Publications

365 entries « 3 of 8 »

2017

Schroeter, E R; DeHart, C J; Cleland, T P; Zheng, W; Thomas, P M; Kelleher, N L; Bern, M; Schweitzer, M H

Expansion for the Brachylophosaurus canadensis Collagen I Sequence and Additional Evidence of the Preservation of Cretaceous Protein Journal Article

J Proteome Res, 16 (2), pp. 920-932, 2017, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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Toby, T K; Abecassis, M M; Kim, K; Thomas, P M; Fellers, R T; LeDuc, R D; Kelleher, N L; Demetris, J; Levitsky, J

Proteoforms in Peripheral Blood Mononuclear Cells as Novel Rejection Biomarkers in Liver Transplant Recipients Journal Article

Am J Transplant, 2017, ISSN: 1600-6143 (Electronic) 1600-6135 (Linking).

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2016

Chen, Y; McClure, R A; Kelleher, N L

Screening for Expressed Nonribosomal Peptide Synthetases and Polyketide Synthases Using LC-MS/MS-Based Proteomics Journal Article

Methods Mol Biol, 1401 , pp. 135-47, 2016, ISSN: 1940-6029 (Electronic) 1064-3745 (Linking).

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Durbin, K R; Fornelli, L; Fellers, R T; Doubleday, P F; Narita, M; Kelleher, N L

Quantitation and Identification of Thousands of Human Proteoforms below 30 kDa Journal Article

J Proteome Res, 15 (3), pp. 976-82, 2016, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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Goering, A W; McClure, R A; Doroghazi, J R; Albright, J C; Haverland, N A; Zhang, Y; Ju, K S; Thomson, R J; Metcalf, W W; Kelleher, N L

Metabologenomics: Correlation of Microbial Gene Clusters with Metabolites Drives Discovery of a Nonribosomal Peptide with an Unusual Amino Acid Monomer Journal Article

ACS Cent Sci, 2 (2), pp. 99-108, 2016, ISSN: 2374-7943 (Print) 2374-7943 (Linking).

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Gunn, B; Schneider, J; Shansab, M; Bastian, A R; Fahrbach, K; th Smith, A; Mahan, A; Karim, M; Licht, A; Zvonar, I; Tedesco, J; Anderson, M; Chapel, A; Suscovich, T; Malaspina, D; Streeck, H; Walker, B D; Kim, A; Lauer, G; Altfeld, M; Pillai, S; Szleifer, I; Kelleher, N L; Kiser, P F; Hope, T J; Alter, G

Enhanced binding of antibodies generated during chronic HIV infection to mucus component MUC16 Journal Article

Mucosal Immunol, 9 (6), pp. 1549-1558, 2016, ISSN: 1935-3456 (Electronic) 1933-0219 (Linking).

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Hattori, T; Lai, D; Dementieva, I S; Montano, S P; Kurosawa, K; Zheng, Y; Akin, L R; Swist-Rosowska, K M; Grzybowski, A T; Koide, A; Krajewski, K; Strahl, B D; Kelleher, N L; Ruthenburg, A J; Koide, S

Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation Journal Article

Proc Natl Acad Sci U S A, 113 (8), pp. 2092-7, 2016, ISSN: 1091-6490 (Electronic) 0027-8424 (Linking).

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Henke, M T; Kelleher, N L

Modern mass spectrometry for synthetic biology and structure-based discovery of natural products Journal Article

Nat Prod Rep, 33 (8), pp. 942-50, 2016, ISSN: 1460-4752 (Electronic) 0265-0568 (Linking).

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Henke, M T; Soukup, A A; Goering, A W; McClure, R A; Thomson, R J; Keller, N P; Kelleher, N L

New Aspercryptins, Lipopeptide Natural Products, Revealed by HDAC Inhibition in Aspergillus nidulans Journal Article

ACS Chem Biol, 11 (8), pp. 2117-23, 2016, ISSN: 1554-8937 (Electronic) 1554-8929 (Linking).

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Kenney, G E; Goering, A W; Ross, M O; DeHart, C J; Thomas, P M; Hoffman, B M; Kelleher, N L; Rosenzweig, A C

Characterization of Methanobactin from Methylosinus sp. LW4 Journal Article

J Am Chem Soc, 138 (35), pp. 11124-7, 2016, ISSN: 1520-5126 (Electronic) 0002-7863 (Linking).

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LaFave, L M; Beguelin, W; Koche, R; Teater, M; Spitzer, B; Chramiec, A; Papalexi, E; Keller, M D; Hricik, T; Konstantinoff, K; Micol, J B; Durham, B; Knutson, S K; Campbell, J E; Blum, G; Shi, X; Doud, E H; Krivtsov, A V; Chung, Y R; Khodos, I; de Stanchina, E; Ouerfelli, O; Adusumilli, P S; Thomas, P M; Kelleher, N L; Luo, M; Keilhack, H; Abdel-Wahab, O; Melnick, A; Armstrong, S A; Levine, R L

Reply to "Uveal melanoma cells are resistant to EZH2 inhibition regardless of BAP1 status" Journal Article

Nat Med, 22 (6), pp. 578-9, 2016, ISSN: 1546-170X (Electronic) 1078-8956 (Linking).

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Liu, F; Koval, M; Ranganathan, S; Fanayan, S; Hancock, W S; Lundberg, E K; Beavis, R C; Lane, L; Duek, P; McQuade, L; Kelleher, N L; Baker, M S

Systems Proteomics View of the Endogenous Human Claudin Protein Family Journal Article

J Proteome Res, 15 (2), pp. 339-59, 2016, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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McClure, R A; Goering, A W; Ju, K S; Baccile, J A; Schroeder, F C; Metcalf, W W; Thomson, R J; Kelleher, N L

Elucidating the Rimosamide-Detoxin Natural Product Families and Their Biosynthesis Using Metabolite/Gene Cluster Correlations Journal Article

ACS Chem Biol, 11 (12), pp. 3452-3460, 2016, ISSN: 1554-8937 (Electronic) 1554-8929 (Linking).

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Melani, R D; Seckler, H S; Skinner, O S; Vale, Do L H; Catherman, A D; Havugimana, P C; de Sousa, Valle M; Domont, G B; Kelleher, N L; Compton, P D

CN-GELFrEE - Clear Native Gel-eluted Liquid Fraction Entrapment Electrophoresis Journal Article

J Vis Exp, (108), pp. 53597, 2016, ISSN: 1940-087X (Electronic) 1940-087X (Linking).

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Melani, R D; Skinner, O S; Fornelli, L; Domont, G B; Compton, P D; Kelleher, N L

Mapping Proteoforms and Protein Complexes From King Cobra Venom Using Both Denaturing and Native Top-down Proteomics Journal Article

Mol Cell Proteomics, 15 (7), pp. 2423-34, 2016, ISSN: 1535-9484 (Electronic) 1535-9476 (Linking).

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Moussazadeh, N; Berman, S H; Laufer, I; Gounder, M; Zheng, Y; Sommer, J; Bilsky, M H; Kelleher, N L; Brennan, C

365 Epigenetic Profiling Reveals a Unique Histone Code in Chordoma Journal Article

Neurosurgery, 63 Suppl 1 , pp. 208, 2016, ISSN: 1524-4040 (Electronic) 0148-396X (Linking).

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Ntai, I; LeDuc, R D; Fellers, R T; Erdmann-Gilmore, P; Davies, S R; Rumsey, J; Early, B P; Thomas, P M; Li, S; Compton, P D; Ellis, M J; Ruggles, K V; Fenyo, D; Boja, E S; Rodriguez, H; Townsend, R R; Kelleher, N L

Integrated Bottom-Up and Top-Down Proteomics of Patient-Derived Breast Tumor Xenografts Journal Article

Mol Cell Proteomics, 15 (1), pp. 45-56, 2016, ISSN: 1535-9484 (Electronic) 1535-9476 (Linking).

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Ntai, I; Toby, T K; LeDuc, R D; Kelleher, N L

A Method for Label-Free, Differential Top-Down Proteomics Journal Article

Methods Mol Biol, 1410 , pp. 121-33, 2016, ISSN: 1940-6029 (Electronic) 1064-3745 (Linking).

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Ong, T H; Romanova, E V; Roberts-Galbraith, R H; Yang, N; Zimmerman, T A; Collins, 3rd J J; Lee, J E; Kelleher, N L; Newmark, P A; Sweedler, J V

Mass Spectrometry Imaging and Identification of Peptides Associated with Cephalic Ganglia Regeneration in Schmidtea mediterranea Journal Article

J Biol Chem, 291 (15), pp. 8109-20, 2016, ISSN: 1083-351X (Electronic) 0021-9258 (Linking).

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Savaryn, J P; Skinner, O S; Fornelli, L; Fellers, R T; Compton, P D; Terhune, S S; Abecassis, M M; Kelleher, N L

Targeted analysis of recombinant NF kappa B (RelA/p65) by denaturing and native top down mass spectrometry Journal Article

J Proteomics, 134 , pp. 76-84, 2016, ISSN: 1876-7737 (Electronic) 1874-3919 (Linking).

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Savaryn, J P; Toby, T K; Catherman, A D; Fellers, R T; LeDuc, R D; Thomas, P M; Friedewald, J J; Salomon, D R; Abecassis, M M; Kelleher, N L

Comparative top down proteomics of peripheral blood mononuclear cells from kidney transplant recipients with normal kidney biopsies or acute rejection Journal Article

Proteomics, 16 (14), pp. 2048-58, 2016, ISSN: 1615-9861 (Electronic) 1615-9853 (Linking).

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Savaryn, J P; Toby, T K; Kelleher, N L

A researcher's guide to mass spectrometry-based proteomics Journal Article

Proteomics, 16 (18), pp. 2435-43, 2016, ISSN: 1615-9861 (Electronic) 1615-9853 (Linking).

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Schroeter, E R; DeHart, C J; Schweitzer, M H; Thomas, P M; Kelleher, N L

Bone protein "extractomics": comparing the efficiency of bone protein extractions of Gallus gallus in tandem mass spectrometry, with an eye towards paleoproteomics Journal Article

PeerJ, 4 , pp. e2603, 2016, ISSN: 2167-8359 (Print).

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Skinner, O S; Havugimana, P C; Haverland, N A; Fornelli, L; Early, B P; Greer, J B; Fellers, R T; Durbin, K R; Vale, Do L H; Melani, R D; Seckler, H S; Nelp, M T; Belov, M E; Horning, S R; Makarov, A A; LeDuc, R D; Bandarian, V; Compton, P D; Kelleher, N L

An informatic framework for decoding protein complexes by top-down mass spectrometry Journal Article

Nat Methods, 13 (3), pp. 237-40, 2016, ISSN: 1548-7105 (Electronic) 1548-7091 (Linking).

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Skinner, O S; Schachner, L F; Kelleher, N L

The Search Engine for Multi-Proteoform Complexes: An Online Tool for the Identification and Stoichiometry Determination of Protein Complexes Journal Article

Curr Protoc Bioinformatics, 56 , pp. 13 30 1-13 30 11, 2016, ISSN: 1934-340X (Electronic) 1934-3396 (Linking).

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Toby, T K; Fornelli, L; Kelleher, N L

Progress in Top-Down Proteomics and the Analysis of Proteoforms Journal Article

Annu Rev Anal Chem (Palo Alto Calif), 9 (1), pp. 499-519, 2016, ISSN: 1936-1335 (Electronic) 1936-1327 (Linking).

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Zheng, Y; Fornelli, L; Compton, P D; Sharma, S; Canterbury, J; Mullen, C; Zabrouskov, V; Fellers, R T; Thomas, P M; Licht, J D; Senko, M W; Kelleher, N L

Unabridged Analysis of Human Histone H3 by Differential Top-Down Mass Spectrometry Reveals Hypermethylated Proteoforms from MMSET/NSD2 Overexpression Journal Article

Mol Cell Proteomics, 15 (3), pp. 776-90, 2016, ISSN: 1535-9484 (Electronic) 1535-9476 (Linking).

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Zheng, Y; Huang, X; Kelleher, N L

Epiproteomics: quantitative analysis of histone marks and codes by mass spectrometry Journal Article

Curr Opin Chem Biol, 33 , pp. 142-50, 2016, ISSN: 1879-0402 (Electronic) 1367-5931 (Linking).

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2015

Albright, J C; Henke, M T; Soukup, A A; McClure, R A; Thomson, R J; Keller, N P; Kelleher, N L

Large-scale metabolomics reveals a complex response of Aspergillus nidulans to epigenetic perturbation Journal Article

ACS Chem Biol, 10 (6), pp. 1535-41, 2015, ISSN: 1554-8937 (Electronic) 1554-8929 (Linking).

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Amiram, M; Haimovich, A D; Fan, C; Wang, Y S; Aerni, H R; Ntai, I; Moonan, D W; Ma, N J; Rovner, A J; Hong, S H; Kelleher, N L; Goodman, A L; Jewett, M C; Soll, D; Rinehart, J; Isaacs, F J

Evolution of translation machinery in recoded bacteria enables multi-site incorporation of nonstandard amino acids Journal Article

Nat Biotechnol, 33 (12), pp. 1272-1279, 2015, ISSN: 1546-1696 (Electronic) 1087-0156 (Linking).

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Bok, J W; Ye, R; Clevenger, K D; Mead, D; Wagner, M; Krerowicz, A; Albright, J C; Goering, A W; Thomas, P M; Kelleher, N L; Keller, N P; Wu, C C

Fungal artificial chromosomes for mining of the fungal secondary metabolome Journal Article

BMC Genomics, 16 , pp. 343, 2015, ISSN: 1471-2164 (Electronic) 1471-2164 (Linking).

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Cleland, T P; Schroeter, E R; Zamdborg, L; Zheng, W; Lee, J E; Tran, J C; Bern, M; Duncan, M B; Lebleu, V S; Ahlf, D R; Thomas, P M; Kalluri, R; Kelleher, N L; Schweitzer, M H

Mass Spectrometry and Antibody-Based Characterization of Blood Vessels from Brachylophosaurus canadensis Journal Article

J Proteome Res, 14 (12), pp. 5252-62, 2015, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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Compton, P D; Fornelli, L; Kelleher, N L; Skinner, O S

Probing Asymmetric Charge Partitioning of Protein Oligomers during Tandem Mass Spectrometry Journal Article

Int J Mass Spectrom, 390 , pp. 132-136, 2015, ISSN: 1387-3806 (Print) 1387-3806 (Linking).

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Dam, D H; Lee, H; Lee, R C; Kim, K H; Kelleher, N L; Odom, T W

Tunable loading of oligonucleotides with secondary structure on gold nanoparticles through a pH-driven method Journal Article

Bioconjug Chem, 26 (2), pp. 279-85, 2015, ISSN: 1520-4812 (Electronic) 1043-1802 (Linking).

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Durbin, K R; Skinner, O S; Fellers, R T; Kelleher, N L

Analyzing internal fragmentation of electrosprayed ubiquitin ions during beam-type collisional dissociation Journal Article

J Am Soc Mass Spectrom, 26 (5), pp. 782-7, 2015, ISSN: 1879-1123 (Electronic) 1044-0305 (Linking).

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Fellers, R T; Greer, J B; Early, B P; Yu, X; LeDuc, R D; Kelleher, N L; Thomas, P M

ProSight Lite: graphical software to analyze top-down mass spectrometry data Journal Article

Proteomics, 15 (7), pp. 1235-8, 2015, ISSN: 1615-9861 (Electronic) 1615-9853 (Linking).

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Hong, S H; Kwon, Y C; Martin, R W; Soye, Des B J; de Paz, A M; Swonger, K N; Ntai, I; Kelleher, N L; Jewett, M C

Improving cell-free protein synthesis through genome engineering of Escherichia coli lacking release factor 1 Journal Article

Chembiochem, 16 (5), pp. 844-53, 2015, ISSN: 1439-7633 (Electronic) 1439-4227 (Linking).

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Kim, K; Compton, P D; Toby, T K; Thomas, P M; Wilkins, J T; Mutharasan, R K; Kelleher, N L

Reducing protein oxidation in low-flow electrospray enables deeper investigation of proteoforms by top down proteomics Journal Article

EuPA Open Proteom, 8 , pp. 40-47, 2015, ISSN: 2212-9685 (Print) 2212-9685 (Linking).

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Kim, K H; Compton, P D; Tran, J C; Kelleher, N L

Online matrix removal platform for coupling gel-based separations to whole protein electrospray ionization mass spectrometry Journal Article

J Proteome Res, 14 (5), pp. 2199-206, 2015, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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LaFave, L M; Beguelin, W; Koche, R; Teater, M; Spitzer, B; Chramiec, A; Papalexi, E; Keller, M D; Hricik, T; Konstantinoff, K; Micol, J B; Durham, B; Knutson, S K; Campbell, J E; Blum, G; Shi, X; Doud, E H; Krivtsov, A V; Chung, Y R; Khodos, I; de Stanchina, E; Ouerfelli, O; Adusumilli, P S; Thomas, P M; Kelleher, N L; Luo, M; Keilhack, H; Abdel-Wahab, O; Melnick, A; Armstrong, S A; Levine, R L

Loss of BAP1 function leads to EZH2-dependent transformation Journal Article

Nat Med, 21 (11), pp. 1344-9, 2015, ISSN: 1546-170X (Electronic) 1078-8956 (Linking).

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Le, H V; Hawker, D D; Wu, R; Doud, E; Widom, J; Sanishvili, R; Liu, D; Kelleher, N L; Silverman, R B

Design and mechanism of tetrahydrothiophene-based gamma-aminobutyric acid aminotransferase inactivators Journal Article

J Am Chem Soc, 137 (13), pp. 4525-33, 2015, ISSN: 1520-5126 (Electronic) 0002-7863 (Linking).

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Lee, H; Doud, E H; Wu, R; Sanishvili, R; Juncosa, J I; Liu, D; Kelleher, N L; Silverman, R B

Mechanism of inactivation of gamma-aminobutyric acid aminotransferase by (1S,3S)-3-amino-4-difluoromethylene-1-cyclopentanoic acid (CPP-115) Journal Article

J Am Chem Soc, 137 (7), pp. 2628-40, 2015, ISSN: 1520-5126 (Electronic) 0002-7863 (Linking).

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Lee, H; Le, H V; Wu, R; Doud, E; Sanishvili, R; Kellie, J F; Compton, P D; Pachaiyappan, B; Liu, D; Kelleher, N L; Silverman, R B

Mechanism of Inactivation of GABA Aminotransferase by (E)- and (Z)-(1S,3S)-3-Amino-4-fluoromethylenyl-1-cyclopentanoic Acid Journal Article

ACS Chem Biol, 10 (9), pp. 2087-98, 2015, ISSN: 1554-8937 (Electronic) 1554-8929 (Linking).

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Lorenzatto, K R; Kim, K; Ntai, I; Paludo, G P; de Lima, Camargo J; Thomas, P M; Kelleher, N L; Ferreira, H B

Top Down Proteomics Reveals Mature Proteoforms Expressed in Subcellular Fractions of the Echinococcus granulosus Preadult Stage Journal Article

J Proteome Res, 14 (11), pp. 4805-14, 2015, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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Skinner, O S; Vale, Do L H; Catherman, A D; Havugimana, P C; de Sousa, M V; Compton, P D; Kelleher, N L

Native GELFrEE: a new separation technique for biomolecular assemblies Journal Article

Anal Chem, 87 (5), pp. 3032-8, 2015, ISSN: 1520-6882 (Electronic) 0003-2700 (Linking).

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Skinner, O S; Kelleher, N L

Illuminating the dark matter of shotgun proteomics Journal Article

Nat Biotechnol, 33 (7), pp. 717-8, 2015, ISSN: 1546-1696 (Electronic) 1087-0156 (Linking).

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Tang, W; Li, H; Doud, E H; Chen, Y; Choing, S; Plaza, C; Kelleher, N L; Poulos, T L; Silverman, R B

Mechanism of Inactivation of Neuronal Nitric Oxide Synthase by (S)-2-Amino-5-(2-(methylthio)acetimidamido)pentanoic Acid Journal Article

J Am Chem Soc, 137 (18), pp. 5980-9, 2015, ISSN: 1520-5126 (Electronic) 0002-7863 (Linking).

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Ye, H; Wang, J; Zhang, Z; Jia, C; Schmerberg, C; Catherman, A D; Thomas, P M; Kelleher, N L; Li, L

Defining the Neuropeptidome of the Spiny Lobster Panulirus interruptus Brain Using a Multidimensional Mass Spectrometry-Based Platform Journal Article

J Proteome Res, 14 (11), pp. 4776-91, 2015, ISSN: 1535-3907 (Electronic) 1535-3893 (Linking).

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Zheng, H; Kim, J; Liew, M; Yan, J K; Herrera, O; Bok, J W; Kelleher, N L; Keller, N P; Wang, Y

Redox metabolites signal polymicrobial biofilm development via the NapA oxidative stress cascade in Aspergillus Journal Article

Curr Biol, 25 (1), pp. 29-37, 2015, ISSN: 1879-0445 (Electronic) 0960-9822 (Linking).

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2014

Albright, J C; Goering, A W; Doroghazi, J R; Metcalf, W W; Kelleher, N L

Strain-specific proteogenomics accelerates the discovery of natural products via their biosynthetic pathways Journal Article

J Ind Microbiol Biotechnol, 41 (2), pp. 451-9, 2014, ISSN: 1476-5535 (Electronic) 1367-5435 (Linking).

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365 entries « 3 of 8 »