Publications

Alhamdani M., Youns M., Buchholz M., Gress T.M., Beckers M., Maréchal D., Bauer A., Schröder C., Hoheisel J.D. (2012)Immunoassay-based proteome profiling of 24 pancreatic cancer cell lines. Journal of Proteomics [link] (Affinomics partner DKFZ)

Blokzijl A., Friedman M., Pontén F., Landegren U. (2010) Profiling protein expression and interactions: proximity ligation as a tool for personalized medicine. Journal of Internal Medicine [link] (Affinomics partner UU)

Chepurny O., Bertinetti D., Diskar M., Leech C.A., Afshari P., Tsalkova T., Cheng X., Schwede F., Genieser H.G., Herberg F.W., Holz G.G. (2013) Stimulation of Proglucagon Gene Expression by Human GPR119 in Enteroendocrine L-cell Line GLUTag. Molecular Endocrinology [link] (Affinomics partner UNIKASSEL)

Du X., Barisch C., Paschke P., Herrfurth C., Bertinetti O., Pawolleck N., Otto H., Rühling H., Feussner I., Herberg W.F., Maniak M. (2013) Dictyostelium Lipid Droplets Host Novel Proteins. Eukaryotic Cell [link] (Affinomics partner UNIKASSEL)

Fagerberg L., Oksvold P., Skogs M., Älgenäs C., Lundberg E., Pontén F., Sivertsson Å., Odeberg J., Klevebring D., Kampf C., Asplund A., SjöstedtE., Szigyarto C., Edqvist P., Olsson I., Rydberg U., Hudson P., Takanen J.O., Berling H., Björling L., Tegel H., Rockberg J., Nilsson P., Navani S., Jirström K., Mulder J., Schwenk J.M., Zwahlen M., Hober S., Forsberg M., Feilitzen K., Uhlén M. (2012) Contribution of Antibody-based Protein Profiling to the Human Chromosome-centric Proteome Project (C-HPP). Journal of Proteome Research [link] (Affinomics partner UU, KTH)

Fleetwood F., Devoogdt N., Pellis M., Wernery U., Muyldermans S., Ståhl S., Löfblom J. (2012) Surface display of a single domain antibody library on Gram-positive bacteria. Cellular and Molecular Life Sciences [link] (Affinomics partner KTH)

Friedrich A., Hoheisel J.D., Knemeyer J.P., Marmé N. (2011) A universally applicable process for preparing stoichiometrically 1:1 labelled functional proteins. Proteomics [link] (Affinomics partner DKFZ)

Gu G.J., Friedman M., Jost C., Johnsson K., Kamali-Moghaddam M., Plückthun A., Landegren U., Söderberg O. (2013) Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation. New Biotechnology [link] (Affinomics partner UU)

Gu G.J., Wu D., Lund H., Sunnemark D., Kvist A.J., Milner R., Eckersley S., Nilsson L.N.G., Agerman K., Landegren U., Kamali-Moghaddam M. (2012) Elevated MARK2-dependent phosphorylation of Tau in Alzheimer's disease. Journal of Alzheimer's Disease [link] (Affinomics partner UU)

Häggmark A., Neiman M., Drobin K., Zwahlen M., Uhlén M., Nilsson P., Schwenk J.M. (2012) Classification of protein profiles from antibody microarrays using heat and detergent treatment. New Biotechnology [link] (Affinomics partner KTH)

Hassanzadeh-Ghassabeh G., Devoogdt N.​, Pauw P. D., Vincke C., Muyldermans ​S. (2013) Nanobodies and their potential applications. Nanomedicine [link] (Affinomics partner VIB)

Hoheisel J.D., Alhamdani M.S.S., Schröder C. (2013) Affinity-based microarrays for proteomic analysis of cancer tissues. Proteomics - Clinical Applications [link] (Affinomics partner DKFZ)

Huang G. Y., Kim J.J., Reger A.S., Lorenz R., Moon E.W., Zhao C., Casteel D.E., Bertinetti D., VanSchouwen B., Selvaratnam R., Pflugrath J.W., Sankaran B., Melacini G., Herberg F.W., Kim C. (2013) Structural Basis for Cyclic-Nucleotide Selectivity and cGMP-Selective Activation of PKG I. Structure [link] (Affinomics partner UNIKASSEL)

Hust M., Frenzel A., Meyer T., Schirrmann T., Dübel S. (2012) Construction of human naive antibody gene libraries. Methods in Molecular Biology [link] (Affinomics partner TUBS)

Isensee J., Diskar M., Waldherr S., Buschow R., Hasenauer J., Prinz A., Allgöwer F., Herberg F.W., Hucho T. (2014) Pain modulators regulate the dynamics of PKA-RII phosphorylation in subgroups of sensory neurons. Journal of Cell Science [link] (Affinomics partner UNIKASSEL)

Kämpf K., Kübler S., Herberg F.W., Ehresmann A. (2012) Magneto-optic surface plasmon resonance optimum layers: Simulations for biological relevant refractive index changes. Journal of Applied Physics [link] (Affinomics partner UNIKASSEL)

Keates T., Cooper C.D.O, Savitsky P., Allerston C.K., Phillips C., Hammarström M., Daga N., Berridge G., Mahajan P., Burgess-Brown N.A., Müller S., Gräslund S., Gileadi O. (2011) Expressing the human proteome for affinity proteomics: optimising expression of soluble protein domains and in vivo biotinylation. New Biotechnology [link] (Affinomics partner KI, UOX)

Kiel C., Vogt A., Campagna A., Chatraryamontri A., Lange M.S., Beer M., Bolz S., Mack A.F., Kinkl N., Cesareni G., Serrano L., Ueffingc M. (2011) Structural and functional protein network analyses predict novel signaling functions for rhodopsin. Molecular Systems Biology [link] (Affinomics partner EKUT)

Klingström T. (2012) Workshop on laboratory protocol standards for the molecular methods database. New Biotechnology [link] (Affinomics partner UU)

Kummer L., Parizek P., Rube P., Millgramm B., Prinz A., Mittl P.R., Kaufholz M., Zimmermann B., Herberg F.W., Plückthun A. (2012) Structural and functional analysis of phosphorylation-specific binders of the kinase ERK from designed ankyrin repeat protein libraries. Proceedings of the National Academy of Sciences of the United States [link] (Affinomics partner UZH)

Landegren U. (2013) Offshoots of the ESF functional genomics programme. New Biotechnology [link] (Affinomics partner UU)

Landegren U., Vänelid J., Hammond M., Nong R.Y., Wu D., Ullerås E., Kamali-Moghaddam M. (2012) Opportunities for Sensitive Plasma Proteome Analysis. Analytical Chemistry [link] (Affinomics partner UU)

Liberti S., Sacco F., Calderone A., Perfetto L., Iannuccelli M., Panni S., Santonico E., Palma A., Nardozza A.P., Castagnoli L., Cesareni G. (2012) HuPho: the human phosphatase portal. FEBS Journal [link] (Affinomics partner UTOV)

Lolicato M., Nardini M., Gazzarrini S., Möller S., Bertinetti D., Herberg F.W., Bolognesi M., Martin H., Fasolini M., Bertrand J.A., Arrigoni C., Thiel G., Moroni A. (2011) Tetramerization dynamics of the C-terminal domain underlies isoform-specific cAMP-gating in Hyperpolarization-activated Cyclic Nucleotide gated channels. Journal of Biological Chemistry [link] (Affinomics partner UNIKASSEL)

Miethe M., Meyer T., Wöhl-Bruhn S., Frenzel A., Schirrmann T., Dübel S., Hust M. (2013) Production of single chain fragment variable (scFv) antibodies in Escherichia coli using the LEX bioreactor. Journal of Biotechnology [link] (Affinomics partner TUBS)

Muda K., Bertinetti D., Gesellchen F., Hermann J.S., Zweydorf F., Geerlof A., Jacob A.,Ueffing M., Gloeckner C.J., Herberg F.W. (2014) Parkinson-related LRRK2 mutation R1441C/G/H impairs PKA phosphorylation of LRRK2 and disrupts its interaction with 14-3-3. Proceedings of the National Academy of Sciences of the United States [link] (Affinomics partner UNIKASSEL, DKFZ, EKUT)

Mustafa S.A., Hoheisel J.D., Alhamdani M.S. (2011) Secretome profiling with antibody microarrays. Mol. Biosyst. [link] (Affinomics partner DKFZ)

Muyldermans S. (2013) Nanobodies: Natural single domain antibodies. Annual Review of Biochemistry [link] (Affinomics partner VIB)

Nong R.Y., Gu J., Darmanis S., Kamali-Moghaddam M., Landegren U. (2012) DNA-assisted protein detection technologies. Expert Review of Proteomics [link] (Affinomics partner UU)

Parizek P., Kummer L., Rube P., Prinz A., Herberg F.W., Plückthun A. (2012) Designed Ankyrin Repeat Proteins (DARPins) as Novel Isoform-Specific Intracellular Inhibitors of c-Jun N-Terminal Kinases. ACS Chemical Biology [link] (Affinomics partner UZH)

Pellis M., Pardon E., Zolghadr K., Rothbauer U., Vincke C., Kinne J., Dierynck I., Hertogs K., Leonhardt H., Messens J., Muyldermans S., Conrath K. (2012) A bacterial-two-hybrid selection system for one-step isolation of intracellularly functional Nanobodies. Archives Biochemistry Biophysics [link] (Affinomics partner VIB)

Rantala J.K., Kwonemail S., Korkolaemail J., Grayemail J.W. (2013) Expanding the Diversity of Imaging-Based RNAi Screen Applications Using Cell Spot Microarrays. Microarrays [link] (Affinomics partner VTT)

Sacco F., Gherardini P.F., Paoluzi S., Saez‐Rodriguez J., Helmer‐Citterich M., Ragnini‐Wilson A., Castagnoli L., Cesareni G. (2012) Mapping the human phosphatome on growth pathways. Molecular Systems Biology [link] (Affinomics partner UTOV)

Schmidt R., Cook E.A., Kastelic D., Taussig M.J., Stoevesandt O. (2013) Optimised 'on demand' protein arraying from DNA by cell free expression with the 'DNA to Protein Array' (DAPA) technology. Journal of Proteomics [link] (Affinomics partner BI)

Schmidt R., Jacak J., Schirwitz C., Stadler V., Michel G., Marmé N., Schütz G.J., Hoheisel J.D., Knemeyer J.P. (2011) Single-molecule detection on a protein-array assay platform for the exposure of a tuberculosis antigen. J. Proteome Res. [link] (Affinomics partner DKFZ)

Sjöberg R., Sundberg M., Gundberg A., Sivertsson A., Schwenk J.M., Uhlén M., Nilsson P. (2011) Validation of affinity reagents using antigen microarrays. New Biotechnology [link] (Affinomics partner KTH)

Stoevesandt O., Taussig M.J. (2012) Affinity Proteomics: The Role of Specific Binding Reagents in Human Proteomics. Expert Review of Proteomics [link] (Affinomics partner BI)

Stoevesandt O., Taussig M.J. (2012) Editorial: European and International Collaboration in Affinity Proteomics. New Biotechnology [link] (Affinomics partner BI)

Taussig M.J., Schmidt R., Cook E.A., Stoevesandt O. (2013) Development of proteome-wide binding reagents for research and diagnostics. Proteomics Clin Appl. [link] (Affinomics partner BI)

Tinti M., Kiemer L., Costa S., Miller M.L, Sacco F., Olsen J.V., Carducci M., Paoluzi S., Langone F., Workman C.T., Blom N., Machida K., Thompson C.M., Schutkowski M., Brunak S., Mann M., Mayer B.J., Castagnoli L., Cesareni G. (2013) The SH2 Domain Interaction Landscape. Cell Research [link] (Affinomics partner UTOV)

Tinti M., Nardozza A.P., Ferrari E., Sacco F., Corallino S., Castagnoli L., Cesareni G. (2011) The 4G10, pY20 and p-TYR-100 antibody specificity: profiling by peptide microarrays. New Biotechnology [link] (Affinomics partner UTOV)

Yepes D., Jacob A., Dauber M., Costina V., Hofheinz R., Neumaier M., Findeisen P. (2011) Substrate optimization and clinical validation of reporter peptides for MS-based protease profiling in serum specimens: a new approach for diagnosis of malignant diseases. International Journal of Oncology [link] (Affinomics partner DKFZ)

Zieba A., Grannas K., Söderberg O., Gullberg M., Nilsson M., Landegren U. (2012) Molecular tools for companion diagnostics. New Biotechnology [link] (Affinomics partner UU)

Zieba A., Pardali K., Söderberg O., Lindbom L., Nyström E., Moustakas A., Heldin C.H., Landegren U. (2012) Intercellular variation in signaling through the TGF-β pathway and its relation to cell density and cell cycle phase. Molecular and Cellular Proteomics [link] (Affinomics partner UU)