Robert Moritz


Dr. Robert Moritz, a native of Australia, joined the ISB faculty in mid 2008 as Associate Professor and Director of Proteomics. Dr. Moritz began his work in 1983 in the Joint Protein Structure laboratory of Prof. Richard J. Simpson (JPSL-Ludwig Institute for Cancer Research, and The Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia). During his 25 years at JPSL, Dr. Moritz designed and implemented a number of technologies currently used in many proteomics laboratories across the globe. Examples include technologies such as the development of micro-chromatography for proteomics from the late 1980’s to its current day implementation, a micro-fractionation technique widely used by many laboratories worldwide. His collaborative research into cytokine biochemistry, protein-receptor chemistry and cellular biochemistry culminated in the novel identification of a number of proteins (e.g., IL-6, IL-9 A33 ligand, DIABLO, as well as several others), their interacting partners, and 3-dimensional structures of their cell surface receptors important in human health concerns such as cancer and inflammation. During his time at JPSL, Dr. Moritz progressed through the ranks whilst obtaining his Bachelor’s degree in Biochemistry with first-class Honors, and his Ph.D., from the University of Melbourne.

Dr. Moritz has brought wide-ranging skills and expertise to ISB, much of it drawn from his Australian experience. There, in 2005, he conceptualized a shared proteomics high-performance computing system, organized a consortia of proteomic scientists from all states in Australia, and proposed a computational system specifically for proteomics data analysis for all Australian researchers to access. For this work, in 2006, he was awarded an enabling grant from the Australian National Health and Medical Research Council worth AUS$2M. With that award, he established a bioinformatics center in Australia that enabled proteomic researchers anywhere in the country to analyze mass spectrometry data. It was the first effort on a national scale to bring proteomic data analysis and algorithms to any researcher in the whole country without the need for them to build their own bioinformatics group. In late 2006, the Australian Proteomics Computational Facility (APCF, was inaugurated, and Dr. Moritz remains as Director of the APCF. The dedicated proteomics data analysis facility is equipped with a 1000 CPU high-performance computing cluster, and full-time software engineers for the continued development of proteomics algorithms and data validation. This facility serves all researchers in Australia and others regardless of their global geographical location. He is continuing that work at ISB by expanding the ISB proteomics centre into a national facility with online tools for data analysis.

Biochemistry, Protein Chemistry, Protein Structure, Post-Translational Modifications, Proteomics, Mass Spectrometry, Edman Degradation, Amino Acid Analysis, Technology Development

  1. Simpson, R.J., Smith, J.A., MORITZ, R.L., O’Hare, M.J., Rudland, P.S., Morrison, J.R., Lloyd, C.J., Grego, B., Burgess, A.W. and Nice, E.C. (1985) Rat epidermal growth factor: Complete amino acid sequence. Homology with the corresponding murine and human proteins; Isolation of a form truncated at both ends with full in vitro biological activity. Eur. J. Biochem. 153:629-637.


  1. Simpson, R.J., MORITZ, R.L., Nice, E.C., Grego, B., Yoshizaki, F., Sugimura, Y., Freeman, H.C. and Murata, M. (1986) Complete amino acid sequence of a plastocyanin from a green alga, Enteromorpha prolifera. Eur. J. Biochem. 157:497-506.


  1. Nice, E.C., Smith, J.A., MORITZ, R.L., O’Hare, M.J., Rudland, P.S., Morrison, J.R., Lloyd, C.J., Grego, B., Burgess, A.W. and Simpson, R.J. (1987) Complete amino acid sequence determination of rat epidermal growth factor: Characterisation of a truncated form with full in vitro biological activity. In: Proteins, Structure and Function (J.J. L’Italien, ed.). Plenum Press, New York. pp.37-44.


  1. Simpson, R.J., MORITZ, R.L., Nice, E.C. and Grego, B. (1987) A high-performance liquid chromatography procedure for recovering subnanomole amounts of protein from SDS-gel electroeluates for gas­phase sequence analysis. Eur. J. Biochem. 165:21-29.


  1. Baldwin, G.S. Chandler, R., Seet, K.L., Weinstock, J., Grego, B., Rubira, M.R., MORITZ, R.L. and Simpson, R.J. (1987) Structural studies on a 75-kDa glycoprotein isolated from porcine gastric mucosal membranes: Close homology with the 78-kDa glucose-regulated family of proteins. Protein Sequences and Data Analysis 1:7-12.


  1. Simpson, R.J., MORITZ, R.L., Lloyd, C.J., Fabri, L.J., Nice, E.C., Rubira, M.R. and Burgess, A.W. (1987) Primary structure of ovine pituitary basic fibroblast growth factor. FEBS Lett. 224:128-132.


  1. Thomson, M., MORITZ, R.L., Simpson, R.J. and Norton, R.S. (1987) Tenebrosin-A, A new cardiostimulant protein from the Australian sea anemone Actinia tenebrosa. Biochem. Int’l. 15:711-718.


  1. Smith, A.I., Wallace, C.A., MORITZ, R.L., Simpson, R.J., Schmauk- White, L.B., Woodcock, E.A. and Funder, J.W. (1987) Isolation, amino acid sequence and action of guinea-pig ACTH on aldosterone production by glomerulosa cells. J. Endocrinol. 115:R5-R8.


  1. Ramasamy, R., Simpson, R.J., Dexter, A., Keeghan, M., Reed, C., Bushell, G., Ingram, L.T., Henderson, T., Moloney, M.B., MORITZ, R.L., Rubira, M.R. and Kidson, C. (1988) Isolation and partial characterisation of a 26 Kilodalton antigen from Plasmodium falciparum recognised by an inhibitory monoclonal antibody. Mol. Biochem. Parasitol. 29:125-132.


  1. Ratajczak, T., Brockway, M.J., Hahnel, R., MORITZ, R.L. and Simpson, R.J. (1988) Sequence analysis of the non-steroid binding component of the calf uterine estrogen receptor. Biochem. Biophys. Res. Commun. 151:1156-1163.


  1. Simpson, R.J., MORITZ, R.L., Rubira, M.R. and Van Snick, J. (1988) Murine hybridoma/plasmacytoma growth factor: Complete amino acid sequence and relation to human interleukin-6. Eur. J. Biochem. 176:187-197.


  1. Stewart, G.A., Simpson, R.J., MORITZ, R.L., Thomas, W.R. and Turner, K.J. (1988) Physico-chemical characterization of allergens Der p1 (Dpt 12), Dpt 22 and Dpt 36 from house dust mite. In: Mite Allergy. A.L. de Weck, A. Todt (eds). The UCB Institute of Allergy, Brussels. pp. 35-38.


  1. Simpson, R.J., MORITZ, R.L., Begg, G.S., Rubira, M.R. and Nice, E.C. (1989) Micropreparative procedures for high sensitivity sequencing of peptides and proteins. Anal. Biochem. 177:221-236.


  1. Simpson, R.J., Nice, E.C., MORITZ, R.L. and Stewart, G.A. (1989) Structural studies on the allergen Der p1 from the house dust mite, Dermatophagoides pteronyssinus: Similarity with cysteine proteinases. Protein Sequence & Data Anal. 2:17-21.


  1. Simpson, R.J., Begg, G.S., Reid, G.E., Rubira M.R., Ward L.D. and MORITZ, L.,.(1989) Application of Microbore HPLC for purifying proteins and peptides for microsequence analysis in Methods in Protein Sequence Analysis, (ed. B. Wittmann-Liebold) Springer­Verlag, Berlin, pp. 256-263.


  1. Simpson, R.J. and MORITZ, R.L. (1988) Strategic approaches to protein microsequencing: Application of high sensitivity peptide mapping in “Proceedings of the Symposium on Protein Structure Function Relationship.” (ed. Z.H. Zaidi), Elsevier. pp.287-297.


  1. Simpson, R.J., MORITZ, R.L., Van Roost, E. and Van Snick, J. (1988) Characterization of a recombinant murine interleukin-6 :Assignment of disulphide bonds. Biochem. Biophys. Res. Commun. 157:364-372.


  1. Jahnen, W., Batterham, M.P., Clarke, A.E., MORITZ, R.L. and Simpson, R.J. (1989) Identification, isolation and N-terminal sequencing of style glycoproteins associated with self-incompatibility in Nicotiana alata. The Plant Cell 1:493-499.


  1. Van Snick, J., Goethals, A., Renauld, J-C., Van Roost, E., Uyttenhove, C. Rubira, M.R., MORITZ, R.L. and Simpson, R.J. (1989) Cloning and characterization of a cDNA for a new mouse T cell growth factor (P40) J. Exp. Med. 169:363-368.


  1. Ratajczak, T., Brockway, M.J., Hahnel, R., MORITZ, R.L. and Simpson, R.J. (1988) Chemical characterization by protein sequence analysis of the bovine estrogen receptor. Biochem. Biophys. Res. Commun. 156:116-124.


  1. Simpson, R.J., MORITZ, R.L., Rubira, M.R., Gorman, J.J. and Van Snick, J. (1989) Complete amino acid sequence of a new murine T­cell growth factor (P40). Eur. J. Biochem. 183:715-722.


  1. Simpson, R.J. and MORITZ, R.L. (1989) Chromatographic fractionation of proteins at high organic solvent modifier concentrations. J. Chromatogr. 474:418-423.


  1. Simpson, R.J., Ward, L.D., Reid, G.E., Batterham, M.P. and MORITZ, R.L. (1989) Peptide mapping and internal sequencing of proteins electroblotted from two-dimensional gels onto polyvinylidene difluoride) membranes : A chromatographic procedure for separating proteins from detergents, J. Chromatogr. 476: 345-361.


  1. Ratajczak, T., Wilkinson, S.P., Brockway, M.J., Hahnel, R., MORITZ, R.L., Begg, G.S. and Simpson, R.J. (1989) The interaction site for tamoxifen aziridine with the bovine estrogen receptor. J. Biol. Chem. 264:13453-13459.


  1. Simpson, R.J. and MORITZ, R.L. (1991) Chromatography of proteins at high organic solvent concentrations: An inverse-gradient reversed­phase HPLC method for preparing samples for microsequence analysis. In: HPLC of Peptides and Proteins: Separation, Analysis and Conformation. R.S. Hodges and C.T. Mant (eds). CRC Press Inc., Boca Raton, USA. pp.399-408.


  1. Norton, R.S., Bobek, G., Ivanov, J.O., Thomson, M. Fiala-Beer, E., MORITZ, R.L. and Simpson, R.J. (1990) Purification and characterisation of proteins with cardiac stimulatory and haemolytic activity from the anemone Actinia tenebrosa. Toxicon. 28:29-4


  1. Ward, L.D., Reid, G.E., MORITZ, R.L. and Simpson, R.J. (1990) Peptide mapping and internal sequencing of proteins from acrylamide gels. In: J.J. Villafranca (ed), Current Research in Protein Chemistry: Techniques, Structure and Function. Academic Press, Orlando, FL, USA. pp.179-190.


  1. Jahnen, W., Ward, L.D., Reid, G.E., MORITZ, R.L. and Simpson, R.J. (1990) Internal amino acid sequencing of proteins by in situ cyanogen bromide cleavage in polyacrylamide gels. Biochem. Biophys. Res. Comm. 166:139-145.


  1. Williams, N.K., Simpson, R.J., MORITZ, R.L., Peide, Y., Crofts, L., Minasian, E., Leach, S.J., Wake, R.G. and Christopherson, R.I. (1990) Location of the dihydroorotase domain within trifunctional hamster dihydroorotate synthetase. Gene. 94:283-288.


  1. Simpson, R.J., Reid, G.E., MORITZ, R.L., Morton, C. and Norton, R.S. (1990) Complete amino acid sequence of tenebrosin-C, a cardiac stimulatory and haemolytic protein from the sea anemone Actinia tenebrosa. Eur. J. Biochem. 190:319-328.


  1. Ward, L.D., MORITZ, R.L., Reid, G.E. and Simpson, R.J. (1990) 2D gel electrophoresis of proteins from LIM1863 cells: identification of proteins by protein sequencing. In: Protein Engineering. (M. Ikehara, ed.), pp.295-297. Japan Scientific Societies Press, Tokyo and Springer-Verlag, Berlin.


  1. Toh, B-H., Gleeson, P.A., Simpson, R.J., MORITZ, R.L., Callaghan, J.M., Goldkorn, I., Jones, C.M., Martinelli, T.M., Mu, F-T., Humphris, D.C., Pettitt, J.M., Mori, Y., Masuda, T., Sobieszczuk, P., Weinstock, J., Mantamadiotis, T. and Baldwin, G.S. (1990) The 60- to 90-kDa parietal cell autoantigen associated with autoimmune gastritis is a b subunit of the gastric H+/K+-ATPase (proton pump). Proc. Natl. Acad. Sci. USA 87:6418-6422.


  1. Ward, L.D., Reid, G.E., MORITZ, R.L. and Simpson, R.J. (1990) Strategies for internal amino acid sequence analysis of proteins separated by polyacrylamide gel electrophoresis. J. Chromatogr. 519:199-216.


  1. Simpson, R.J., MORITZ, R.L., Reid, G.E. and Ward, L.D. (1991) Current strategies for microscale purification of protein and peptides for sequence analysis. In: “Methods in Protein Sequence Analysis”. (Jornvall, H., Hoog, J-O. and Gustavsson, A-M., Eds.), pp67-77, Birkhauser Verlag AG, Switzerland.


  1. Inglis, A.S., MORITZ, R.L., Begg, G.S., Reid, G.E., Simpson, R.J., Graffunder, H., Matschull, L. and Wittmann-Liebold, B. (1991) C­terminal sequence analysis. In: “Methods in Protein Sequence Analysis”. (Jornvall, H., Hoog, J-O. and Gustavsson, A-M., Eds.), pp.23-34, Birkhauser Verlag AG, Switzerland.


  1. Sarkar, M., Hull, E., Nishikawa, Y., Simpson, R.J., MORITZ, R.L., Dunn, R. and Schachter, H. (1991) Molecular cloning and expression of cDNA encoding the enzyme that controls conversion of high­mannose to hybrid and complex N-glycans: UDP-N-acetylglucosamine: a-3-D-Mannoside b-1,2-N-acetylglucosaminyltransferase I. Proc. Natl. Acad. Sci. USA 88:234-238.


  1. Baldwin, G.S., Seet, K.L., Callaghan, J., Toncich, G., Toh, B.H., MORITZ, R.L., Rubira, M.R. and Simpson, R.J. (1991) Purification and partial amino acid sequence of human aconitase. Prot. Seq. Data Anal. 4:63-67.


  1. Klemenz, R., Frohli, E., Aoyama, A., Hoffmann, S., Simpson, R.J., MORITZ, R.L. and Schafer, R. (1991) B Crystallin accumulation is a specific response to Ha-ras and v-mos oncogene expression in mouse NIH 3T3 fibroblasts. Mol. Cell. Biol. 11:803-812.


  1. Baldwin, G.S., MORITZ, R.L., Rubira, M., Seet, K.L., Weinstock, J. and Simpson, R.J. (1991) Purification and partial amino acid sequence of annexin V from porcine gastric mucosal membranes. Comp. Biochem. Physiol. 100B:661-665.


  1. Simpson, R.J., MORITZ, R.L. and Ward, L.D. (1992) Isolation of low picomole levels of peptides and proteins for microsequence analysis.: International Congress on Analytical Sciences


  1. MORITZ, R.L., Ward, L.D. and Simpson, R.J. (1992) High-sensitivity peptide mapping utilizing reversed-phase microbore and microcolumn liquid chromatography. In: Angelletti-Hogue, R. (ed), Techniques in Protein Chemistry III, Academic Press, pp 97-106.


  1. Lackmann, M., Cornish, C.J., Simpson, R.J., MORITZ, R.L. and Geczy, C. (1992) Purification and structural analysis of a murine chemotactic cytokine (CP-10) with sequence homology to S-100 proteins. J. Biol. Chem. 267:7499-7504.


  1. MORITZ, R.L. and Simpson, R.J. (1992) Application of capillary reversed-phase high-performance liquid chromatography to high-sensitivity protein sequence analysis. J. Chromatogr. 599:119-130.


  1. Sarkar, M., Hull, E., Simpson, R.J., MORITZ, R.L., Dunn, R. and Schachter, H. (1990) Rabbit liver UDP-N-acetylglucosamine:a-3-D-mannoside b-1,2-N-acetylglucosaminyltransferase I: characterization of a 2.5 kilobase cDNA clone. Glycoconjugate Journal 7:380.


  1. Zhang, J., MORITZ, R.L., Reid, G.E., Ward, L.D. and Simpson, R.J., (1992) Purification and characterization of a recombinant murine Interleukin-6: Isolation of N- and C-terminally truncated forms. Eur. J. Biochem. 207:903-913


  1. MORITZ, R.L. and Simpson, R.J. (1992) Purification of proteins and peptides for sequence analysis using microcolumn liquid chromatography. J. Microcolumn Separations. 4 (6): 485-489.


  1. Lackmann, M., Cornish, C., Simpson, R.J., MORITZ, R.L., Reid, G. and Geczy, C.L. (1992) Isolation and structural analysis of a murine chemotactic peptide, CP-10. In: Pathophysiology and Pharmacology of Cytokines, Manovani and P. Gheezi (Eds). Saunders Scientific Publ., pp 273-280.


  1. Simpson, R.J., Ward, L.D. and Moritz, R.L. (1992) The use of capillary liquid chromatography and 2D-gel electrophoresis for isolating proteins for high-sensitivity protein sequence analysis. J. Prot. Chem. 11:352-353.


  1. Moritz, R.L. and Simpson, R.J. (1993) Capillary liquid chromatography: A tool for protein structural analysis. In Methods in Protein Sequence Analysis (K. Imahori and F. Sakiyama, Eds), Plenum Press, New York, pp.3‑10.


  1. Lackmann, M., Rajusekariah, P., Iismaa, S.E., Jones, G., Cornish, C.J., Hu, S., Simpson, R.J., Moritz, R.L. and Geczy, C.L. (1993) Identification of a chemotactic domain of the pro-inflammatory S100 protein CP-10. J. Immunol. 150:2981-2991.


  1. Ji, H., Baldwin, G.S., Burgess, A.W., Moritz, R.L., Ward, L.D. and Simpson, R.J. (1993) Epidermal growth factor induces serine phosphorylation of stathmin in a human colon carcinoma cell line (LIM 1215). J. Biol. Chem. 268:13396-13405.


  1. Ratajczak, T., Carrello, A., Mark, P.J., Warner, B.J., Simpson, R.J., Moritz, R.L. and House, A.K. (1993) The cyclophilin component of the unactivated estrogen receptor contains a tetratricopeptide repeat domain and shares identity with p59 (FKB959). J. Biol. Chem. 268:13187-13192.


  1. Moritz, R.L. and Simpson, R.J. (1993) Capillary reversed-phase liquid chromatography: Application to high sensitivity protein sequence analysis. In Biomedical Products, Elsevier, 48‑50.


  1. Zhang, J-G., Reid, G.E., Moritz, R.L., Ward, L.D. and Simpson, R.J. (1993) Specific covalent modification of the tryptophan residues in murine interleukin-6. J. Biochem. 217, pp 53-59.


  1. Ward, L.D., Howlett, G.J., Discolo, G., Yasukawa, K., Hammacher, A., Moritz, R.L., and Simpson, R.J. (1994) The high affinity Interleukin-6 receptor is a hexameric complex consisting of two molecules each of Interleukin-6, Interleukin-6 receptor, and gp-130. J. Biol. Chem., 269,
  2. MORITZ, R.L., Reid, G.E., Ward, L.D. and Simpson, R.J. (1994) Capillary HPLC: A method for protein isolation and peptide mapping. Methods: A companion to Methods in Enzymology. (Shively, J.E., Ed), Academic Press, San Diego, 6: 213-226.


  1. Ward, L.D., Howlett, G.J., Moritz, R.L., Hammacher, A., Yasukawa, K. and Simpson, R.J. (1995) Studies of cytokine-cytokine receptor interactions: Influence of ligand dimerization. In: Crabb, J.W.. (ed), Techniques in Protein Chemistry VI, Academic Press, pp 417-425.


  1. Moritz, R.L. Eddes, J., Ji, H., Reid, G.E., and Simpson, R.J. (1995) Rapid separation of proteins and peptides using conventional silica-based supports: Identification of 2-D gel proteins following in-gel proteolysis. In: Crabb, J.W.. (ed), Techniques in Protein Chemistry VI, Academic Press, pp 311-319.


  1. H., Simpson, R.J., MORITZ, R.L., Bacic, A. and Clarke, A.E. (1994) Isolation and Cloning of a cDNA Encoding an Arabinogalactan-Protein (AGP) from the Styles of Nicotiana alata. Plant Cell. 6: 1643-1653


  1. Ward, L.D., Howlett, G.J., Hammacher, A., Moritz, R.L., and Simpson, R.J. (1995) Stoichiometry of the Interleukin-6 high affinity receptor complex. Ann. N.Y. Acad. Sci., 762, pp 471-473


  1. Moritz, R.L. Eddes, J. and Simpson, R.J. (1995) High-speed chromatographic separation of proteins and peptides for high-sensitivity microsequence analysis In Methods in Protein Sequence Analysis (A. Atassi and E. Appela, Eds), Plenum Press, New York, pp 27-38.


  1. Tu, G-F., Reid, G.E., Zhang, J-G., MORITZ, R.L. and Simpson, R.J. (1995) C-terminal extension of truncated recombinant proteins in coli with a 10Sa RNA decapeptide. J. Biol. Chem. 270 (16): 9322-9326.


  1. Ward, L.D., Hammacher, A., Chang, J., Zhang, J-G., Discolo, G., MORITZ, R.L., Yasukawa, K. and Simpson, R.J. (1994) Reconstitution in vitro of the interleukin-6/interleukin-6 receptor interaction: Direct monitoring using a biosensor employing surface plasmon resonance detection, in “Techniques in Protein Chemistry V” (J.W. Crabb, Ed.), Academic Press, Orlando, FL. pp. 331-338.


  1. Hong Ji, Whitehead, R.H., Reid, G.E., MORITZ, R.L., Ward, L.D. and Simpson, R.J. (1994) Two-dimensional electrophoretic analysis of proteins expressed by normal and cancerous human crypts: Application of mass spectrometry to peptide-mass fingerprinting. Electrophoresis, 15: 391-405.


  1. Ward, L.D., Howlett, G.J., Discolo, G., Yasukawa, K., Hammacher, A., MORITZ, R.L. and Simpson, R.J. (1994) High affinity interleukin-6 receptor is a hexameric complex consisting of two molecules each of interleukin-6, interleukin-6 receptor, and gp-130. Biol. Chem. 269: pp. 23286-23289.


  1. MORITZ, R.L., Eddes, J. S., Ji, Hong., Reid, G.E. and Simpson, R.J. (1995) Rapid Separation of Proteins and Peptides using Conventional Silica-Based Supports: Identification of 2-D Gel Proteins Following In-Gel Proteolysis. In “Techniques in Protein Chemistry VI”. (J.W. Crabb, Ed.), Academic Press, Orlando, FL, 311-319.


  1. Ward, L.D., Howlett, G.J., MORITZ, R.L., Hammacher, A., Yasukawa, K. and Simpson, R.J. (1995) Studies of Cytokine – Cytokine Receptor Interactions: Influence of Ligand Dimerization. In “Techniques in Protein Chemistry VI”. (J.W. Crabb, Ed.), Academic Press, Orlando, FL. 417-425.


  1. Chen, C-g., Pu, Z-y., MORITZ, R.L., Simpson, R.J., Bacic, A., Clarke, A.E. and Mau, S-l. (1994) Molecular cloning of a gene encoding an arabinogalactan-protein from pear (Pyrus communis) cell suspension culture. Proc. Natl. Acad. Sci. USA, 91: 10305-10309.


  1. MORITZ, R.L., Eddes, J., Ji, H., Reid, G.E. and Simpson, R.J. (1994). High-speed chromatographic separation of proteins and peptides: Application to rapid peptide mapping of in-gel digested proteins. Prot.Chem. 13:486-487.


  1. Mau, S.L., Chen, C.G., Pu, Z.Y., Moritz, R.L., Simpson, R.J., Bacic, A. and Clarke, A.E. (1995) Molecular cloning of cDNAs encoding the protein backbones of arabinogalactan-proteins from the filtrate of suspension-cultured cells of Pyrus communis and Nicotiana alata.  Plant J.,  8(2),  269-281


  1. Simpson, R.J., Reid, G.E., MORITZ, R.L., and Ward, L.D. Isolation of Proteins and Peptides for sequence analysis (1995) In: “Encyclopedia of Molecular Biology: Fundamentals and Applications,” Blackwell Scientific Publications


  1. Reid, G.E., Ji, H., Eddes, J.S., MORITZ, R.L. and Simpson, R.J. (1995) Non-reducing two-dimensional polyacrylamide gel electrophoretic analysis of human colonic proteins. Electrophoresis. 16(7)  pp 1120-1130.


  1. Tang, Y., Grover, P.K., MORITZ, R.L., Simpson, R.J., and Ryall, R.L. (1995) Is nephrocalcin related to the urinary derivative (bikunin) of inter–trypsin inhibitor. Br. J. Urol. 76(4) pp 425-430.


  1. D’Agostaro, G.A.F., Zingoni, A., MORITZ, R.L., Simpson, R.J., Schacter, H. and Bendiak, B. (1995) Molecular cloning and expression of cDNA encoding the Rat UDP-N-Acetylglucosamine:-6-D-Mannoside -1,2-N-Acetylglucosaminyltransferase II. J. Biol. Chem. 270: pp. 15211-15221.


  1. Ryall, R.L., Grover, P.K., Stapleton, A.M.F., Barrell, D.K., Tang, Y., MORITZ, R.L., and Simpson, R.J. (1995) The urinary Urinary F1 Activation Peptide of Human Prothrombin is a potent inhibitor of calcium oxalate crystallization in undiluted human urine in vitro.  Sci. Colch.,  89(5)  pp 533-541.


  1. Simpson, R.J., and MORITZ, R.L. (1995). Purification of Small Peptides from Biological Sources. In: “Proteins LABFAX” (Price, N., Ed.), BIOS Scientific Publishers, Oxford.  71-77.


  1. D’Agostaro G.A.F., Zingoni, A., MORITZ, R.L., Simpson, R.J., Schachter, H., and Bendiak, B. (1995) Molecular cloning and expression of cDNA encoding the rat UDP-N-Acetylglucosamine: a-6-D-Mannoside b-1,2-N-Acetylglucosaminyltransferase II. Biol. Chem.  270: 15211-15221.


  1. Simpson, R.J., Zhang, J-G., Dorow, D.S., Reid, G.E., MORITZ, R.L., and Tu, G-F. (1996) Identification of Truncated E. coli-expressed proteins with a novel C-terminal 10Sa RNA Decapeptide Extension. In: “Techniques in Protein Chemistry VII” (Marshak, D.R., Ed.), Academic Press, San Diego, pp. 481-492.


  1. Lackmann, M., Bucci, T., Mann, R.J., Kravets, L.A., Viney, E., Smith, F., MORITZ, R.L., Carter, W., Simpson, R.J., Nicola, N.A., Mackwell, K., Nice, E.C., Wilks, A.F., and Boyd, A.W. (1996) Purification of a ligand for the Eph-like receptor HEK using a novel biosensor-based affinity detection approach. Natl. Acad. Sci. U.S.A. 93: 2523-2527.


  1. King, C., Simpson, R.J., MORITZ, R.L., Reid, G., Thompson, P.J., and Stewart, G.A. (1996) The isolation and characterisation of a novel collagenolytic serine protease allergen (Der p9) from the dust mite dermatophagoides pteronyssinus. Allergy Clin. Immunol. 98(4): 739-747.


  1. Ward, L.D., Hammacher, A., Howlett, G.J., Matthews, J.M.., Fabri, L., MORITZ, R.L., Nice, E.C., Weinstock, J., and Simpson, R.J. (1996). Influence of Interleukin-6 (IL-6) dimerization on formation of the high-affinity hexameric IL-6 receptor complex.  Biol. Chem. 271: 20138-20144.


  1. MORITZ, R.L., Eddes, J.S., Reid, G.E., and Simpson, R.J. (1996) S-pyridylethylation of intact polyacrylamide gels and in situ digestion of electrophorectically-separated proteins: A rapid mass spectrometric method for identifying cysteine-containing peptides.  17: 907-917


  1. Hodder, A.N., Crewther, P.E., Matthew, M.L.S.M., Reid, G.E., MORITZ, R.L., Simpson, R.J., Anders, R.S. (1996) The disulfide bond structure of Plasmodium apical antigen-1.  Biol. Chem. 271: 29466-29452.


  1. Simpson, R.J., Reid, G.E., MORITZ, R.L., Ward, L.D., (1996) Protein and Peptides, Isolation for Sequence of. In Encyclopedia of Molecular Biology and Molecular Medicine. pp. 173-185


  1. Egerton, M., MORITZ, R.L., Druker, B., and Simpson, R.J. (1996) Identification of the 70KD heat shock cognate protein (Hsc70) and a-actinin-1 as novel phosphotyrosine-containing proteins in T lymphocytes. Biophys. Res. Commun.  224: 666-674.


  1. Catimel, B., Ritter, G., Old, L.J., Cohen, L., Nerrie, M., White, S., Heath, J., Demediuk, B., Domagala, T., Flegg, R., Lee, F.T., Scott, A.M., Hong, J., Moritz, R.L., Simpson, R.J., Burgess, A.W., and Nice E.C. (1996) Purification and characterisation of a novel differentiation marker for normal and transformed colonic epithelium. Biol. Chem. 271: pp 25664-25670.


  1. Rasmussen R.K., Ji H., Eddes, J.S., MORITZ, R.L., Reid, G.E., Simpson, R.J. (1997) Two-dimensional electrophoretic analysis of human breast carcinoma proteins: Mapping of proteins that bind to the SH3 domain of mixed lineage kinase MLK2.  18: pp 588-598.


  1. Ji H., Reid, G.E., MORITZ, R.L., Eddes, J.S., Burgess, A.W., Simpson, R.J. (1997) A two-dimensional gel database of human colon carcinoma proteins.  Electrophoresis  18: pp 605-613.


  1. Ji H., MORITZ, R.L., Reid, G.E., Ritter, G., Catimel, B., Nice E.C., Heath, J.K., White, S.J., Welt, S., Old, L.J., Burgess, A.W., and Simpson, R.J. (1997) Electrophoretic analysis of the novel antigen for the gastrointestinal-specific monoclonal antibody, A33.  Electrophoresis  18: pp 614-621.


  1. Zhang, J-G., Hilton, D.J., Willson, T.A., McFarlane, C., Roberts, B.A., MORITZ, R.L., Simpson, R.J., Alexander, W.A., Metcalf, D., Nicola, N.A. (1997) Identification, purification and characterization of a soluble IL-13-binding protein: Evidence that it is distinct from the cloned IL-13 receptor and IL-4 receptor a-chains.  Biol. Chem.  272,  pp 9474-9480.


  1. Tong, D., MORITZ, R.L., Eddes, J.S., Reid, G.E., Rasmussen, R.K., Dorow, D.S., Simpson, R.J. (1997) Fabrication of stable packed capillary reversed-phase columns for protein structural analysis.  Prot. Chem.  16(5)  pp 425-431.


  1. Heath, J.K., White, S.J., Johnstone, C.N., Catimel, B., Simpson, R.J., MORITZ, R.L., Tu, G-F., Ji, H., Whitehead, R.H., Groenen, L.C., Scott, A.M., Ritter, G., Cohen, L., Welt, S., Old, L.J., Nice, E.C., Burgess, A.W. (1997) The human A33 antigen is a transmembrane glycoprotein and a novel member of the immunoglobulin superfamily.  Natl. Acad. Sci. U.S.A.  94,  pp 469-474.


  1. Hammacher, A., Reid, G.E., MORITZ, R.L. and Simpson, R.J. (1997) Identification and characterisation of recombinant murine interleukin-6 with a C-terminal pentapeptide extension using capillary reversed phase HPLC-MS and Edman degradation.  Chrom.  11 (6),  pp 337-342.


  1. Holmes, M.L., Scopes, R.K., Moritz, R.L., SIMPSON, R.J., Englert, C., Pfeifer, F., Dyall-Smith, M.L. (1997) Purification and analysis of an extremely halophilic b-galactosidase from Haloferax alicantei   Biochimica et Biopysica Acta  1337: 276-286.


  1. Ritter, G., Moritz, R.L., Ji, H., Cohen, L.C., Nice, E.C., Catimel, B., Heath, J.K., White, S.J., Welt, S., Burgess, A.W., Old, L.J., and SIMPSON, R.J. (1977) Characterisation of post-translational modifications of human A33 antigen, a novel palmitoylated surface glcoprotein of human gastrointestinal epithelium.  Biophys. Res. Commun236:682-686.


  1. Moritz, R.L., Ritter, G., Catimel, B., Cohen, L.S., Welt, S., Old, L.J., Burgess, A.W., Nice, E.C. and Simpson, R.J. (1998) Microsequencing strategies for the human A33 antigen, a novel surface glycoprotein of human gastrointestinal epithelium. Chromatogr. 798:91-101.


  1. Rasmussen, R. K., Ji, H., Eddes, J.S., Moritz, R.L., Reid, G.E., Simpson, R.J., and Dorow, D.S. (1998) Two-dimensional electrophoretic analysis of mixed lineage kinase 2 N-terminal domain binding proteins. Electrophoresis 19: 809-817.


  1. Chataway, T.K., Whittle, A.M., Lewis, M.D., Bindloss, C.A., Moritz R.L., Simpson, R.J., Hopwood, J.J., and Meikle, P.J. (1998) Development of a two-dimensional gel electrophoresis database of human lysosomal proteins. Electrophoresis 19:834-836.


  1. Ford, C.M., Paltridge, N.G., Rathjen, J. P., Moritz, R.L., Simpson, R.J. and Symons, R.H. (1998)  Rapid and informative assays for Yd2, the barley yellow dwarf virus resistance gene, based on the nucleotide sequence of a closely linked gene.  Breeding  4:23-31.


  1. Grover, P.K., Moritz, R.L., Simpson, R.J. and Ryall, R.L. (1998) Inhibition of growth and aggregation of calcium oxalate crystals in vitro.  A comparison of four human proteins.  J. Biochem.  253:637-644.


  1. Chataway, T.K., Whittle, A. M., Lewis, M.D., Bindloss, C.A., Davey, R.C.A., Moritz, R.L., Simpson, R.J., Hopwood, J.J., and Meikle, P.J. (1998)  Two-dimensional mapping and microsequencing of lysosomal proteins from human placenta.  Placenta  19:643-654


  1. Zhang, J-G., Zhang, Y., Owczarek, M., Ward, L.D., Moritz, R.L., Simpson, R.J., Yasukawa, K., and Nicola, N.A. (1998) Identification and characterisation of two distinct truncated forms of gp130 and a soluble form of leukemia inhibitory factor receptor a-chain in normal human urine and plasma.  Biol. Chem. 273:10798-10805.


  1. Zhang, J.G., Farley, A., Nicholson, S.E., Willson, T.A., Zugaro, L.M., Simpson, R.J., Moritz, R.L., Cary, D., Richardson, R., Hausmann, G., Kile, B.J., Kent, S.B., Alexander, W.S., Metcalf, D., Hilton, D.J., Nicola, N.A., Baca, M. (1999) The conserved SOCS box motif in suppressors of cytokine signaling binds to elongins B and C and may couple bound proteins to proteasomal degradation. Nat.Acad. Sci 96:2071-2076.


  1. Cole, A. R., Hall, N. E., Eddes, J. S., Reid, G. E.,., Treutlein, H. Moritz, R. L and Simpson, R. J. (1999)  Disulfide Bond Structure and N-Glycosylation Sites of the Extracellular Domain of the Human Interleukin-6 Receptor.    Biol. Chem. 274:7207-7215.


  1. Moritz, R. L. and Simpson, R. J. (1999)    In: The Encyclopedia of Molecular Biology (Creighton, TE ed.), John Wiley and Sons, New York , pp1293-1296.


  1. Moritz, R. L., Ward, L. D., Tu, G-F, Fabri, L. J., Ji, H. Yasukawa, K. and Simpson, R.J. (1999)  The N-terminus of gp130 is critical for the formation of the high affinity interleukin-6 receptor.  Growth Factors.  16:265-278.


  1. Castellanos-Serra, L., Proenza, W., Huerta, V., Moritz, R.L. and Simpson, R.J. (1999)  Proteome Analysis of Polyacrylamide Gel Separated Proteins Visualized by Reversible Negative Staining using Imidazole-Zinc Salts. Electrophoresis 20:732-737


  1. Castellanos-Serra, L., Hardy, E., Proenza, W., Huerta, V., Javier-Gonzalez, L., La Caer, J-P., Moritz, R.L. and Simpson, R.J. (1999)  Reversible negative staining of protein on electrophoresis gels by Imidazole-Zinc salts: Micropreparative applications to proteiome analysis by mass spectrometry. In Methods in Protein Sequence analysis, R-M Kamp, Ed., In press


  1. Stacker, S.A., Stenvers, K., Caesar C., Vitali, A., Domagala, T., Nice, E., Roufaail, S., Simpson, R.J., MORITZ, R.L., Karpanen, T., Alitalo, K., and Achen, M.G. (1999) Biosynthesis of vascular endothelial growth factor-D involves proteolytic processing which generates non-covalent homodimers. Biol. Chem. 274:32127-32136.


  1. Simpson, R.J. Connolly, L.M., Eddes, J.S., Pereira, J.J., MORITZ, R.L. and Reid, G.E. (2000) Proteomic analysis of the human colon carcinoma cell line (LIM 1215): Development of a membrane protein database. Electrophoresis. 21:1707-1732.


  1. Verhagen, A., Ehert, P.G., Silke, J., Pakusch, M., Connolly, L.M., Reid, G.E., MORITZ, R.L., Simpson, R.J., and Vaux, D.L. (2000) Identification of DIABLO, a mammalian protein that promotes apoptosis by binding to an antagonizing inhibitor of apoptosis (IAP) protein. Cell. 102:43-53.


  1. Pouliot, N., Connolly, L.M., MORITZ, R.L., Simpson, R.J., and Burgess, A.W. (2000)  Colon cancer cells adhesion and spreading  on autocrime laminin-10 is mediated by multiple integrin receptors and modulated by EGF receptor stimulation.  Experimental Cell Research261:360-371.


  1. MORITZ, R.L., Hall N.E., Connolly L.M., and Simpson, R.J. (2001)  Determination of the disulfide structure and N-glycosylation sites of the extracellular domain of the human signal transducer gp130.  J Biol Chem.  276: 8244-8253.


  1. Hoffmann, P., Ji, H., MORITZ, R.L., Connolly, L.M., Frecklington, D.F., Layton, M.J. Eddes, J.S. and Simpson, R.J. (2001) Continuous free-flow electrophoresis separation of cytosolic proteins from the human colon carcinoma cell line LIM 1215: a non two-dimensional gel electrophoresis-based proteome analysis strategy.  Proteomics  1: 807-818.


  1. Verhagen, A.M., Silke, J., Ekert, P.G., Pakusch, M., Kaufmann, H., Connolly, L.M., Day, C.L., Tikoo, A., Burke, R., Wrobel, C., Moritz R.L., Simpson, R.J., Vaux, D.L. (2002)  HtrA2 promotes cell death through its serine protease activity and its ability to antagonize inhibitor of apoptosis proteins.  J Biol Chem.  277: 445-454.


  1. Mathaba, L.T., Pope, C.H., Lenzo, J., Hartofillis, M., Peake, H., Moritz, R.L., Simpson, R.J., Bubert, A., Thompson, P.J., Stewart, G.A. Isolation and characterisation of a 13.8-kDa bacteriolytic enzyme from house dust mite extracts: homology with prokaryotic proteins suggests that the enzyme could be bacterially derived. (2002)  FEMS Immunol. Med. Microbiol. 33: 77-88.


  1. Varghese, J.N., Moritz, R.L., Lou, M-Z, vanDonkelaar, A., Ji, H., Ivancic, N., Branson, K.M., Hall, N.E., Simpson, R.J. Structure of the extra-cellular domains of the human Interleukin-6 Receptor a  (2002)  Proc. Natl. Acad. Sci. U.S.A.  99,  pp 15959-15964.


  1. Eddes S.J., Kapp E.A., Frecklington D.F., Connolly L.M., Layton M.J., Moritz R.L., Simpson R.J. Chomper: A bioinformatic tool for rapid validation of MS/MS search results associated with high-throughput proteomic strategies. (2002)  Proteomics  2,  pp 1097–1103.


  1. McColl B.K., Baldwin M.E., Roufail S., Freeman C., Moritz, L., Simpson R.J., Alitalo K., Stacker S.A., Achen M.G. Plasmin activates the lymphangiogenic growth factors VEGF-C and VEGF-D.  (2003)  J. Exp Med. 198, pp863-868.


  1. Hodder A.N., Drew D.R., Epa V.C., Delorenzi M., Bourgon R., Miller S.K., Moritz R.L., Frecklington D.F., Simpson R.J., Speed T.P., Pike R.N., Crabb B.S. Enzymic, phylogenetic and structural characterization of the unusual papain-like protease domain of Plasmodium falciparum SERA5.  (2003)  J Biol Chem. 278, pp 48169-48177.


  1. Kapp E.A., Schütz, F., Reid, G.E., Eddes J.S.., Moritz, R.L., O’Hair, R.A.J., Speed, T.P. and Simpson R.J Mining a Tandem Mass Spectrometry Database To Determine the Trends and Global Factors Influencing Peptide Fragmentation.  (2003)  Chem., 75,  pp 6251-6264.


  1. MORITZ, R.L., Hong, Ji., and Simpson, R.J. Preparative two-dimensional liquid based proteomic separations using Free-Flow electrophoresis and reversed-phase high performance liquid chromatography. (2003)  Mol Cell. Proteomics.  2: 817.


  1. McColl B., Baldwin M., Roufail S., Freeman C., Moritz R.L., Simpson R.J., Alitalo K., Stacker S., Achen M.G. VEGF-D: A molecular regulator of lymphangiogenesis. (2003)  Suppl. 4.  pp 90.


  1. Carr, C.D. and Moritz, R.L. Role of Reversed-phase High-Performance Liquid Chromatography in Protein Isolation and Purification. (2004) In: ‘Purifiying Proteins for Proteomics: A Laboratory Manual’ (Simpson, R.J. Ed.) Cold Spring Harbor Laboratory Press, pp 179-208.


  1. Brockelhurst, K., Courey, A.J., Gul, S., Lin, S-H. and Moritz, R.L., Affinity and Immunoaffinity chromatography. (2004) In: ‘Purifiying Proteins for Proteomics: A Laboratory Manual’ (Simpson, R.J. Ed.) Cold Spring Harbor Laboratory Press, pp 221-274.


  1. Moritz, R.L., Ji, H., Schütz, F., Connolly, L.M. Kapp E.A., Speed, T.P. and Simpson R.J A Proteome fractionation strategy using continuous free-flow electrophoresis coupled off-line to rapid reversed-phase high-performance liquid chromatography.  (2004)  Chem., 76,  pp 4811-4824.


  1. Hoffmann, P., Olayioye, M.A., MORITZ, R.L., Lindeman, G.J., Visvader, J.E. Simpson, R.J and Kemp, B.E. Low abundance breast cancer protein StarD10 identified by 3-dimensional separation using free flow electrophoresis, RP-HPLC and SDS-PAGE.  (2005)  Proteomics  6,  pp 1029–1037.


  1. Moritz, R.L., Ji, H., Clippingdale, A., Gilbert, S., Connolly, L.M., Eddes, J.S., Kapp E.A. and Simpson R.J Analysis of HUPO NIBSC plasma proteome using a fractionation strategy with continuous free-flow electrophoresis coupled off-line to rapid reversed-phase high-performance liquid chromatography.  (2005)    5, pp 3402-3413.


  1. MORITZ, R.L., Skandarajah, A.R., Ji, H. and Simpson, R.J. Proteomic analysis of colorectal cancer: prefractionation strategies using two-dimensional Free-Flow electrophoresis.  (2005) Comp. Funct. Genomics  6,  pp 236-243.



  1. MORITZ, R.L. and Simpson, R.J. Free-flow electrophoresis coupled off-line to rapid reversed phase high-performance liquid chromatography: A Proteomic tool for fractionating proteins and peptides.  (2005) Nature Methods. 2 (11) 863-873.


  1. Omenn, G.S., States, D.J., Adamski, M., Blackwell, T.W., Menon, R., Hermjakob, H., Apweiler, R., Haab, B.B., Simpson, R.J., Eddes, J.S., Kapp, E.A., MORITZ, R.L., Chan, D.W., Rai, A.J., Admon, A., Aebersold, R., Eng, J., Hancock, W.S., Hefta, S.A., Meyer, H., Paik, Y-K., Yoo, J-S., Ping, P., Poiunds, J., Adkins, J., Qian, X., Wang, R., Wasinger, V., Wu, C.Y., Zhao, X., Zeng, R., Archakov, A., Tsugita, A., Beer, I., Pandey, A., Pisano, M., Andrew, P., Tammen, H., Speicher, D.W., & Hanash, S.M. Overview of the HUPO Plasma Proteome Project:  Results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database.  (2005)  Proteomics 5 (13) 3226-3245.


  1. Skandarajah A.R., MORITZ R.L., Tjandra J.J., Simpson R.J. Proteomic analysis of colorectal cancer: discovering novel biomarkers.  (2005)  Expert Rev. Proteomics;2 (5): 681‑692.


  1. Gilson P.R., Nebl T., Vukcevic D., Moritz R.L., Sargeant T., Speed T.P., Schofield L., Crabb B.S. Identification and stoichiometry of glycosylphosphatidylinositol-anchored membrane proteins of the human malaria parasite Plasmodium falciparum.  (2006)  Mol Cell Proteomics. 5 (7): 1286-1299.


  1. Sanders P.R., Cantin, G.T., Greenbaum, D.C. Nebl T., Moritz R.L., Yates, J.R. 3rd, Hodder, T.N. and Crabb B.S. Identification of high molecular weight complexes on the surface of Plasmodium falciparum merozoites reveals an oligomeric form of MSP-1.  (2007)  Mol Biochem Parasitol.  154, (2),: 148-157  PMID: 17553576.


  1. Ji, H., Moritz, R.L., Kim, Y-S., Zhu, H-J. and Simpson R.J. Analysis of Ras-induced oncogenic transformation of NIH-3T3 cells using differential-display 2-DE proteomics.  (2007)    28 (12): 1997-2008  PMID: 17526045.


  1. Greening D.W., Glenister K.M., Kapp, E.A., MORITZ, R.L., Patsiouras H., Sparrow R.L., Lynch G.W. and Simpson, R.J. Proteome analysis of enriched Human platelet membranes: Correlation with the Human plasma proteome.  (2008)  Proteomics Clinical Applications. 2 (1): 63-77  PMID: 21136780.


  1. Ji, H., Erfani, N., Tauro, B.J., Kapp, E.A., Zhu, H-J., Moritz, R.L., Lim, J.W.E., and Simpson R.J. Proteomic analysis of Ras-transformed fibroblast cell-derived exosomes. (2008)    29 (12): 2660-2671  PMID: 18494037.


  1. Simpson R.J., Bernhard, O.K., Greening, D.W. and Moritz, R.L., Proteomics-driven cancer biomarker discovery: looking to the future Curr Opin Chem Biol. (2008) 12 (1): 72-77  PMID: 18295612.


  1. Nebl T., Hodder A.N., Gilson P.R., Richards J., Patsiouras H., Connolly L., MORITZ R.L., Crabb B.S., Beeson J.G., Schofield L.  Comprehensive immuno-proteomic analysis of human antibody responses to Plasmodium falciparum. Int. J. Parasitology (2008)  38,


  1. Boddey, J.A., Moritz, R.L., Simpson R.J and Cowman, A.F. Role of the Plasmodium Export Element in trafficking parasite proteins to the infected erythrocyte.    (Published on Line Dec 4, 2008). 2009: 10: 285–299  PMID: 19055692.


  1. Zhao, Q., Rank, G., Cerruti, L., Zhao, L-L., Moritz R.L., Simpson, R.J, Curtis, D.J., Cunningham, J.M. and Jane, S.M.. The protein methyltransferase PRMT5 directly links histone H4 arginine methylation to DNA methylation and transcriptional silencing.  Nature Struct. Molec. Biol.. (2009)   16: 304-311  PMID: 19234465.


  1. Simpson RJ, Lim JW, MORITZ R.L., Mathivanan S. Exosomes: proteomic insights and diagnostic potential. Expert Rev Proteomics. 2009; 6:267-283 PMID: 19489699.


  1. Mathias RA, Wang B, Ji H, Kapp EA, MORITZ R.L., Zhu HJ, Simpson RJ. Secretome-based proteomic profiling of Ras-transformed MDCK cells reveals extracellular modulators of epithelial-mesenchymal transition. J Proteome Res. 2009; 8:2827-37  PMID: 19296674.


  1. Bell AW, Deutsch EW, Au CE, Kearney RE, Beavis R, Sechi S, Nilsson T, Bergeron JJ; HUPO Test Sample Working Group, Beardslee TA, Chappell T, Meredith G, Sheffield P, Gray P, Hajivandi M, Pope M, Predki P, Kullolli M, Hincapie M, Hancock WS, Jia W, Song L, Li L, Wei J, Yang B, Wang J, Ying W, Zhang Y, Cai Y, Qian X, He F, Meyer HE, Stephan C, Eisenacher M, Marcus K, Langenfeld E, May C, Carr SA, Ahmad R, Zhu W, Smith JW, Hanash SM, Struthers JJ, Wang H, Zhang Q, An Y, Goldman R, Carlsohn E, van der Post S, Hung KE, Sarracino DA, Parker K, Krastins B, Kucherlapati R, Bourassa S, Poirier GG, Kapp E, Patsiouras H, MORITZ R, Simpson R, Houle B, Laboissiere S, Metalnikov P, Nguyen V, Pawson T, Wong CC, Cociorva D, Yates Iii JR, Ellison MJ, Lopez-Campistrous A, Semchuk P, Wang Y, Ping P, Elia G, Dunn MJ, Wynne K, Walker AK, Strahler JR, Andrews PC, Hood BL, Bigbee WL, Conrads TP, Smith D, Borchers CH, Lajoie GA, Bendall SC, Speicher KD, Speicher DW, Fujimoto M, Nakamura K, Paik YK, Cho SY, Kwon MS, Lee HJ, Jeong SK, Chung AS, Miller CA, Grimm R, Williams K, Dorschel C, Falkner JA, Martens L, Vizcaíno JA. A HUPO test sample study reveals common problems in mass spectrometry-based proteomics. Nat Methods. 2009 6, 423-430 PMID: 19448641.


  1. Ji, H., Greening, D.W., Kapp, E.A., Moritz, R.L., and Simpson R.J. Secretome-based proteomics reveals sulindac-modulated proteins released from colon cancer cells. (2009)  Proteomics Clinical Applications.  3 (4): 433-451  PMID: 21136970.


  1. Mathivanan, S., Lim, J.W.E., Tauro, B.J., Ji, H., MORITZ, R.L., and Simpson, R.J. Proteomic and bioinformatic analyses of immunoaffinity-purified exosomes derived from the human colon tumor cell line LIM1215. (2010)  Cell. Proteomics.  9 (2) 197-208 PMID: 19837982.


  1. Mathias, R.A., Wang, B., Ji, H., Kapp, E.A., MORITZ, R.L., Zhu, H-J & Simpson, R.J. Extracellular remodelling during oncogenic Ras-induced epithelial-mesenchymal transition facilitates MDCK cell migration. (2010)   Proteome Res.  9 (2) 1007-1019, PMID: 19954229.


  1. Saleem RA, Rogers RS, Ratushny AV, Dilworth DJ, Shannon PT, Shteynberg D, Wan Y, MORITZ RL, Nesvizhskii AI, Rachubinski RA, Aitchison JD.  Integrated phosphoproteomic analysis of a signaling network governing nutrient response and peroxisome induction.  Mol Cell Proteomics. 2010 9: 2076-2088. PMID: 20395639


  1. Rank G, Cerruti L, Simpson RJ, MORITZ RL, Jane SM, Zhao Q. Identification of a PRMT5-dependent repressor complex linked to silencing of human fetal globin gene expression.  2010 116: 1585-1592. PMID: 20495075


  1. Chen, Y-S., Mathias, R.A., Mathivanan, S., Kapp, E.A., MORITZ, R.L., Zhu, H-J & Simpson, R.J.  Proteomic profiling of MDCK plasma membranes reveals Wnt-5a involvement during oncogenic H-Ras/TGF-β-mediated epithelial-mesenchymal transition. (2011)   Cell. Proteomics.  2010 May 28. [Epub ahead of print]. PMID: 20511395


  1. Kusebauch, U., McBee, J., Bletz, J., Simpson R.J. and Moritz, R.L. Peptide purification by Reversed-Phase Chromatography. (2011) Amino Acids, Peptides and Proteins in Organic Chemistry, (Wiley-VCH)  ISBN: 978-3-527-32102-5.


  1. Ramos H, Shannon P, Brusniak MY, Kusebauch U, MORITZ R.L., Aebersold R. The Protein Information and Property Explorer 2: Gaggle-like exploration of biological proteomic data within one webpage.  2011 11: 154-158, PMID: 21136507.


  1. Chung,T.W., Moss, C.L., Zimnicka, M., Johnson, R.S., MORITZ R.L. and Tureček, F. Electron-capture and -transfer dissociation of peptides tagged with tunable fixed-charge groups: Structures and dissociation energetic.  Am. Soc. Mass Spec.  2011,  22:13-30  PMID: 21472540.


  1. Brusniak, M-Y.K., Kwok, S-T., Christiansen, M., Campbell, D., Reiter, L., Picotti, P., Kusebauch, U., Ramos, H., Deutsch, E.W., Chen, J., MORITZ R.L. and Aebersold, R. ATAQS: A Computational Software Tool for High Throughput Transition Optimization and Validation for Selected Reaction Monitoring Mass Spectrometry.  BMC Bioinformatics.  2011; 12:78  PMID: 21414234.


  1. Mathias R.A., Chen Y-S., Goode R.J., Kapp E.A., Mathivanan S., MORITZ R.L., Zhu H‑J, Simpson R.J. Tandem application of cationic colloidal silica and Triton X-114 for plasma membrane protein isolation and purification: Towards developing an MDCK protein database.  2011 11 :1238-1253.  PMID: 21337516


  1. Friedman DB, Andacht TM, Bunger MK, Chien AS, Hawke DH, Krijgsveld J, Lane WS, Lilley KS, Maccoss MJ, MORITZ R.L., Settlage RE, Sherman NE, Weintraub ST, Witkowska HE, Yates NA, Turck CW. The ABRF Proteomics Research Group Studies: Educational exercises for qualitative and quantitative proteomic analyses.  2011 ;11 :1371-1381 PMID: 21394914.


  1. Farrah T, Deutsch EW, Omenn GS, Campbell DS, Sun Z, Bletz JA, Mallick P, Katz JE, Malmstrom J, Ossola R, Watts JD, Lin B, Zhang H, MORITZ RL*, Aebersold RH*. (*Equal senior author) A high-confidence human plasma proteome reference set with estimated concentrations in PeptideAtlas. Mol Cell Proteomics. 2011 Jun 1, PMID: 21632744.


  1. Shteynberg, D., Deutsch, E.W., Lam, H., Eng, J.K., Sun, Z., Tasman, T. Mendoza,L. MORITZ R.L., Aebersold, R. and Nesvizhskii, A.I. iProphet: Improved statistical validation of peptide identifications in shotgun proteomics.  Mol Cell Proteomics. 2011 Aug 29. [Epub ahead of print]


  1. Yoon SH, Reiss DJ, Bare JC, Tenenbaum D, Pan M, Slagel J, MORITZ RL, Lim S, Hackett M, Menon AL, Adams MW, Barnebey A, Yannone SM, Leigh JA, Baliga NS. Parallel evolution of transcriptome architecture during genome reorganization.  Genome Res. 2011 Sep 15. [Epub ahead of print]


  1. Helsens K, Brusniak MY, Deutsch E, MORITZ RL, Martens L. jTraML: An open source java API for TraML, the PSI standard for sharing SRM transitions.  J Proteome Res. 2011 Nov 4;10(11):5260-3. Epub 2011 Oct 13.


  1. Swearingen, K.E., Hoopmann, M.R., Johnson, R.S., Saleem, R.A., Aitchison, J.D. and MORITZ RL. Nanospray FAIMS fractionation provides significant increases in proteome coverage of unfractionated complex protein digests.  Mol Cell Proteomics. 2011 Dec 20. [Epub ahead of print]. 2012 Apr;11(4):M111.014985.


  1. Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, MORITZ RL, Omenn GS, Orlando R, Pandey A, Ping P, Rahbar A, Rivers R, Seymour SL, Simpson RJ, Slotta D, Smith RD, Stein SE, Tabb DL, Tagle D, Yates JR 3rd, Rodriguez H. Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam principles). Mol Cell Proteomics. 2011 Dec;10(12):O111.015446. Epub 2011 Nov 3.


  1. Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, MORITZ RL, Omenn GS, Orlando R, Pandey A, Ping P, Rahbar A, Rivers R, Seymour SL, Simpson RJ, Slotta D, Smith RD, Stein SE, Tabb DL, Tagle D, Yates JR 3rd, Rodriguez H. Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam principles). J Proteome Res. 2011 Dec 8. [Epub ahead of print]  PMID: 22053864.


  1. Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, MORITZ RL, Omenn GS, Orlando R, Pandey A, Ping P, Rahbar A, Rivers R, Seymour SL, Simpson RJ, Slotta D, Smith RD, Stein SE, Tabb DL, Tagle D, Yates JR 3rd, Rodriguez H. Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam principles). Proteomics. 2012 Jan;12(1):11-20. doi: 10.1002/pmic.201100562. Epub 2011 Dec 14.  PMID: 22069307.


  1. Kinsinger CR, Apffel J, Baker M, Bian X, Borchers CH, Bradshaw R, Brusniak MY, Chan DW, Deutsch EW, Domon B, Gorman J, Grimm R, Hancock W, Hermjakob H, Horn D, Hunter C, Kolar P, Kraus HJ, Langen H, Linding R, MORITZ RL, Omenn GS, Orlando R, Pandey A, Ping P, Rahbar A, Rivers R, Seymour SL, Simpson RJ, Slotta D, Smith RD, Stein SE, Tabb DL, Tagle D, Yates JR 3rd, Rodriguez H. Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam principles). Proteomics Clin Appl. 2011 Dec;5(11-12):580-9. doi: 10.1002/prca.201100097. PMID: 22213554


  1. Bislev SL, Kusebauch U, Codrea MC, Beynon RJ, Harman VM, Røntved CM, Aebersold R, MORITZ RL, Bendixen E. Quantotypic properties of QconCAT peptides targeting bovine host response to Streptococcus uberis J Proteome Res. 2012 Jan 19. [Epub ahead of print] PMID: 22256911.


  1. Gold, E.S., Ramsey S.A., Sartain M.J., Selinummi J., Podolsky I., Rodriguez D.J., MORITZ, RL, and Aderem, A.. ATF3 protects against atherosclerosis by suppressing 25-hydroxycholesterol-induced lipid body formation.  Exp. Med. 2012, Apr 9; 209(4):807-817.


  1. Farrah T, Deutsch EW, Kreisberg R, Sun Z, Campbell DS, Mendoza L, Kusebauch U, Brusniak MY, Hüttenhain R, Schiess R, Selevsek N, Aebersold R, and MORITZ, RL. PASSEL: The PeptideAtlas SRM Experiment Library.  2012 Feb 9. doi: 10.1002/pmic.201100515. [Epub ahead of print] 12:1170-1175.  .


  1. Hoopmann, M.R., MacCoss, M.J. and MORITZ, R.L. Identification of peptide features in precursor spectra using Hardklör and Krönik.  Curr Protoc Bioinformatics. 2012 Mar;Chapter 13:Unit13.18.  PMID: 22389013.


  1. Qin, S., Zhou, Y., Lok, A., Tsodikov, A., Yan, X., Gray, L., Yuan, M., MORITZ, RL, Galas, D. Omenn, G.S. and Hood, L. SRM targeted proteomics in search for biomarkers of HCV-induced progression of fibrosis to Cirrhosis in HALT-C patients. Proteomics 2012, Apr;12(8):1244-52. doi: 10.1002/pmic.201100601. PMID: 22577025.


  1. Brusniak, M.Y., Chu, C.S., Kusebauch, U., Sartain, M.J., Watts, J.D. and MORITZ, R.L. An assessment of current bioinformatic solutions for analyzing LC-MS data acquired by selected reaction monitoring technology Proteomics. 2012 Apr;12(8):1176-84. doi: 10.1002/pmic.201100571.  PMID: 22577019


  1. Hüttenhain, R., Soste, M., Selevsek, N., Röst, H., Sethi, A., Carapito, C., Farrah, T., Deutsch, E.W., MORITZ, RL,, Rinner, O. and Aebersold, R. A Mass Spectrometric Map for Cancer-Associated Proteins and their Detectability in Human Plasma and Urine.  Sci Transl Med. 2012 Jul 11;4(142):142ra94.  PMID: 22786679.


  1. Xu, Z., He, Y., Ju, J., Rank, G., Cerruti, L., Ma, C., Simpson, R.J., MORITZ, R.L., Jane, S. and Zhao, Q. The role of WDR5 in silencing human fetal globin gene expression. Haematologica. 2012, 97(11) Jun 11, [Epub ahead of print]  PMID: 22689669.


  1. Hood, L.E., Omenn, G.S., MORITZ, R.L., Aebersold, R., Yamamoto, K., Amos, M., Hunter-Cevera, J., Locascio, L.; and Workshop Participants. New and improved proteomics technologies for understanding complex biological systems: Addressing a grand challenge in the life sciences.  2012 Jul 16. doi: 10.1002/pmic.201270086. [Epub ahead of print] PMID: 2280706.


  1. Vidal, M., Chan D.W., Gerstein M., Mann M., Omenn G.S., Tagle D., Sechi S., Apweiler R., Bader J., Barnes S., Bettauer R., Chan M.M., Coon J., Dolinski K., Dowell B.L., Edmonds C.G., Gaudet S., Gerszten R., Kagan J., Mazurchuk R., McShane L., MORITZ R.L., Palmer-Toy D., Pandey A., Polanski M., Quackenbush J., Sheeley D., Skates S., Srivastava S., Wang W., Weng Z., and White F. The human proteome – a scientific opportunity for transforming diagnostics, therapeutics, and healthcare. Clin. Proteomics. 2012 May 14;9(1):6. PMID: 22583803.


  1. Bislev SL, Deutsch EW, Sun Z, Farrah T, Aebersold R, MORITZ, R.L., Bendixen E, Codrea MC. A Bovine PeptideAtlas of milk and mammary gland proteomes Proteomics. 2012 Jul 26. doi: 10.1002/pmic.201200057. [Epub ahead of print]  PMID: 22837157.


  1. Chambers MC, Maclean B, Burke R, Amodei D, Ruderman DL, Neumann S, Gatto L, Fischer B, Pratt B, Egertson J, Hoff K, Kessner D, Tasman N, Shulman N, Frewen B, Baker TA, Brusniak MY, Paulse C, Creasy D, Flashner L, Kani K, Moulding C, Seymour SL, Nuwaysir LM, Lefebvre B, Kuhlmann F, Roark J, Rainer P, Detlev S, Hemenway T, Huhmer A, Langridge J, Connolly B, Chadick T, Holly K, Eckels J, Deutsch EW, MORITZ, R.L., Katz JE, Agus DB, Maccoss M, Tabb DL, Mallick P.  A cross-platform toolkit for mass spectrometry and proteomics.  Nat Biotechnol. 2012 Oct 10;30(10):918-20. doi: 10.1038/nbt.2377. PMID: 23051804


  1. Hoopmann MR and MORITZ R.L. Current algorithmic solutions for peptide-based proteomics data generation and identification.  Curr Opin Biotechnol. 2012 Nov 8. [Epub ahead of print] PMID: 23142544.


  1. Swearingen KE, MORITZ RL. High-field asymmetric waveform ion mobility spectrometry for mass spectrometry-based proteomics. Expert Rev Proteomics. 2012 Oct;9(5):505-17. doi: 10.1586/epr.12.50. PMID: 23194268.


  1. Farrah T, Deutsch EW, Hoopmann MR, Hallows JL, Sun Z, Huang CY, MORITZ RL. The state of the human proteome in 2012 as viewed through PeptideAtlas. J Proteome Res. 2013 Jan 4;12(1):162-71. doi: 10.1021/pr301012j. Epub 2012 Dec 5. PMID: 23215161


  1. Lewis S, Csordas A, Killcoyne S, Hermjakob H, Hoopmann MR, MORITZ RL, Deutsch EW, Boyle J. Hydra: a scalable proteomic search engine which utilizes the Hadoop distributed computing framework. BMC Bioinformatics. 2012 Dec 5;13:324. doi: 10.1186/1471-2105-13-324. PMID: 23216909.


  1. Lindner SE, Swearingen KE, Harupa A, Vaughan AM, Sinnis P, MORITZ RL, Kappe SH. Total and putative surface proteomics of malaria parasite salivary gland sporozoites. Mol Cell Proteomics. 2013 May;12(5):1127-43. doi: 10.1074/mcp.M112.024505. Epub 2013 Jan 16. PMID: 23325771.


  1. Picotti P, Clément-Ziza M, Lam H, Campbell DS, Schmidt A, Deutsch EW, Röst H, Sun Z, Rinner O, Reiter L, Shen Q, Michaelson JJ, Frei A, Alberti S, Kusebauch U, Wollscheid B, MORITZ RL, Beyer A, Aebersold R. A complete mass-spectrometric map of the yeast proteome applied to quantitative trait analysis. Nature. 2013 Feb 14;494(7436):266-70. doi: 10.1038/nature11835. Epub 2013 Jan 20. PMID: 23334424.


  1. Hüttenhain R, Surinova S, Ossola R, Sun Z, Campbell D, Cerciello F, Schiess R, Bausch-Fluck D, Rosenberger G, Chen J, Rinner O, Kusebauch U, Hajdúch M, MORITZ RL, Wollscheid B, Aebersold R. N-Glycoprotein SRMAtlas: A Resource Of Mass Spectrometric Assays For N-Glycosites Enabling Consistent And Multiplexed Protein Quantification For Clinical Applications. Mol Cell Proteomics. 2013 Apr;12(4):1005-16. doi: 10.1074/mcp.O112.026617. Epub 2013 Feb 13. PMID: 23408683.


  1. Sun B, Utleg AG, Hu Z, Qin S, Keller A, Lorang C, Gray L, Brightman A, Lee D, Alexander VM, Ranish JA, MORITZ RL, Hood L. Glycocapture-Assisted Global Quantitative Proteomics (gagQP) Reveals Multiorgan Responses in Serum Toxicoproteome. J Proteome Res. 2013 May 3;12(5):2034-44. doi: 10.1021/pr301178a. Epub 2013 Apr 11. PMID: 23540550.


  1. Tauro BJ, Mathias RA, Greening DW, Gopal SK, Ji H, Kapp EA, Coleman BM, Hill AF, Kusebauch U, Hallows JL, Shteynberg D, MORITZ RL, Zhu HJ, Simpson RJ. Oncogenic H-Ras reprograms Madin-Darby canine kidney (MDCK) cell-derived exosomal proteins following epithelial-mesenchymal transition. Mol Cell Proteomics. 2013 May 3. PMID: 23645497.


  1. Schubert OT, Mouritsen J, Ludwig C, Röst HL, Rosenberger G, Arthur PK, Claassen M, Campbell DS, Sun Z, Farrah T, Gengenbacher M, Maiolica A, Kaufmann SH, MORITZ RL and Aebersold, R. The Mtb proteome library: a resource of assays to quantify the complete proteome of Mycobacterium tuberculosis. Cell Host Microbe. 2013 May 15;13(5):602-12. doi: 10.1016/j.chom.2013.04.008. PMID: 23684311.


  1. Shteynberg D, Nesvizhskii AI, MORITZ RL, Deutsch EW. Combining Results of Multiple Search Engines in Proteomics. Mol Cell Proteomics. 2013 May 29. PMID: 23720762.


  1. Vialas V, Sun Z, Loureiro Y Penha CV, Carrascal M, Abián J, Monteoliva L, Deutsch EW, Aebersold R, MORITZ RL, Gil C. A Candida albicans PeptideAtlas. J Proteomics. 2013 Jun 26. doi:pii: S1874-3919(13)00337-0. 10.1016/j.jprot.2013.06.020. PMID: 23811049.


  1. Moruz L, Hoopmann MR, Rosenlund M, Granholm V, MORITZ RL, Käll L. Mass fingerprinting of complex mixtures: protein inference from high-resolution peptide masses and predicted retention times. J Proteome Res. 2013 Sep 27.] PMID: 24074221.


  1. Yoon SH, Turkarslan S, Reiss DJ, Pan M, Burn JA, Costa KC, Lie TJ, Slagel J, MORITZ RL, Hackett M, Leigh JA, Baliga NS. A systems level predictive model for global gene regulation of methanogenesis in a hydrogenotrophic methanogen.  Genome Res. 2013 Oct 2. PMID: 24089473.


  1. Mercier SK, Donaghy H, Botting RA, Turville SG, Harman AN, Nasr N, Ji H, Kusebauch U, Mendoza L, Shteynberg D, Sandgren K, Simpson RJ, MORITZ RL, Cunningham AL. The microvesicle component of HIV-1 inocula modulates dendritic cell infection and maturation and enhances adhesion to and activation of T lymphocytes  PLoS Pathog. 2013 Oct;9(10):e1003700. doi: 10.1371/journal.ppat.1003700. Epub 2013 Oct 17.PMID: 24204260.


  1. Farrah T, Deutsch EW, Omenn GS, Sun Z, Watts JD, Yamamoto T, Shteynberg D, Harris MM, MORITZ RL. State of the Human Proteome in 2013 as Viewed through PeptideAtlas: Comparing the Kidney, Urine, and Plasma Proteomes for the Biology- and Disease-Driven Human Proteome Project. J Proteome Res. 2013 Dec 6. PMID: 24261998.


  1. Lindner SE, Sartain MJ, Hayes K, Harupa A, MORITZ RL, Kappe SH, Vaughan AM. Enzymes involved in plastid-targeted phosphatidic acid synthesis are essential for Plasmodium yoelii liver stage development. Mol Microbiol. 2013 Dec 11. doi: 10.1111/mmi.12485. PMID: 24330260.


  1. Bundgaard L, Jacobsen S, Sørensen MA, Sun Z, Deutsch EW, MORITZ RL, Bendixen E. The Equine PeptideAtlas – a resource for developing proteomics-based veterinary research. Proteomics. 2014 Jan 16. doi: 10.1002/pmic.201300398. PMID: 24436130.


  1. Carr SA, Abbatiello SE, Ackermann BL, Borchers C, Domon B, Deutsch EW, Grant RP, Hoofnagle AN, Hüttenhain R, Koomen JM, Liebler DC, Liu T, Maclean B, Mani DR, Mansfield E, Neubert H, Paulovich AG, Reiter L, Vitek O, Aebersold R, Anderson L, Bethem R, Blonder J, Boja E, Botelho J, Boyne M, Bradshaw RA, Burlingame AL, Chan D, Keshishian H, Kuhn E, Kinsinger C, Lee JS, Lee SW, MORITZ R, Oses-Prieto J, Rifai N, Ritchie J, Rodriguez H, Srinivas PR, Townsend RR, Van Eyk J, Whiteley G, Wiita A, Weintraub S. Targeted Peptide Measurements in Biology and Medicine: Best Practices for Mass Spectrometry-based Assay Development Using a Fit-for-Purpose Approach.  Mol Cell Proteomics. 2014 Feb 13. PMID: 24443746.


  1. Carpp LN, Rogers RS, MORITZ RL, Aitchison JD. Quantitative proteomic analysis of host-virus interactions reveals a role for GBF1 in dengue infection.  Mol Cell Proteomics. 2014 May 22. pii: mcp.M114.038984. PMID: 24855065.


  1. Kusebauch, U., Ortega, C., Ollodart, A., Rogers, RS., Sherman, DR. MORITZ RL* and Grundner, C*. Mycobacterium tuberculosis supports protein tyrosine phosphorylation. Proc. Nat. Acad. Sci. 2014, 111: pg 9265-70. PMID: 24927537. (*Equal senior author).


  1. Sangar V, Funk CC, Kusebauch U, Campbell DS, MORITZ RL, Price ND. Quantitative proteomic analysis reveals effects of EGFR on invasion-promoting proteins secreted by glioblastoma cells. Mol Cell Proteomics. 2014 Jul 5. pii: mcp.M114.040428. PMID: 24997998.


  1. Kusebauch U, Deutsch EW, Campbell DS, Sun Z, Farrah T, and MORITZ RL. Using PeptideAtlas, SRMAtlas, and PASSEL: Comprehensive Resources for Discovery and Targeted Proteomics. Curr Protoc Bioinformatics. 2014 Jun 17;46:13.25.1-13.25.28. doi: 10.1002/0471250953.bi1325s46. PMID: 24939129.


  1. Surmann K, Michalik S, Hildebrandt P, Gierok P, Depke M, Brinkmann L, Bernhardt J, Salazar MG, Sun Z, Shteynberg D, Kusebauch U, MORITZ RL, Wollscheid B, Lalk M, Völker U, Schmidt F. Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells. Front Microbiol. 2014 Aug 1;5:392. doi: 10.3389/fmicb.2014.00392. eCollection 2014. PMID: 25136337.


  1. .Rosenberger G, Koh CC, Guo T, Röst HL, Kouvonen P, Collins BC, Heusel M, Liu Y, Caron E, Vichalkovski A, Faini M, Schubert OT, Faridi P, Ebhardt HA, Matondo M, Lam H, Bader SL, Campbell DS, Deutsch EW, MORITZ RL, Tate S, Aebersold R. A repository of assays to quantify 10,000 human proteins by SWATH-MS. Nature Sci Data. 2014 Sep 16;1:140031. doi: 10.1038/sdata.2014.31. eCollection 2014. PMID: 25977788.


  1. Tien JF, Umbreit NT, Zelter A, Riffle M, Hoopmann MR, Johnson RS, Fonslow BR, Yates JR 3rd, MacCoss MJ, MORITZ RL, Asbury CL, Davis TN. Kinetochore Biorientation in Saccharomyces cerevisiae Requires a Tightly Folded Conformation of the Ndc80 Complex. 2014 Sep 16. pii: genetics.114.167775. PMID: 25230952.


  1. Muller, EEL, Pinel1, N, Laczny, CC, Hoopmann, MR, Narayanasamy, S, Lebrun, LA, Roume, H, Lin, J, May, P, Hicks, ND, Heintz-Buschart, A, Wampach, L, Liu, CM, Price, LB, Gillece, JD, Guignard, C, Schupp, JM, Vlassis, N, Baliga, NS, MORITZ, RL, Keim, PS and Wilmes, P. Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage. Nature Comm. 2014. DOI: 10.1038/ncomms6603. PMID: 25424998.


  1. Slagel J, Mendoza L, Shteynberg D, Deutsch EW and MORITZ RL. Processing shotgun proteomics data on the Amazon Cloud with the Trans-Proteomic Pipeline. Mol Cell Proteomics. 2014 Nov 23. pii: mcp.O114.043380. PMID: 25418363.


  1. Deutsch EW, Mendoza L, Shteynberg D, Slagel J, Sun Z and MORITZ RL. Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics. Proteomics Clin Appl. 2015 Jan 29. doi: 10.1002/prca.201400164. [Epub ahead of print] PMID: 25631240.


  1. Keller A, Bader SL, Shteynberg D, Hood L and MORITZ RL. Automated Validation of Results and Removal of Fragment Ion Interferences in Targeted Analysis of Data Independent Acquisition MS using SWATHProphet.  Mol Cell Proteomics. 2015 Feb 24. pii: mcp.O114.044917. [Epub ahead of print] PMID: 25713123.


  1. Hoopmann MR, Zelter A, Johnson RS, Riffle M, MacCoss MJ, Davis TN and MORITZ RL Kojak: Efficient Analysis of Chemically Cross-Linked Protein Complexes. J Proteome Res. 2015 Apr 15. [Epub ahead of print]  PMID: 25812159.


  1. Winget JM, Watts JD, Hoopmann MR, DiColandrea T, Robinson MK, Huggins T, Bascom CC, Isfort RJ and MORITZ RL. Quantitative proteogenomic profiling of epidermal barrier formation in vitro.  J Dermatol Sci. 2015 Mar 14. pii: S0923-1811(15)00070-5. [Epub ahead of print] PMID: 25862149.


  1. Deutsch EW, Sun Z, Campbell D, Kusebauch U, Chu CS, Mendoza L, Shteynberg D, Omenn GS, and MORITZ RL. The State of the Human Proteome in 2014/2015 as viewed through PeptideAtlas: enhancing accuracy and coverage through the AtlasProphet.  J Proteome Res. 2015 Jul 3. [Epub ahead of print]  PMID: 26139527.


  1. Caron E, Espona L, Kowalewski DJ, Schuster H, Ternette N, Alpízar A, Schittenhelm RB, Ramarathinam SH, Lindestam Arlehamn CS, Chiek Koh C, Gillet LC, Rabsteyn A, Navarro P, Kim S, Lam H, Sturm T, Marcilla M, Sette A, Campbell DS, Deutsch EW, MORITZ RL, Purcell AW, Rammensee HG, Stevanovic S, Aebersold R. An open-source computational and data resource to analyze digital maps of immunopeptidomes. Elife. 2015 Jul 8;4. doi: 10.7554/eLife.07661. [Epub ahead of print].  PMID: 26154972


  1. Depke M, Michalik S, Rabe A, Surmann K, Brinkmann L, Jehmlich N, Bernhardt J, Hecker M, Wollscheid B, Sun Z, MORITZ RL, Völker U, Schmidt F. A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies. Proteomics. 2015 Jul 30. doi: 10.1002/pmic.201500091. [Epub ahead of print]  PMID: 26224020.


  1. Shteynberg D, Mendoza L, Hoopmann MR, Sun Z, Schmidt F, Deutsch EW, MORITZ RL. reSpect: Software for Identification of High and Low Abundance Ion Species in Chimeric Tandem Mass Spectra.  J Am Soc Mass Spectrom. 2015 Nov;26(11):1837-47. doi: 10.1007/s13361-015-1252-5. Epub 2015 Sep 29.  PMID: 26419769.


  1. Bennett KL, Wang X, Bystrom CE, Chambers MC, Andacht TM, Dangott LJ, Elortza F, Leszyk J, Molina H, MORITZ RL, Phinney BS, Thompson JW, Bunger MK, Tabb DL. The 2012 ABRF Proteomic Research Group Study: Assessing Longitudinal Intra-Laboratory Variability in Routine Peptide Liquid Chromatography Tandem Mass Spectrometry Analyses.  Mol Cell Proteomics. 2015 Oct 4. pii: mcp.O115.051888. [Epub ahead of print]  PMID: 26435129.


  1. Craciun FL, Bijol V, Ajay AK, Rao P, Kumar RK, Hutchinson J, Hofmann O, Joshi N, Luyendyk JP, Kusebauch U, Moss CL, Srivastava A, Himmelfarb J, Waikar SS, MORITZ RL, Vaidya VS. RNA Sequencing Identifies Novel Translational Biomarkers of Kidney Fibrosis. Am Soc Nephrol. 2015 Oct 8. pii: ASN.2015020225. [Epub ahead of print]  PMID: 26449608.


  1. Vialas V, Sun Z, Reales-Calderón JA, Hernáez ML, Casas V, Carrascal M, Abián J, Monteoliva L, Deutsch EW, MORITZ RL, Gil C. A comprehensive Candida albicans PeptideAtlas build enables deep proteome coverage.  J Proteomics. 2015 Oct 19. pii: S1874-3919(15)30162-7. doi: 10.1016/j.jprot.2015.10.019. [Epub ahead of print]  PMID: 26493587.


  1. Zelter A, Bonomi M, Kim JO, Umbreit NT, Hoopmann MR, Johnson R, Riffle M, Jaschob D, MacCoss MJ, MORITZ RL, Davis TN. The molecular architecture of the Dam1 kinetochore complex is defined by cross-linking based structural modelling.  Nat Commun. 2015 Nov 12;6:8673. doi: 10.1038/ncomms9673.  PMID: 26560693


  1. Swearingen KE, Winget JM, Hoopmann MR, Kusebauch U, MORITZ RL. Decreased gap width in a cylindrical FAIMS device improves protein discovery.  Anal Chem. 2015 Nov 11. [Epub ahead of print]  PMID: 26560994


  1. Hesselager MO, Codrea MC, Sun Z, Deutsch EW, Bennike TB, Stensballe A, Bundgaard L, MORITZ RL, Bendixen E. The Pig PeptideAtlas: A resource for systems biology in animal production and biomedicine. Proteomics. 2016 Feb;16(4):634-44. doi: 10.1002/pmic.201500195. PMID: 26699206.


  1. Keller A, Bader SL, Kusebauch U, Shteynberg D, Hood L, MORITZ RL. Opening a SWATH Window on Post-Translational Modifications: Automated Pursuit of Modified Peptides.  Mol Cell Proteomics. 2015 Dec 24. pii: mcp.M115.054478. [Epub ahead of print] PMID: 26704149.


  1. Hoofnagle AN, Whiteaker JR, Carr SA, Kuhn E, Liu T, Massoni SA, Thomas SN, Townsend RR, Zimmerman LJ, Boja E, Chen J, Crimmins DL, Davies SR, Gao Y, Hiltke TR, Ketchum KA, Kinsinger CR, Mesri M, Meyer MR, Qian WJ, Schoenherr RM, Scott MG, Shi T, Whiteley GR, Wrobel JA, Wu C, Ackermann BL, Aebersold R, Barnidge DR, Bunk DM, Clarke N, Fishman JB, Grant RP, Kusebauch U, Kushnir MM, Lowenthal MS, MORITZ RL, Neubert H, Patterson SD, Rockwood AL, Rogers J, Singh RJ, Van Eyk JE, Wong SH, Zhang S, Chan DW, Chen X, Ellis MJ, Liebler DC, Rodland KD, Rodriguez H, Smith RD, Zhang Z, Zhang H, Paulovich AG. Recommendations for the Generation, Quantification, Storage, and Handling of Peptides Used for Mass Spectrometry-Based Assays. Clin Chem. 2016 Jan;62(1):48-69. doi: 10.1373/clinchem.2015.250563. PMID: 2671957.


  1. Maixner F, Krause-Kyora B, Turaev D, Herbig A, Hoopmann MR, Hallows JL, Kusebauch U, Vigl EE, Malfertheiner P, Megraud F, O’Sullivan N, Cipollini G, Coia V, Samadelli M, Engstrand L, Linz B, MORITZ RL, Grimm R, Krause J, Nebel A, Moodley Y, Rattei T, Zink A. The 5300-year-old Helicobacter pylori genome of the Iceman.  2016 Jan 8;351(6269):162-5. doi: 10.1126/science.aad2545. PMID: 26744403.


  1. Winget J, Finlay D, Mills KJ, Huggins T, Bascom C, Isfort RJ, and MORITZ RL. Quantitative proteomic analysis of Stratum Corneum dysfunction in adult chronic Atopic Dermatitis. J Invest Dermatol. 2016 Apr 14. pii: S0022-202X(16)31034-X


  1. Swearingen KE, Lindner SE, Shi L, Shears MJ, Harupa A, Hopp CS, Vaughan AM, Springer TA, MORITZ RL, Kappe SH, Sinnis P. Interrogating the Plasmodium Sporozoite Surface: Identification of Surface-Exposed Proteins and Demonstration of Glycosylation on CSP and TRAP by Mass Spectrometry-Based Proteomics.  PLoS Pathog. 2016 Apr 29;12(4):e1005606.


  1. Xue T, Liu P, Zhou Y, Liu K, Yang L, MORITZ RL, Yan W, Xu LX. Interleukin-6 Induced “Acute” Phenotypic Microenvironment Promotes Th1 Anti-Tumor Immunity in Cryo-Thermal Therapy Revealed By Shotgun and Parallel Reaction Monitoring Proteomics.  2016 Mar 21;6(6):773-94.


  1. Kusebauch U, Campbell DS, Deutsch EW, Chu CS, Spicer DA, Brusniak MY, Slagel J, Sun Z, Stevens J, Grimes B, Shteynberg D, Hoopmann MR, Blattmann P, Ratushny AV, Rinner O, Picotti P, Carapito C, Huang CY, Kapousouz M, Lam H, Tran T, Demir E, Aitchison JD, Sander C, Hood L, Aebersold R, MORITZ RL. Human SRMAtlas: A Resource of Targeted Assays to Quantify the Complete Human Proteome.Cell. 2016 Jul 28;166(3):766-78. doi: 10.1016/j.cell.2016.06.041. PMID: 27453469


  1. Hoopmann MR, Mendoza L, Deutsch EW, Shteynberg D, MORITZ RL. An Open Data Format for Visualization and Analysis of Cross-Linked Mass Spectrometry Results. J Am Soc Mass Spectrom. 2016 Jul 28. [Epub ahead of print] PMID: 27469004.


  1. Deutsch EW, Overall CM, Van Eyk JE, Baker MS, Paik YK, Weintraub ST, Lane L, Martens L, Vandenbrouck Y, Kusebauch U, Hancock WS, Hermjakob H, Aebersold R, MORITZ RL, Omenn GS. Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1.   J Proteome Res. 2016 Aug 4. PMID: 27490519.


  1. Atapattu L, Saha N, Chheang C, Eissman MF, Xu K, Vail ME, Hii L, Llerena C, Liu Z, Horvay K, Abud HE, Kusebauch U, MORITZ RL, Ding BS, Cao Z, Rafii S, Ernst M, Scott AM, Nikolov DB, Lackmann M, Janes PW. An activated form of ADAM10 is tumor selective and regulates cancer stem-like cells and tumor growth.  J Exp Med. 2016 Aug 8. pii: jem.20151095.  PMID: 27503072.


  1. Qin S, Zhou Y, Gray L, Kusebauch U, McEvoy L, Antoine DJ, Hampson L, Park BK, Campbell DS, Caballero J, Glusman G, Yan X, Kim TK, Yuan Y, Wang K, Rowen L, MORITZ RL, Omenn GS, Pirmohamed M, Hood L. Identification of Blood Protein Biomarkers of Acute Liver Injury by Targeted Quantitative Proteomics in Acetaminophen and Carbon tetrachloride treated Mouse Models and Acetaminophen Overdose Patients. J Proteome Res. 2016 Aug 30. [Epub ahead of print] PMID: 27575953.


  1. Deutsch EW, Sun Z, Campbell DS, Binz PA, Farrah T, Shteynberg D, Mendoza L, Omenn GS, MORITZ RL. Tiered Human Integrated Sequence Search Databases for Shotgun Proteomics. J Proteome Res. 2016 Aug 31. PMID: 27577934.


  1. Deutsch EW, Csordas A, Sun Z, Jarnuczak A, Perez-Riverol Y, Ternent T, Campbell DS, Bernal-Llinares M, Okuda S, Kawano S, MORITZ RL, Carver JJ, Wang M, Ishihama Y, Bandeira N, Hermjakob H, Vizcaíno JA. The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. Nucleic Acids Res. 2017 Jan 4;45(D1):D1100-D1106. doi: 10.1093/nar/gkw936. PMID: 27924013.


  1. Mandal K, Bader SL, Kumar P, Malakar D, Campbell DS, Pradhan BS, Sarkar RK, Wadhwa N, Sensharma S, Jain V, MORITZ RL, Majumdar SS. An integrated transcriptomics-guided genome-wide promoter analysis and next-generation proteomics approach to mine factor(s) regulating cellular differentiation. DNA Res. 2017 Jan 8. pii: dsw057. doi: 10.1093/dnares/dsw057. [Epub ahead of print] PMID: 28065881.


  1. Zolg DP, Wilhelm M, Schnatbaum K, Zerweck J, Knaute T, Delanghe B, Bailey DJ, Gessulat S, Ehrlich HC, Weininger M, Yu P, Schlegl J, Kramer K, Schmidt T, Kusebauch U, Deutsch EW, Aebersold R, MORITZ RL, Wenschuh H, Moehring T, Aiche S, Huhmer A, Reimer U, Kuster B. Building ProteomeTools based on a complete synthetic human proteome. Nat Methods. 2017 Jan 30. doi: 10.1038/nmeth.4153. [Epub ahead of print]. PMID: 28135259.


  1. McCord J, Sun Z, Deutsch EW, MORITZ RL, Muddiman DC. The PeptideAtlas of the Domestic Laying Hen. Proteome Res. 2017 Mar 3;16(3):1352-1363. doi: 10.1021/acs.jproteome.6b00952. Epub 2017 Feb 14. PMID: 28166638.


  1. Michalik S, Depke M, Murr A, Gesell Salazar M, Kusebauch U, Sun Z, Meyer TC, Surmann K, Pförtner H, Hildebrandt P, Weiss S, Palma Medina LM, Gutjahr M, Hammer E, Becher D, Pribyl T, Hammerschmidt S, Deutsch EW, Bader SL, Hecker M, MORITZ RL, Mäder U, Völker U, Schmidt F. A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions. Sci Rep. 2017 Sep 8;7(1):9718. doi: 10.1038/s41598-017-10059-w.PMID: 28887440


  1. Collins BC, Hunter CL, Liu Y, Schilling B, Rosenberger G, Bader SL, Chan DW, Gibson BW, Gingras AC, Held JM, Hirayama-Kurogi M, Hou G, Krisp C, Larsen B, Lin L, Liu S, Molloy MP, MORITZ RL, Ohtsuki S, Schlapbach R, Selevsek N, Thomas SN, Tzeng SC, Zhang H, Aebersold R. Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry. Nat Commun. 2017 Aug 21;8(1):291. doi: 10.1038/s41467-017-00249-5. PMID: 28827567.


  1. Price ND, Magis AT, Earls JC, Glusman G, Levy R, Lausted C, McDonald DT, Kusebauch U, Moss CL, Zhou Y, Qin S, MORITZ RL, Brogaard K, Omenn GS, Lovejoy JC, Hood L. A wellness study of 108 individuals using personal, dense, dynamic data clouds. Nat Biotechnol. 2017 Aug;35(8):747-756. doi: 10.1038/nbt.3870. Epub 2017 Jul 17. PMID: 28714965.


  1. Swearingen KE, Lindner SE, Flannery EL, Vaughan AM, Morrison RD, Patrapuvich R, Koepfli C, Muller I, Jex A, MORITZ RL, Kappe SHI, Sattabongkot J, Mikolajczak SA. Proteogenomic analysis of the total and surface-exposed proteomes of Plasmodium vivax salivary gland sporozoites. PLoS Negl Trop Dis. 2017 Jul 31;11(7):e0005791. doi: 10.1371/journal.pntd.0005791. eCollection 2017 Jul. PMID: 28759593


  1. Michalik S, Depke M, Murr A, Gesell Salazar M, Kusebauch U, Sun Z, Meyer TC, Surmann K, Pförtner H, Hildebrandt P, Weiss S, Palma Medina LM, Gutjahr M, Hammer E, Becher D, Pribyl T, Hammerschmidt S, Deutsch EW, Bader SL, Hecker M, MORITZ RL, Mäder U, Völker U, Schmidt F. A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.  Sci Rep. 2017 Sep 8;7(1):9718. doi: 10.1038/s41598-017-10059-w. PMID: 28887440.


  1. Schwenk JM, Omenn GS, Sun Z, Campbell DS, Baker MS, Overall CM, Aebersold R, MORITZ RL, Deutsch EW. The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays.  J Proteome Res. 2017 Dec 1;16(12):4299-4310. doi: 10.1021/acs.jproteome.7b00467. Epub 2017 Oct 10. PMID: 28938075.


  1. Shao W, Pedrioli PGA, Wolski W, Scurtescu C, Schmid E, Vizcaíno JA, Courcelles M, Schuster H, Kowalewski D, Marino F, Arlehamn CSL, Vaughan K, Peters B, Sette A, Ottenhoff THM, Meijgaarden KE, Nieuwenhuizen N, Kaufmann SHE, Schlapbach R, Castle JC, Nesvizhskii AI, Nielsen M, Deutsch EW, Campbell DS, MORITZ RL, Zubarev RA, Ytterberg AJ, Purcell AW, Marcilla M, Paradela A, Wang Q, Costello CE, Ternette N, van Veelen PA, van Els CACM, Heck AJR, de Souza GA, Sollid LM, Admon A, Stevanovic S, Rammensee HG, Thibault P, Perreault C, Bassani-Sternberg M, Aebersold R, Caron E. The SysteMHC Atlas project.  Nucleic Acids Res. 2017 Jul 29. doi: 10.1093/nar/gkx664.  PMID: 28985418.


  1. Goyal N, Rossi MJ, Mazina OM, Chi Y, MORITZ RL, Clurman BE, Mazin AV. RAD54 N-terminal domain is a DNA sensor that couples ATP hydrolysis with branch migration of Holliday junctions. Nat Commun. 2018 Jan 2;9(1):34. doi: 10.1038/s41467-017-02497-x.  PMID: 29295984.


  1. Hoopmann MR, Winget JM, Mendoza L, MORITZ RL. StPeter: Seamless Label-Free Quantification with the Trans-Proteomic Pipeline. J Proteome Res. 2018 Mar 2;17(3):1314-1320. doi: 10.1021/acs.jproteome.7b00786. Epub 2018 Feb 14. PMID: 29400476.


  1. Kusebauch U, Hernández-Castellano LE, Bislev SL, MORITZ RL, Røntved CM, Bendixen E. Selected reaction monitoring mass spectrometry of mastitis milk reveals pathogen-specific regulation of bovine host response proteins. J Dairy Sci. 2018 Jul;101(7):6532-6541. doi: 10.3168/jds.2017-14312. Epub 2018 Apr 11. PMID: 29655560.


  1. Malge A, Ghai V, Reddy PJ, Baxter D, Kim TK, MORITZ RL, Wang K. mRNA transcript distribution bias between Borrelia burgdorferi bacteria and their outer membrane vesicles. FEMS Microbiol Lett. 2018 Jul 1;365(13). doi: 10.1093/femsle/fny135. PMID: 29846577.


  1. Jabbari N, Glusman G, Joesch-Cohen LM, Reddy PJ, MORITZ RL, Hood L, Lausted CG. Whole genome sequence and comparative analysis of Borrelia burgdorferi MM1. PLoS One. 2018 Jun 11;13(6):e0198135. doi: 10.1371/journal.pone.0198135. eCollection 2018. PMID: 29889842.


  1. Maixner F, Turaev D, Cazenave-Gassiot A, Janko M, Krause-Kyora B, Hoopmann MR, Kusebauch U, Sartain M, Guerriero G, O’Sullivan N, Teasdale M, Cipollini G, Paladin A, Mattiangeli V, Samadelli M, Tecchiati U, Putzer A, Palazoglu M, Meissen J, Lösch S, Rausch P, Baines JF, Kim BJ, An HJ, Gostner P, Egarter-Vigl E, Malfertheiner P, Keller A, Stark RW, Wenk M, Bishop D, Bradley DG, Fiehn O, Engstrand L, MORITZ RL, Doble P, Franke A, Nebel A, Oeggl K, Rattei T, Grimm R, Zink A. The Iceman’s Last Meal Consisted of Fat, Wild Meat, and Cereals. Curr Biol. 2018 Jul 23;28(14):2348-2355.e9. doi: 10.1016/j.cub.2018.05.067. Epub 2018 Jul 12. PMID: 30017480.


  1. Schuster H, Shao W, Weiss T, Pedrioli PGA, Roth P, Weller M, Campbell DS, Deutsch EW, MORITZ RL, Planz O, Rammensee HG, Aebersold R, Caron E. A tissue-based draft map of the murine MHC class I immunopeptidome. Sci Data. 2018 Aug 7;5:180157. doi: 10.1038/sdata.2018.157. PMID: 30084848.


  1. Slama P, Hoopmann MR, MORITZ RL, Geman D. Robust Determination of Differential Abundance in Shotgun Proteomics using Nonparametric Statistics. Molecular Omics 2018. 2018 Dec 3;14(6):424-436. doi: 10.1039/c8mo00077h, PMID: 30259924.


  1. Mendoza L, Deutsch EW, Sun Z, Campbell DS, Shteynberg DD, MORITZ RL. Flexible and Fast Mapping of Peptides to a Proteome with ProteoMapper. J Proteome Res. 2018 Sep 28. doi: 10.1021/acs.jproteome.8b00544. PMID: 30230343.


  1. Swearingen KE, Eng JK, Shteynberg D, Vigdorovich V, Springer TA, Mendoza L, Sather ND, Deutsch EW, Kappe SHI, MORITZ RL. A tandem mass spectrometry sequence database search method for identification of O-fucosylated proteins by mass spectrometry. J Proteome Res. 2018 Dec 7. doi: 10.1021/acs.jproteome.8b00638. [Epub ahead of print] PMID: 30523691


  1. Arredondo SA, Swearingen KE, Martinson T, Steel R, Dankwa DA, Harupa A, Camargo N, Betz W, Vigdorovich V, Oliver BG, Kangwanrangsan N, Ishino T, Sather N, Mikolajczak S, Vaughan AM, Torii M, MORITZ RL, Kappe SHI. The Micronemal Plasmodium Proteins P36 and P52 Act in Concert to Establish the Replication-Permissive Compartment Within Infected Hepatocytes. Front Cell Infect Microbiol. 2018 Nov 27;8:413. doi: 10.3389/fcimb.2018.00413. eCollection 2018. PMID: 30547015


  1. Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukačka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, MORITZ RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O’Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A. First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study. Anal Chem. 2019 Jun 4;91(11):6953-6961. doi: 10.1021/acs.analchem.9b00658. Epub 2019 May 22. PMID: 31045356.


  1. Pioner JM, Guan X, Klaiman JM, Racca AW, Pabon L, Muskheli V, Macadangdang J, Ferrantini C, Hoopmann MR, MORITZ RL, Kim DH, Tesi C, Poggesi C, Murry CE, Childers MK, Mack DL, Regnier M. Absence of full-length dystrophin impairs normal maturation and contraction of cardiomyocytes derived from human induced pluripotent stem cells. Cardiovasc Res. 2019 May 2. pii: cvz109. doi: 10.1093/cvr/cvz109. PMID: 31049579.


  1. Vivax Sporozoite Consortium. Muller I, Jex AR, Kappe SHI, Mikolajczak SA, Sattabongkot J, Patrapuvich R, Lindner S, Flannery EL, Koepfli C, Ansell B, Lerch A, Emery-Corbin SJ, Charnaud S, Smith J, Merrienne N, Swearingen KE, MORITZ RL, Petter M, Duffy MF, Chuenchob V.Transcriptome and histone epigenome of Plasmodium vivax salivary-gland sporozoites point to tight regulatory control and mechanisms for liver-stage differentiation in relapsing malaria. Int J Parasitol. 2019 Jun;49(7):501-513. doi: 10.1016/j.ijpara.2019.02.007. Epub 2019 May 7. PMID: 31071319.


  1. Shteynberg DD, Deutsch EW, Campbell DS, Hoopmann MR, Kusebauch U, Lee D, Mendoza L, Midha MK, Sun Z, Whetton AD, MORITZ RL. PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. J Proteome Res. 2019 Jul 10. doi: 10.1021/acs.jproteome.9b00205.