
  64. doi request reprint Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy
    Charlotte Stadler
    Science for Life Laboratory, Royal Institute of Technology, Stockholm, SE 171 65, Sweden
    J Proteomics 75:2236-51. 2012
    ..With a large fraction of the human proteome still unexplored, we suggest this approach to be of great importance under the continued work of mapping the human proteome on a subcellular level...
  65. doi request reprint A homogeneous assay for protein analysis in droplets by fluorescence polarization
    Haakan N Joensson
    Division of Nanobiotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    Electrophoresis 33:436-9. 2012
    ..This adds to the repertoire of droplet assay techniques a direct protein detection method which can be performed entirely inside droplets without the need for labeling of the analyte molecules...
  66. doi request reprint Automated sample preparation method for mass spectrometry analysis on recombinant proteins
    Johanna Steen
    School of Biotechnology, Department of Proteomics, AlbaNova University Center, Royal Institute of Technology, 106 91 Stockholm, Sweden
    J Chromatogr A 1216:4457-64. 2009
    ....
  67. doi request reprint Exploring epitopes of antibodies toward the human tryptophanyl-tRNA synthetase
    Barbara Hjelm
    Royal Institute of Technology, AlbaNova University Center, Stockholm, Sweden
    N Biotechnol 27:129-37. 2010
    ..An alanine-scanning experiment showed binding to four specific residues. The implications for the systematic analysis of antibody epitopes on the basis of these results are discussed...
  68. ncbi request reprint A human protein atlas based on antibody proteomics
    Anja Persson
    Royal Institute of Technology, School of Biotechnology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Curr Opin Mol Ther 8:185-90. 2006
    ..The Human Protein Atlas is related to four other expression atlas initiatives, including, in particular, an upcoming protein atlas developed by the Sanger Institute...
  69. ncbi request reprint Towards a human proteome atlas: high-throughput generation of mono-specific antibodies for tissue profiling
    Peter Nilsson
    Department of Biotechnology, Royal Institute of Technology KTH, Stockholm, Sweden
    Proteomics 5:4327-37. 2005
    ..The results suggest that a comprehensive atlas containing extensive protein expression and subcellular localization data of the human proteome can be generated in an efficient manner with mono-specific antibodies...
  70. ncbi request reprint Single cell gene mutation analysis using laser-assisted microdissection of tissue sections
    Asa Persson
    Department of Biotechnology, Royal Institute of Technology KTH, SCFAB, S 106 91 Stockholm, Sweden
    Methods Enzymol 356:334-43. 2002
  71. ncbi request reprint Human immunoglobulin A (IgA)-specific ligands from combinatorial engineering of protein A
    Jenny Rönnmark
    Department of Biotechnology, Royal Institute of Technology SCFAB, Stockholm, Sweden
    Eur J Biochem 269:2647-55. 2002
    ..In addition, efficient affinity recovery of IgA from unconditioned human plasma was also demonstrated...
  72. pmc Analysis of transcript and protein overlap in a human osteosarcoma cell line
    Daniel Klevebring
    Science for Life Laboratory, School of Biotechnology, Division of Gene Technology, Royal Institute of Technology, SE 171 65 Solna, Sweden
    BMC Genomics 11:684. 2010
    ....
  73. doi request reprint A single fixation protocol for proteome-wide immunofluorescence localization studies
    Charlotte Stadler
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, SE 106 91 Stockholm, Sweden
    J Proteomics 73:1067-78. 2010
    ....
  74. doi request reprint Creation of an antibody-based subcellular protein atlas
    Emma Lundberg
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm, Sweden
    Proteomics 10:3984-96. 2010
    ..The considerations made when creating the subcellular protein atlas and critical parameters of this approach are discussed...
  75. pmc A transcriptional timetable of autumn senescence
    Anders Andersson
    Department of Biotechnology, KTH Royal Institute of Technology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Genome Biol 5:R24. 2004
    ..One of the important aspects of plant biology that cannot be studied in annual plants is the gene activity involved in the induction of autumn leaf senescence...
  76. doi request reprint Antibody-based profiling of cerebrospinal fluid within multiple sclerosis
    Anna Häggmark
    SciLifeLab Stockholm, School of Biotechnology, KTH Royal Institute of Technology, Stockholm, Sweden
    Proteomics 13:2256-67. 2013
    ..SERPINA3 instead was detected at higher levels in all MS patients compared to controls. The developed assay procedure now offers new possibilities for broad-scale protein profiling of CSF within neurological disorders. ..
  77. pmc Automated solid-phase subcloning based on beads brought into proximity by magnetic force
    Elton P Hudson
    School of Biotechnology, KTH Royal Institute of Technology, Stockholm, Sweden
    PLoS ONE 7:e37429. 2012
    ..The method presented here is suitable for efficient subcloning in an automated manner to rapidly generate a large number of gene constructs in various vectors intended for high throughput applications...
  78. doi request reprint Plekhh2, a novel podocyte protein downregulated in human focal segmental glomerulosclerosis, is involved in matrix adhesion and actin dynamics
    Ljubica Perisic
    Division of Matrix Biology, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
    Kidney Int 82:1071-83. 2012
    ..In addition, Plekhh2 stabilizes the cortical actin cytoskeleton by attenuating actin depolymerization. Our findings suggest a structural and functional role for Plekhh2 in the podocyte foot processes...
  79. doi request reprint High nuclear RBM3 expression is associated with an improved prognosis in colorectal cancer
    Barbara Hjelm
    Department of Proteomics, AlbaNova University Center, Royal Institute of Technology, Stockholm, Sweden
    Proteomics Clin Appl 5:624-35. 2011
    ..In this study, we investigated the prognostic impact of human RBM3 expression in colorectal cancer using tissue microarray-based immunohistochemical analysis...
  80. ncbi request reprint A novel method for reproducible fluorescent labeling of small amounts of antibodies on solid phase
    Emma Lundberg
    Department of Biotechnology, Royal Institute of Technology, Roslagstullsbacken 21, SE 106 91 Stockholm, Sweden
    J Immunol Methods 322:40-9. 2007
    ..This novel solid-phase antibody labeling method may also be applicable for other conjugation chemistries and labels, and has potential for high-throughput applications...
  81. ncbi request reprint A human protein atlas for normal and cancer tissues based on antibody proteomics
    Mathias Uhlen
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, SE 106 91 Stockholm, Sweden
    Mol Cell Proteomics 4:1920-32. 2005
    ..Our results suggest it should be possible to extend this analysis to the majority of all human proteins thus providing a valuable tool for medical and biological research...
  82. doi request reprint The 6th HUPO Antibody Initiative (HAI) workshop: sharing data about affinity reagents and other recent developments. September 2009, Toronto, Canada
    Kalle Jonasson
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, Stockholm, Sweden
    Proteomics 10:2066-8. 2010
    ..workshop for the HUPO Antibody Initiative (HAI) held in September 2009 was co-chaired by Michael Snyder and Mathias Uhlen and discussed several aspects of antibody production, their validation, and attempts to standardise this ..
  83. doi request reprint Targeted protein pullout from human tissue samples using competitive elution
    Ronny Falk
    Royal Institute of Technology, AlbaNova University Center, Department of Biotechnology, Stockholm, Sweden
    Biotechnol J 6:28-37. 2011
    ..Competitive elution has thus been shown to offer an effective approach for wide-scale pullout experiments where proteins and their interaction partners are to be studied...
  84. pmc The epitope space of the human proteome
    Lisa Berglund
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology, SE 106 91 Stockholm, Sweden
    Protein Sci 17:606-13. 2008
    ..The implications for human antibody-based proteomics efforts are discussed...
  85. pmc Assembly of a gene sequence tag microarray by reversible biotin-streptavidin capture for transcript analysis of Arabidopsis thaliana
    Valtteri Wirta
    Department of Molecular Biotechnology, KTH Royal Institute of Technology, AlbaNova University Center, SE 106 91, Stockholm, Sweden
    BMC Biotechnol 5:5. 2005
    ....
  86. ncbi request reprint Molecular haplotyping by pyrosequencing
    Jacob Odeberg
    Department of Biotechnology, KTH, Royal Institute of Technology, Stockholm, Sweden
    Biotechniques 33:1104, 1106, 1108. 2002
  87. doi request reprint Droplet size based separation by deterministic lateral displacement-separating droplets by cell--induced shrinking
    Haakan N Joensson
    Div of Nanobiotechnology, Royal Institute of Technology, KTH, AlbaNova University Center, SE 10691 Stockholm, Sweden
    Lab Chip 11:1305-10. 2011
    ..g. clonal selection. The same device also separates 11 µm from 30 µm droplets at a rate of 12,000 droplets per second, more than twofold faster than previously demonstrated passive hydrodynamic separation devices...
  88. doi request reprint Affinity recovery of eight HER2-binding affibody variants using an anti-idiotypic affibody molecule as capture ligand
    Helena Wållberg
    Division of Molecular Biotechnology, School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, SE 106 91 Stockholm, Sweden
    Protein Expr Purif 76:127-35. 2011
    ....
  89. doi request reprint Epitope mapping of antibodies using bacterial surface display
    Johan Rockberg
    Department of Molecular Biotechnology, School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Nat Methods 5:1039-45. 2008
    ..Our approach shows a path forward for systematic validation of antibodies for epitope specificity and cross-reactivity on a whole-proteome level...
  90. ncbi request reprint Mapping the human proteome using antibodies
    Mathias Uhlen
    School of Biotechnology, AlbaNova University Center, Royal Institute of Technology KTH, S 106 91 Stockholm, Sweden
    Mol Cell Proteomics 6:1455-6. 2007
  91. doi request reprint High-throughput protein production--lessons from scaling up from 10 to 288 recombinant proteins per week
    Hanna Tegel
    School of Biotechnology, Royal Institute of Technology, Stockholm, Sweden
    Biotechnol J 4:51-7. 2009
    ..The number of manual handling steps has been significantly reduced (from 18 to 9) and the protein purification has been completely automated...
  92. doi request reprint Expression and immunogenicity of six putative variable surface proteins in Mycoplasma mycoides subsp. mycoides SC
    Carl Hamsten
    Department of Proteomics, School of Biotechnology, Royal Institute of Technology KTH, AlbaNova University Center, Stockholm, Sweden
    Microbiology 154:539-49. 2008
    ..Vmm and one of the putative Vmm-type proteins showed variable expression in vitro...
  93. doi request reprint Expression of novel podocyte-associated proteins sult1b1 and ankrd25
    Xiangjun Xu
    Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, Sweden
    Nephron Exp Nephrol 117:e39-46. 2011
    ..Podocytes have a unique function in the renal ultrafiltration that is achieved by expressing proteins that are highly specific to podocytes. In this study, we identified two novel podocyte-associated proteins...
  94. ncbi request reprint Antibody-based proteomics for human tissue profiling
    Mathias Uhlen
    Department of Biotechnology, AlbaNova University Center, Royal Institute of Technology, SE 10691 Stockholm, Sweden
    Mol Cell Proteomics 4:384-93. 2005
    ....
  95. ncbi request reprint Genome-based proteomics
    Charlotta Agaton
    Royal Institute of Technology, AlbaNova University Center, Dept of Biotechnology, Stockholm, Sweden
    Electrophoresis 25:1280-8. 2004
    ..These technologies are in many ways complementary and should be seen as various ways to elucidate different functions of the proteome...
  96. pmc The E3 ligase axotrophin/MARCH-7: protein expression profiling of human tissues reveals links to adult stem cells
    Cristina A Szigyarto
    Human Proteome Resource, School of Biotechnology, Department of Proteomics, Royal Institute of Technology, Stockholm, Sweden
    J Histochem Cytochem 58:301-8. 2010
    ..This manuscript contains online supplemental material at http://www.jhc.org. Please visit this article online to view these materials...
  97. doi request reprint Detection and analysis of low-abundance cell-surface biomarkers using enzymatic amplification in microfluidic droplets
    Haakan N Joensson
    Department of Nano Biotechnology, Royal Institute of Technology, AlbaNova University Center, 10691 Stockholm, Sweden
    Angew Chem Int Ed Engl 48:2518-21. 2009
    ..Droplet optical labels allow concurrent analysis of several samples...
  98. ncbi request reprint Affibody molecules in protein capture microarrays: evaluation of multidomain ligands and different detection formats
    Björn Renberg
    School of Biotechnology, Division of Molecular Biotechnology, Royal Institute of Technology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    J Proteome Res 6:171-9. 2007
    ..Finally, the presence of IgA was determined using detection of directly Cy5-labeled normal or IgA-deficient serum samples...
  99. pmc A Populus EST resource for plant functional genomics
    Fredrik Sterky
    Department of Biotechnology, Kungliga Tekniska Högskolan Royal Institute of Technology, AlbaNova University Center, SE 106 91 Stockholm, Sweden
    Proc Natl Acad Sci U S A 101:13951-6. 2004
    ..These data will also valuable for functional genomic efforts in Arabidopsis...
  100. ncbi request reprint High-throughput protein purification using an automated set-up for high-yield affinity chromatography
    Johanna Steen
    School of Biotechnology, Division of Molecular Biotechnology, AlbaNova University Center, KTH, Royal Institute of Technology, Roslagsvägen 30 B, 106 91 Stockholm, Sweden
    Protein Expr Purif 46:173-8. 2006
    ..The procedure is highly reproducible and allows for high protein yield and purity...