Publications

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  1. Bian X, Wallstrom G, Davis A, Wang J, Park J, Throop A, Steel J, Yu X, Wasserfall C, Schatz D, Atkinson M, Qiu J, LaBaer J. Immunoproteomic Profiling of Antiviral Antibodies in New-Onset Type 1 Diabetes Using Protein Arrays. Diabetes. 2016 Jan;65(1):285-96. doi: 10.2337/db15-0179. Epub 2015 Oct 8.

  2. Yu, X.; LaBaer, J., High-throughput identification of proteins with AMPylation using self-assembled human protein (NAPPA) microarrays. Nature protocols 2015 May, 10 (5): 756-67. Article

  3. Park, J; Throop, A.L.; LaBaer, J., Site- Specific Recombinational Cloning Using Gateway and In-Fusion Cloning Schemes. Curr. Protoc. Mol. Biol. 2015, 110(3):1-3, 20,23. Article

  4. Wang, J; Figueroa JD.; Wallstrom G.; Barker K.; Park JG.; Demirkan G.; Lissowska J.; Anderson KS.; Qiu J.; LaBaer J.; Plasma autoantibodies associated with basal like breast cancer. Cancer Epidemiology Biomarker & Prevention 2015. (accepted) Article

  5. Anderson, K. S.; Cramer, D. W.; Sibani, S.; Wallstrom, G.; Wong, J.; Park, J.; Qiu, J.; Vitonis, A.; LaBaer, J., Autoantibody signature for the serologic detection of ovarian cancer. Journal of proteome research 2015, 14 (1), 578-86.

  6. Bian, X.; Wiktor, P.; Kahn, P.; Brunner, A.; Khela, A.; Karthikeyan, K.; Barker, K.; Yu, X.; Magee, M.; Wasserfall, C. H.; Gibson, D.; Rooney, M. E.; Qiu, J.; LaBaer, J., Anti-viral antibody profiling by high density protein arrays. Proteomics 2015.

  7. Christensen, M. D.; Elmer, J. J.; Eaton, S.; Gonzalez-Malerva, L.; LaBaer, J.; Rege, K., Kinome-level screening identifies inhibition of polo-like kinase-1 (PLK1) as a target for enhancing non-viral transgene expression. Journal of controlled release: official journal of the Controlled Release Society 2015.

  8. Halden, R. U.; Hartmann, E. M.; Denslow, N. D.; Haynes, P. A.; LaBaer, J., Recent advances in proteomics applied to elucidate the role of environmental impacts on human health and organismal function. Journal of proteome research 2015, 14 (1), 1-4.

  9. Nilsson, C. L.; Mostovenko, E.; Lichti, C. F.; Ruggles, K.; Fenyo, D.; Rosenbloom, K. R.; Hancock, W. S.; Paik, Y. K.; Omenn, G. S.; LaBaer, J.; Kroes, R. A.; Uhlen, M.; Hober, S.; Vegvari, A.; Andren, P. E.; Sulman, E. P.; Lang, F. F.; Fuentes, M.; Carlsohn, E.; Emmett, M. R.; Moskal, J. R.; Berven, F. S.; Fehniger, T. E.; Marko-Varga, G., Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome. Journal of proteome research 2015, 14 (2), 603-8.

  10. Wiktor, P.; Brunner, A.; Kahn, P.; Qiu, J.; Magee, M.; Bian, X.; Karthikeyan, K.; LaBaer, J., Microreactor array device. Scientific reports 2015, 5, 8736.

  11. Yu, X.; Decker, K. B.; Barker, K.; Neunuebel, M. R.; Saul, J.; Graves, M.; Westcott, N.; Hang, H.; LaBaer, J.; Qiu, J.; Machner, M. P., Host-Pathogen Interaction Profiling Using Self-Assembling Human Protein Arrays. Journal of proteome research 2015.


2014

  1. Anderson, K. S.; Cramer, D. W.; Sibani, S.; Wallstrom, G.; Wong, J.; Park, J.; Qiu, J.; Vitonis, A.; LaBaer, J. (2014) Autoantibody Signature for the Serologic Detection of Ovarian Cancer. J Proteome Res. 2014 Nov 17. [Epub ahead of print] PMID: 25365139

  2. Nilsson, C. L.; Mostovenko, E.; Lichti, C. F.; Ruggles, K.; Fenyo, D.; Rosenbloom, K. R.; Hancock, W. S.; Paik, Y. K.; Omenn, G. S.; LaBaer, J.; Kroes, R. A.; Uhlen, M.; Hober, S.; Vegvari, A.; Andren, P. E.; Sulman, E. P.; Lang, F. F.; Fuentes, M.; Carlsohn, E.; Emmett, M. R.; Moskal, J. R.; Berven, F. S.; Fehniger, T. E.; Marko-Varga, G. (2014) Use of ENCODE Resources to Characterize Novel Proteoforms and Missing Proteins in the Human Proteome. J Proteome Res. Nov 26. [Epub ahead of print] PMID: 25369122

  3. Thongboonkerd, V.; LaBaer, J.; Domont, G. B., (2014) Recent advances of proteomics applied to human diseases. J Proteome Res, 13 (11), 4493-6. PMID: 25377741

  4. Yu, X.; Talukder, P.; Bhattacharya, C.; Fahmi, N. E.; Lines, J. A.; Dedkova, L. M.; LaBaer, J.; Hecht, S. M.; Chen, S. (2014) Probing of CD4 binding pocket of HIV-1 gp120 glycoprotein using unnatural phenylalanine analogues. Bioorganic & medicinal chemistry letters , 24 (24), 5699-703. PMID: 25453804

  5. Woolery AR, Yu X, LaBaer J, Orth K. (2014) AMPylation of Rho GTPases subverts multiple host signaling processes. J Biol Chem. 2014 Oct 9. pii: jbc.M114.601310. [Epub ahead of print] PMID: 25301945

  6. Prados-Rosales R, Carreño LJ, Batista-Gonzalez A, Baena A, Venkataswamy MM, Xu J, Yu X, Wallstrom G, Magee DM, LaBaer J, Achkar JM, Jacobs WR Jr, Chan J, Porcelli SA, Casadevall A. (2014) Mycobacterial Membrane Vesicles Administered Systemically in Mice Induce a Protective Immune Response to Surface Compartments of Mycobacterium tuberculosis. MBio. 2014 Sep 30;5(5). pii: e01921-14. doi: 10.1128/mBio.01921-14. PMID: 25271291

  7. Gong Z, Kessans SA, Song L, Dörner K, Lee HH, Meador LR, LaBaer J, Hogue BG, Mor TS, Fromme P. (2014) Recombinant expression, purification and biophysical characterization of the transmembrane and membrane proximal domains of HIV-1 gp41. Protein Sci. 2014 Aug 23. doi: 10.1002/pro.2540. [Epub ahead of print] PMID: 25155369

  8. Liang W, Wang S, Festa F, Wiktor P, Wang W, Magee M, LaBaer J, Tao N. (2014) Measurement of Small Molecule Binding Kinetics on a Protein Microarray by Plasmonic-based Electrochemical Impedance Imaging. Anal Chem. 2014 Aug 25. [Epub ahead of print] PMID: 25153794

  9. Yu X, Woolery AR, Luong P, Hao YH, Grammel M, Westcott N, Park J, Wang J, Bian X, Demirkan G, Hang HC, Orth K, LaBaer J. (2014) Click chemistry-based detection of global pathogen-host AMPylation on self-assembled human protein microarrays. Mol Cell Proteomics. 2014 Jul 29. pii: mcp.M114.041103. [Epub ahead of print] PMID: 25073739

  10. Xiaobo Yu, Xiaofang Bian, Andrea Throop, Lusheng Song, Lerys Del Moral, Jin Park, Catherine Seiler, Michael Fiacco, Jason Steel, Preston Hunter, Justin Saul, Jie Wang, Ji Qiu, James M. Pipas, Joshua LaBaer. (2014) Exploration of Panviral Proteome: High-Throughput Cloning and Functional Implications in Virus-host Interactions. Theranostics 4(8): 808-822. doi: 10.7150/thno.8255 PMID: 24955142

  11. Saul J, Petritis B, Sau S, Rauf F, Gaskin M, Ober-Reynolds B, Mineyev I, Magee M, Chaput J, Qiu J, Labaer J. (2014) Development of a full-length human protein production pipeline. Protein Sci. 2014 May 8. doi: 10.1002/pro.2484. [Epub ahead of print] Abstract

  12. Bhuiyan S, Sayeed A, Khanam F, Leung DT, Rahman Bhuiyan T, Sheikh A, Salma U, Larocque RC, Harris JB, Pacek M, Calderwood SB, Labaer J, Ryan ET, Qadri F, Charles RC. (2014) Cellular and Cytokine Responses to Salmonella enterica Serotype Typhi Proteins in Patients with Typhoid Fever in Bangladesh. Am J Trop Med Hyg. 2014 Mar 10. [Epub ahead of print] Abstract

  13. Skibinski A, Breindel JL, Prat A, Galván P, Smith E, Rolfs A, Gupta PB, Labaer J, Kuperwasser C. (2014) The Hippo Transducer TAZ Interacts with the SWI/SNF Complex to Regulate Breast Epithelial Lineage Commitment. Cell Rep. 2014 Mar 5. pii: S2211-1247(14)00152-1. doi: 10.1016/j.celrep.2014.02.038. [Epub ahead of print] Abstract

  14. Salhia B, Kiefer J, Ross JT, Metapally R, Martinez RA, Johnson KN, Diperna DM, Paquette KM, Jung S, Nasser S, Wallstrom G, Tembe W, Baker A, Carpten J, Resau J, Ryken T, Sibenaller Z, Petricoin EF, Liotta LA, Ramanathan RK, Berens ME, Tran NL. (2014) Integrated genomic and epigenomic analysis of breast cancer brain metastasis. PLoS One. 2014 Jan 29;9(1):e85448. doi: 10.1371/journal.pone.0085448. eCollection 2014. Abstract


2013

  1. Seiler CY, Park JG, Sharma A, Hunter P, Surapaneni P, Sedillo C, Field J, Algar R, Price A, Steel J, Throop A, Fiacco M, Labaer J.(2013) DNASU plasmid and PSI:Biology-Materials repositories: resources to accelerate biological research. Nucleic Acids Res. 2013 Nov 12. [Epub ahead of print] Abstract

  2. Spera R, Festa F, Bragazzi NL, Pechkova E, Labaer J, Nicolini C. (2013) Conductometric Monitoring of Protein-Protein Interactions. J Proteome Res. 2013 Nov 1. [Epub ahead of print] Abstract

  3. Miersch S, Bian X, Wallstrom G, Sibani S, Logvinenko T, Wasserfall CH, Schatz D, Atkinson M, Qiu J, Labaer J. (2013) Serological autoantibody profiling of type 1 diabetes by protein arrays. J Proteomics. 2013 Oct 19. pii: S1874-3919(13)00530-7. doi: 10.1016/j.jprot.2013.10.018. [Epub ahead of print] Abstract

  4. Dae-Wook Kang, Jin Gyoon Park, Zehra Esra Ilhan, Garrick Wallstrom, Joshua LaBaer, James B. Adams, Rosa Krajmalnik-Brown. Reduced Incidence of Prevotella and Other Fermenters in Intestinal Microflora of Autistic Children.PLOS ONE 2013. published 03 Jul 2013.  10.1371/journal.pone.0068322 Abstract

  5. Xiaobo Yu, Garrick Wallstrom, Dewey Mitchell Magee, Ji Qiu, D. Eliseo A. Mendoza, Jie Wang, Xiaofang Bian, Morgan Graves, and Joshua LaBaer. Quantifying antibody binding on protein microarrays using microarray nonlinear calibration. Biotechniques. 2013 May;54(5):257-64. doi: 10.2144/000114028. Abstract

  6. Lee, J. R.; Magee, D. M.; Gaster, R. S.; LaBaer, J.; Wang, S. X., Emerging protein array technologies for proteomics. Expert review of proteomics 2013, 10, (1), 65-75. Abstract

  7. Festa, F.; Steel, J.; Bian, X.; LaBaer, J., High-throughput cloning and expression library creation for functional proteomics. Proteomics 2013.Mar 4. doi: 10.1002/pmic.201200456. Abstract

  8. Wallstrom G, Anderson KS, and LaBaer J.  Biomarker Discovery for Heterogeneous Diseases.  Cancer Epidemiology Biomarkers & Prevention. May;22(5):747-55. doi: 10.1158/1055-9965.EPI-12-1236. Epub 2013 Mar 5. Abstract

  9. Grover H, Wallstrom G, Wu CC, and Gopalakrishnan V. Context-Sensitive Markov Models for Peptide Scoring and Identification from Tandem Mass Spectrometry. OMICS. 2013 Jan 5. [Epub ahead of print] Abstract

  10. Manzano-Roman R, Diaz-Martin V, Gonzalez-Gonzalez M, Matarraz S, Alvarez-Prado AF, Labaer J, Orfao A, Perez-Sanchez R, Fuentes M. Self-assembled protein arrays from an ornithodos moubata salivary gland expression library. J Proteome Res 2012/11/13. doi: 10.1021/pr300696h/ [Epub ahead of print] Abstract


2012

  1. Qiu, J. and Anderson, KS, Proteomic and Metabolomic Approaches to Biomarker Discovery, Autoantibodies and Biomarker Discovery, Editors Haleem Issaq and Tim Veenstra,  Academic Press: 2012 

  2. Wang J, Barker K, Steel J, Park J, Saul J, Festa F, Wallstrom G, Yu X, Bian X, Anderson KS, Figueroa J, Labaer J, Qiu J. A versatile protein microarray platform enabling antibody profiling against denatured proteinsProteomics Clin Appl. 2012 Oct 2. doi: 10.1002/prca.201200062. [Epub ahead of print] Abstract

  3. Festa F, Rollins SM, Vatten K, Hathaway M, Lorenz P, Mendoza EA, Yu X, Qui J, Kilmer G, Jensen P, Webb B, Ryan ET, LaBaer J - Robust microarray production of freshly expressed proteins in a human milieu. Proteomics Clin Appl. 2012 Oct 2. doi: 10.1002/prca.201200063. [Epub ahead of print] PMID: 23027544 Abstract

  4. Hood LE, Omenn GS, Moritz RL, Aebersold R, Yamamoto KR, Amos M, Hunter-Cevera J, Locascio L; Workshop Participants.   New and improved proteomics technologies for understanding complex biological systems: addressing a grand challenge in the life sciences. Proteomics. 2012 Sep;12(18):2773-83. doi: 10.1002/pmic.201270086. Abstract

  5. LaBaer, J. Improving international research with clinical specimens: 5 achievable objectives (Perspective).  Accepted September 21, 2012: Journal of Proteome Research: 2012 Sep 21. [Epub ahead of print], PMID: 22998582 Abstract

  6. Takulapalli BR, Qiu J, Magee DM, Kahn P, Brunner A, Barker K, Means S, Miersch S, Bian X, Mendoza A, Festa F, Syal K, Park JG, LaBaer J, and Wiktor P. High Density Diffusion-Free Nanowell Arrays. Journal of Proteome Research,  2012 Aug 3;11(8):4382-91. Epub 2012 Jul 13.  PMID: 22742968 dx.doi.org/10.1021/pr300467q Abstract

  7. Gibson DS, Qiu J, Mendoza EA, Barker K, Rooney ME, LaBaer J. Circulating and synovial antibody profiling of juvenile arthritis patients by nucleic acid programmable protein arrays. Arthritis Res Ther. Apr 17;14(2):R77. [Epub ahead of print] Abstract

  8. Wright C, Sibani S, Trudgian D, Fischer R, Kessler B, LaBaer J, Bowness P. Detection of multiple autoantibodies in patients with ankylosing spondylitis using nucleic Acid programmable protein arrays. Mol Cell Proteomics. 11 (2), M9.00384. Abstract

  9. Gibson DS, Rooney ME, Finnegan SF, Qiu J, Thompson DC, LaBaer J, Pennington SR, Duncan MW. (2012) Biomarkers in rheumatology, now and in the future. Rheumatology;Mar;51(3):423-33. Epub 2011 Dec 16. Abstract


2011

  1. Anderson KS, Sibani S, Wallstrom G, Qiu J, Mendoza EA, Raphael J, Hainsworth E, Montor WR, Wong J, Park JG, Lokko N, Logvinenko T, Ramachandran N, Godwin AK, Marks J, Engstrom P, Labaer J. (2011) Protein Microarray Signature of Autoantibody Biomarkers for the Early Detection of Breast Cancer. J Proteome Res Jan 7;10(1):85-96. Epub 2010 Nov 23. Abstract

  2. Anderson KS, Wong J, D'Souza G, Riemer AB, Lorch J, Haddad R, Pai SI, Longtine J, McClean M, LaBaer J, Kelsey KT, Posner M. (2011) Serum antibodies to the HPV16 proteome as biomarkers for head and neck cancer. Br J Cancer Jun 7;104(12):1896-905. Abstract

  3. Cormier CY, Park JG, Fiacco M, Steel J, Hunter P, Kramer J, Singla R, Labaer J. (2011) PSI:Biology-materials repository: a biologist's resource for protein expression plasmids. J Struct Funct Genomics. Mar 1 [Epub ahead of print]. July 1: 12 (2):55-62. Abstract

  4. Gonzalez-Malerva L, Park J, Zou L, Hu Y, Moradpour Z, Pearlberg J, Sawyer J, Stevens H, Harlow E, Labaer J. (2011) High-throughput ectopic expression screen for tamoxifen resistance identifies an atypical kinase that blocks autophagy. Proc Natl Acad Sci Jan 13. [Epub ahead of print]. Abstract

  5. Hancock W, Labaer J, Marko-Varga GA. (2011) Journal of Proteome Research - 10th Anniversary. J Proteome Res Jan 7;10(1):1-2. Abstract

  6. Link AJ, Labaer J. (2011) Off-line desalting of Peptide mixtures. Cold Spring Harb Protocols Mar 1;2011:prot5591. doi: 10.1101/pdb.prot5591. Abstract

  7. Link AJ, LaBaer J. (2011) Solution protein digest. Cold Spring Harb Protoc. Feb 1;2011:pdb.prot5569. doi: 10.1101/pdb.prot5569. Abstract

  8. Link AJ, LaBaer J. (2011) Trichloroacetic acid (TCA) precipitation of proteins. Cold Spring Harb Protocols Aug 1;2011(8):993-4. Abstract

  9. Link AJ, LaBaer J. (2011) Setup and demonstration of a nanoelectrospray ionization source and tandem mass spectrometry. Cold Spring Harb Protocols Jul 1;2011(7):888-91. Abstract

  10. Link, A. J. and LaBaer, J. (2011) Setup and demonstration of a nanoelectrospray ionization source and tandem mass spectrometry. Cold Spring Harb Protoc (7). Abstract

  11. Miersch S, and Labaer J. (2011) Nucleic Acid programmable protein arrays: versatile tools for array-based functional protein studies. Curr Protoc Protein Sci. Apr;Chapter 27:Unit27.2. Abstract

  12. Qiu J, Labaer J. (2011) Nucleic Acid programmable protein array a just-in-time multiplexed protein expression and purification platform. Methods Enzymolgy 500:151-63. Abstract

  13. Sheikh, A., Khanam, F., Sayeed, M. A., Rahman, T., Pacek, M., Hu, Y., Rollins, A., Bhuiyan, M. S., Rollins, S., Kalsy, A., Arifuzzaman, M., Leung, D. T., Sarracino, D. A., Krastins, B., Charles, R. C., Larocque, R. C., Cravioto, A., Calderwood, S. B., Brooks, W. A., Harris, J. B., LaBaer, J., Qadri, F., and Ryan, E. T. (2011) Interferon-gamma and Proliferation Responses to Salmonella enterica Serotype Typhi Proteins in Patients with S. Typhi Bacteremia in Dhaka, Bangladesh. PLoS Negl Trop Dis 5, (6), e1193. Abstract

  14. Sibani S, and Labaer J. (2011) Immunoprofiling Using NAPPA Protein Microarrays. Methods Mol Biol. 723:149-61. Abstract

  15. Spera R, Labaer J, Nicolini C. (2011) MALDI-TOF characterization of NAPPA-generated proteins. J Mass Spectrom Sep;46(9):960-5. Abstract


2010

  1. Anderson KS, Wong J, Vitonis A, Crum CP, Sluss PM, Labaer J, Cramer D. (2010) P53 Autoantibodies As Potential Detection And Prognostic Biomarkers In Serous Ovarian Cancer. Cancer Epidemiology, Biomarkers, and Prevention Mar;19(3):859-68. PMID: 20200435

  2. Ceroni A, Sibani S, Baiker A, Pothineni VR, Bailer SM, LaBaer J, Haas J, Campbell CJ. (2010) Systematic analysis of the IgG antibody immune response against varicella zoster virus (VZV) using a self-assembled protein microarray. Mol Biosyst Sep;6(9):1604-10. Epub 2010 Jun 1. Abstract

  3. Cormier, CY; Mohr, SE; Zuo, D; Hu, Y; Rolfs, A; Kramer, J; Taycher, E; Kelley, F; Fiacco, M; Turnbull, G; LaBaer, J. (2010) Protein Structure Initiative Material Repository: an open shared public resource of structural genomics plasmids for the biological community. Nucleic Acids Research Jan;38(Database issue):D743-9. PMID: 19906724

  4. Ramireza, AB. Locha, CM, Zhanga, Y, Liu, Y, Wang, X, Wayner, EA, Sargent, JE, Sibani, S, Hainsworth, E, Mendoza, EA, Eugene, R, LaBaer, J, Urban, ND, McIntosh, MW, and Lampe, PD. (2010) Use of a single chain antibody library for ovarian cancer biomarker discovery. Molecular and Cellular Proteomics in press. PMID: 20200435


2009

  1. Montor WR, Huang J, Hu Y, Hainsworth E, Lynch S, Kronish JW, Ordonez CL, Logvinenko T, Lory S, LaBaer J. (2009) Genome-wide study of Pseudomonas aeruginosa outer membrane protein immunogenicity using self-assembling protein microarrays. Infection and Immunity Nov;77(11):4877-86. Epub 2009 Sep 8. Abstract

  2. Murphy RF, Labaer J. (2009) Locations everyone: lights, camera, action!. Journal of Proteome Research Jan;8(1):1. Abstract

  3. Thanawastien A, Montor WR, Labaer J, Mekalanos JJ, Yoon SS. (2009) Vibrio cholerae proteome-wide screen for immunostimulatory proteins identifies phosphatidylserine decarboxylase as a novel Toll-like receptor 4 agonist. PLoS Pathogens Aug;5(8):e1000556. Epub 2009 Aug 21. Abstract

  4. Wong, J., Sibani, S., Lokko, N. N., LaBaer, J., and Anderson, K. S. (2009) Rapid detection of antibodies in sera using multiplexed self-assembling bead arrays. Journal of Immunological Methods 350, (1-2), 171-182. Abstract

  5. Zhu C, Byers KJ, McCord RP, Shi Z, Berger MF, Newburger DE, Saulrieta K, Smith Z, Shah MV, Radhakrishnan M, Philippakis AA, Hu Y, De Masi F, Pacek M, Rolfs A, Murthy T, Labaer J, Bulyk ML. (2009) High-Resolution DNA Binding Specificity Analysis of Yeast Transcription Factors. Genome Res. (4): 556-66. Epub 2009 Jan 21. PMID: 19158363


2008

  1. Anderson KS, Ramachandran N, Wong J, Raphael JV, Hainsworth E, Demirkan G, Cramer D, Aronzon D, Hodi FS, Harris L, Logvinenko T, LaBaer J. (2008) Application of protein microarrays for multiplexed detection of antibodies to tumor antigens in breast cancer. J Proteome Res. 7(4):1490-9. Epub 2008 Feb 27. PMID: 18311903

  2. Berman, H.M., Westbrook, J.D., Gabanyi, M.J., Tao, Y., Shah, R., Kouranov, A., Schwede, T., Arnold, K., Kiefer, F., Bordoli, L., Kopp, J., Podvinec, M., Adams, P.D., Carter, L.G., Minor, W., Nair, R., LaBaer, J (2008) The Protein Structure Initiative Structural Genomics Knowledgebase. Nucl. Acid Res. .PMID: 19010965

  3. Hughes SR, Dowd PF, Hector RE, Panavas T, Sterner DE, Qureshi N, Bischoff KM, Bang SS, Mertens JA, Johnson ET, Li XL, Jackson JS, Caughey RJ, Riedmuller SB, Bartolett S, Liu S, Rich JO, Farrelly PJ, Butt TR, Labaer J, Cotta MA. (2008) Lycotoxin-1 insecticidal peptide optimized by amino acid scanning mutagenesis and expressed as a coproduct in an ethanologenic Saccharomyces cerevisiae strain. J Pept Sci. Sep;14(9):1039-50. doi: 10.1002/psc.1040..PMID: 18465835

  4. Hughes SR, Sterner DE, Bischoff KM, Hector RE, Dowd PF, Qureshi N, Bang SS, Grynaviski N, Chakrabarty T, Johnson ET, Dien BS, Mertens JA, Caughey RJ, Liu S, Butt TR, LaBaer J, Cotta MA, Rich JO. (2008) Engineered Saccharomyces cerevisiae strain for improved xylose utilization with a three-plasmid SUMO yeast expression system. Plasmid. 61(1):22-38. Epub 2008 Oct 26. PMID: 18831987

  5. Murphy RF, Labaer J. (2008) Locations Everyone: Lights, Camera, Action. J Proteome Res. Jan;8(1):1. doi: 10.1021/pr8009947. PMID: 19055481

  6. Ramachandran N, Anderson KS, Raphael JV, Hainsworth E, Sibani S, Montor WR, Pacek M, Wong J, Elianne M, Sanda MG, Hu Y, Lovinenko T, Labaer J. (2008) Tracking humoral responses using self assembling protein microarrays. Proteomics Clin. Appl. (10/11): 1518-1527. PMID: 21136799

  7. Ramachandran N, Raphael JV, Hainsworth E, Demirkan G, Fuentes MG, Rolfs A, Hu Y, Labaer J. (2008) Next-generation high-density self-assembling functional protein arrays. NatMethods (5):535. PMID: 18469824

  8. Ramachandran N, Srivastava S, Labaer J. (2008) Applications of protein microarrays for biomarker discovery. Proteomics Clin. Appl. (10/11): 1444-1459. PMID: 21136793

  9. Rolfs A, Hu Y, Ebert L, Hoffmann D, Zuo D, Ramachandran N, Raphael J, Kelley F, McCarron S, Jepson DA, Shen B, Baqui MM, Pearlberg J, Taycher E, DeLoughery C, Hoerlein A, Korn B, LaBaer J. (2008) A biomedically enriched collection of 7000 human ORF clones. PLoS ONE. 3(1):e1528. PMID: 18231609

  10. Rolfs A, Montor WR, Yoon SS, Hu Y, Bhullar B, Kelley F, McCarron S, Jepson DA, Shen B, Taycher E, Mohr SE, Zuo D, Williamson J, Mekalanos J, Labaer J. (2008) Production and sequence validation of a complete full length ORF collection for the pathogenic bacterium Vibrio cholerae. Proc Natl Acad Sci U S A. 105(11):4364-9. Epub 2008 Mar 12. PMID: 18337508

  11. Slagowski NL, Kramer RW, Morrison MF, LaBaer J, Lesser CF. (2008) A functional genomic yeast screen to identify pathogenic bacterial proteins. PLoS Pathog. 4(1):e9. PMID: 18208325

  12. Srivastava S, LaBaer J. (2008) Nanotubes light up protein arrays. Nat Biotechnol. 26(11):1244-6. PMID: 18997763


2007

  1. Hu Y, Rolfs A, Bhullar B, Murthy TV, Zhu C, Berger MF, Camargo AA, KelleyF, McCarron S, Jepson D, Richardson A, Raphael J, Moreira D, Taycher E, Zuo D, Mohr S, Kane MF, Williamson J, Simpson A, Bulyk ML, Harlow E, Marsischky G, Kolodner RD, LaBaer J. Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae. Genome Res. 2007 Apr;17(4):536-43. Epub 2007 Feb 23. PMID: 17322287

  2. Taycher E, Rolfs A, Hu Y, Zuo D,Mohr SE, Williamson J, LaBaer J. A novel approach to sequence validating protein expression clones with automated decision making. BMC Bioinformatics. 2007 Jun 13;8:198. PMID: 17567908

  3. Murthy T, Rolfs A, Hu Y, Shi Z, Raphael J, Moreira D, Kelley F, McCarron S, Jepson D, Taycher E, Zuo D, Mohr S E, Fernandez M, Brizuela L, LaBaer J. A full-genomic sequence-verified protein-coding gene collection for Francisella tularensis. PLoS ONE 2007;2:e577 PMID: 17593976

  4. Langlais C, Guilleaume B, Wermke N, Scheuermann T, Ebert L, LaBaer J, Korn B. A systematic approach for testing expression of human full-length proteins in cell-free expression systems. BMC Biotechnol. 2007 Oct 3;7:64. PMID: 17915018

  5. Xu L, Zhu J, Hu X, Zhu H, Kim HT, LaBaer J, Goldberg A, Yuan J. c-IAP1 cooperates with Myc by acting as a ubiquitin ligase for Mad1. Mol Cell. 2007 Dec 14;28(5):914-22. PMID: 18082613.


2006

  1. Ramachandran N, Hainsworth E, Demirkan G, LaBaer J.On-chip protein synthesis for making microarrays. Methods Mol Biol. 2006;328:1-14. PMID: 16785638

  2. Braun P, LaBaer J. High Throughput Purification of Proteins from Escherichia Coli. Cell Biology: A Laboratory Handbook, 3rd Edition, Volume 4. Elsevier Academic Press: Burlington, MA (2006): 73- 77.

  3. Butcher RA, Bhullar BS, Perlstein EO, Marsischky G, LaBaer J, Schreiber SL. Microarray-based method for monitoring yeast overexpression strains reveals small-molecule targets in TOR pathway. Nat Chem Biol. 2006 Feb;2(2):103-9. Epub 2006 Jan 15. PMID: 16415861

  4. Witt AE, Hines LM, Collins NL, Hu Y, Gunawardane RN, Moreira D, Raphael J, Jepson D, Koundinya M, Rolfs A, Taron B, Isakoff SJ, Brugge JS, LaBaer J. Functional proteomics approach to investigate the biological activities of cDNAs implicated in breast cancer. J Proteome Res. 2006 Mar;5(3):599-610. PMID: 16512675

  5. Park J, Labaer J. Recombinational cloning. Curr Protoc Mol Biol. 2006 May;Chapter 3:Unit 3.20. PMID: 18265386

  6. Cooper AA, Gitler AD, Cashikar A, Haynes CM, Hill KJ, Bhullar B, Liu K, Xu K, Strathearn KE, Liu F, Cao S, Caldwell KA, Caldwell GA, Marsischky G, Kolodner RD, Labaer J, Rochet JC, Bonini NM, Lindquist S. Alpha-synuclein blocks ER-Golgi traffic and Rab1 rescues neuron loss in Parkinson's models. Science. 2006 Jul 21;313(5785):324-8. Epub 2006 Jun 22.

  7. Haab BB, Paulovich AG, Anderson NL, Clark AM, Downing GJ, Hermjakob H, Labaer J, Uhlen M. A reagent resource to identify proteins and peptides of interest for the cancer community: a workshop report. Mol Cell Proteomics. 2006 Oct;5(10):1996-2007. Epub 2006 Jul 24. PMID: 16867976

  8. Chatterjee DK, LaBaer J. Protein Technologies. Current Opinion in Biotechnology, 17 (August 2006): 334-336.

  9. Zuo D, Mohr SE, Hu Y, Taycher E, Rolfs A, Kramer J, Williamson J, LaBaer J. PlasmID: a centralized repository for plasmid clone information and distribution. Nucleic Acids Res. 2007 Jan;35(Database issue):D680-4. Epub 2006 Nov 28. PMID: 17132831


2005

  1. LaBaer J, Ramachandran N. Protein microarrays as tools for functional proteomics. Curr Opin Chem Biol. 2005 Feb;9(1):14-9. PMID: 15701447

  2. Fan M, Tsai J, Chen B, Fan K, LaBaer J. A central repository for published plasmids. Science. 2005 Mar 25;307(5717):1877. PMID: 15790830

  3. Chang CY, LaBaer J. DNA polymorphism detector: an automated tool that searches for allelic matches in public databases for discrepancies found in clone or cDNA sequences. Bioinformatics. 2005 May 1;21(9):2133-5. Epub 2005 Feb 2. PMID: 15695424

  4. Collins NL, Reginato MJ, Paulus JK, Sgroi DC, Labaer J, Brugge JS. G1/S cell cycle arrest provides anoikis resistance through Erk-mediated Bim suppression. Mol Cell Biol. 2005 Jun;25(12):5282-91. PMID: 15923641

  5. Park J, Hu Y, Murthy TV, Vannberg F, Shen B, Rolfs A, Hutti JE, Cantley LC, Labaer J, Harlow E, Brizuela L. Building a human kinase gene repository: bioinformatics, molecular cloning, and functional validation. Proc Natl Acad Sci U S A. 2005 Jun 7;102(23):8114-9. Epub 2005 May 31. PMID: 15928075

  6. LaBaer J. So, you want to look for biomarkers (introduction to the special biomarkers issue). J Proteome Res. 2005 Jul-Aug;4(4):1053-9. PMID: 16083254

  7. Anderson KS, LaBaer J. The sentinel within: exploiting the immune system for cancer biomarkers. J Proteome Res. 2005 Jul-Aug;4(4):1123-33. PMID: 16083262

  8. Ramachandran N, Larson DN, Stark PR, Hainsworth E, LaBaer J. Emerging tools for real-time label-free detection of interactions on functional protein microarrays. FEBS J. 2005 Nov;272(21):5412-25. PMID: 16262683

  9. Komaroff AL, Labaer J.Health for life. Genomic medicine: the science speeds up. Newsweek. 2005 Dec 12;146(24):57. PMID: 16375163


2004

  1. LaBaer J. Mining the literature and large datasets. Nat Biotechnol. 2003 Sep;21(9):9767. PMID: 12949554

  2. Pearlberg J, LaBaer J. Protein expression clone repositories for functional proteomics. Curr Opin Chem Biol. 2004 Feb;8(1):98-102. PMID: 15036163

  3. Seton-Rogers SE, Lu Y, Hines LM, Koundinya M, LaBaer J, Muthuswamy SK, Brugge JS. Cooperation of the ErbB2 receptor and transforming growth factor beta in induction of migration and invasion in mammary epithelial cells. Proc Natl Acad Sci U S A. 2004 Feb 3;101(5):1257-62. Epub 2004 Jan 22. PMID: 14739340

  4. Ramachandran N, Hainsworth E, Bhullar B, Eisenstein S, Rosen B, Lau AY, Walter JC, LaBaer J.Self-assembling protein microarrays. Science. 2004 Jul 2;305(5680):86-90. PMID: 15232106

  5. Murthy TV, Wu W, Qiu QQ, Shi Z, LaBaer J, Brizuela L. Bacterial cell-free system for high-throughput protein expression and a comparative analysis of Escherichia coli cell-free and whole cell expression systems. Protein Expr Purif. 2004 Aug;36(2):217-25. PMID: 15249043

  6. Hu Y, Labaer J. Tracking gene-disease relationships for high-throughput functional studies. Surgery. 2004 Sep;136(3):504-10. ISSN 0039-6060. PMID: 15349093

  7. Nakamura K, Aebersold R, Bairoch A, Dunn M, Celis J, Hanash S, Hochstrasser D, Humphrey-Smith I, James P, Klose J, LaBaer J, Langen H, Mann M, Parekh R, Patterson S, Pearce C, Poepstorff P, Simpson RJ, Tomlinson I, Tsugita A, Yates J. From genome to proteome--aim of human proteomics Seikagaku. 2004 Oct;76(10):1271-4. PMID: 15580857

  8. Marsischky G, LaBaer J. Many paths to many clones: a comparative look at high-throughput cloning methods. Genome Res. 2004 Oct;14(10B):2020-8. PMID: 15489321

  9. Aguiar JC, LaBaer J, Blair PL, Shamailova VY, Koundinya M, Russell JA, Huang F, Mar W, Anthony RM, Witney A, Caruana SR, Brizuela L, Sacci JB Jr, Hoffman SL, Carucci DJ. High-throughput generation of P. falciparum functional molecules by recombinational cloning. Genome Res. 2004 Oct;14(10B):2076-82. PMID: 15489329

  10. Labaer J, Qiu Q, Anumanthan A, Mar W, Zuo D, Murthy TV, Taycher H, Halleck A, Hainsworth E, Lory S, Brizuela L. The Pseudomonas aeruginosa PA01 gene collection. Genome Res. 2004 Oct;14(10B):2190-200. PMID: 15489342

  11. Pearlberg J, Degot S, Endege W, Park J, Davies J, Gelfand E, Sawyer J, Conery A, Doench J, Li W, Gonzalez L, Boyce FM, Brizuela L, Labaer J, Grueneberg D, Harlow E. Screens using RNAi and cDNA expression as surrogates for genetics in mammalian tissue culture cells. Cold Spring Harb Symp Quant Biol. 2005;70:449-59. PMID: 16869783


2003

  1. Hu Y, Hines LM, Weng H, Zuo D, Rivera M, Richardson A, LaBaer J. Analysis of genomic and proteomic data using advanced literature mining. J Proteome Res. 2003 Jul-Aug;2(4):405-12. PMID: 12938930

  2. Braun P, LaBaer J. High throughput protein production for functional proteomics. Trends Biotechnol. 2003 Sep;21(9):383-8.PMID: 12948670


2002

  1. Braun P, Hu Y, Shen B, Halleck A, Koundinya M, Harlow E, LaBaer J. Proteome-scale purification of human proteins from bacteria. Proc Natl Acad Sci U S A. 2002 Mar 5;99(5):2654-9. PMID: 11880620

  2. LaBaer J. Genomics, proteomics, and the new paradigm in biomedical research. Genet Med. 2002 Nov-Dec;4(6 Suppl):2S-9S. PMID: 12544480


2001

Brizuela L, Braun P, LaBaer J. FLEXGene repository: from sequenced genomes to gene repositories for high-throughput functional biology and proteomics. Mol Biochem Parasitol. 2001 Dec;118(2):155-65. PMID: 11738706


1997

  1. LaBaer J, Garrett MD, Stevenson LF, Slingerland JM, Sandhu C, Chou HS, Fattaey A, Harlow E. New functional activities for the p21 family of CDK inhibitors. Genes Dev. 1997 Apr 1;11(7):847-62. PMID: 9106657

  2. Hiyama H, Iavarone A, LaBaer J, Reeves SA. Regulated ectopic expression of cyclin D1 induces transcriptional activation of the cdk inhibitor p21 gene without altering cell cycle progression. Oncogene. 1997 May 29;14(21):2533-42. PMID: 9191053

  3. Hu G, Zhang S, Vidal M, LaBaer J, Xu T, Fearon ER. Mammalian homologs of seven in absentia regulate DCC via the ubiquitin-proteasome pathway. Genes and Development, 11.20 (1997): 2701–2714. PMID: 933433


1994

LaBaer J, Yamamoto KR. Analysis of the DNA-binding affinity, Sequence Specificity and Context Dependence of the Glucocorticoid Receptor Zinc Finger Region. J Molecular Biology, 239.5 (1994): 664–688. PMID: 801498


1993

Garabedian MJ, LaBaer J, Liu W-H, Thomas J. Analysis of protein – DNA Interactions. Gene Transcription - A Practical Approach, Oxford: Oxford University Press, (1993): 243–295. ISBN 0199632928.


1989

LaBaer J. Rapid sequencing of miniprep DNA using Sequenase and end-labeled sequencing primer. US Biochemicals, (Comments) 15 (1989): 19–20.


1986

LaBaer J, Tsien RY, Fahey KA, DeFranco AL. Stimulation of the antigen receptor on WEHI-231 B lymphoma cells results in a voltage-independent increase in cytoplasmic calcium. J Immunol. 1986 Sep 15;137(6):1836-44. PMID: 2427581