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Brook L. Nunn, Ph.D. - Publications

Affiliations: 
2004 Department of Genome Sciences University of Washington, Seattle, Seattle, WA 
Area:
Oceanography, Biology, Biogeochemistry, Chemistry, Genomics
Website:
www.environmentalproteomics.org
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48 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Maas AE, Timmins-Schiffman E, Tarrant AM, Nunn BL, Park J, Blanco-Bercial L. Diel metabolic patterns revealed by in situ transcriptome and proteome in a vertically migratory copepod. Molecular Ecology. e17284. PMID 38258354 DOI: 10.1111/mec.17284  0.806
2023 Gomes KM, Nunn BL, Chappell PD, Jenkins BD. Subcellular proteomics for determining iron-limited remodeling of plastids in the model diatom Thalassiosira pseudonana (Bacillariophyta). Journal of Phycology. PMID 37615442 DOI: 10.1111/jpy.13379  0.333
2022 Strzepek RF, Nunn BL, Bach LT, Berges JA, Young EB, Boyd PW. The ongoing need for rates: can physiology and omics come together to co-design the measurements needed to understand complex ocean biogeochemistry? Journal of Plankton Research. 44: 485-495. PMID 35898813 DOI: 10.1093/plankt/fbac026  0.488
2021 Timmins-Schiffman E, White SJ, Thompson RE, Vadopalas B, Eudeline B, Nunn BL, Roberts SB. Coupled microbiome analyses highlights relative functional roles of bacteria in a bivalve hatchery. Environmental Microbiome. 16: 7. PMID 33902744 DOI: 10.1186/s40793-021-00376-z  0.77
2021 Mudge MC, Nunn BL, Firth E, Ewert M, Hales K, Fondrie WE, Noble WS, Toner J, Light B, Junge KA. Subzero, saline incubations of Colwellia psychrerythraea reveal strategies and biomarkers for sustained life in extreme icy environments. Environmental Microbiology. PMID 33760340 DOI: 10.1111/1462-2920.15485  0.768
2021 Tisthammer KH, Timmins-Schiffman E, Seneca FO, Nunn BL, Richmond RH. Physiological and molecular responses of lobe coral indicate nearshore adaptations to anthropogenic stressors. Scientific Reports. 11: 3423. PMID 33564085 DOI: 10.1038/s41598-021-82569-7  0.793
2020 Johnson RS, Searle BC, Nunn BL, Gilmore JM, Phillips M, Amemiya CT, Heck M, MacCoss MJ. Assessing Protein Sequence Database Suitability Using De Novo Sequencing. Molecular & Cellular Proteomics : McP. 19: 198-208. PMID 33451554 DOI: 10.1074/mcp.TIR119.001752  0.327
2020 Szeinbaum N, Nunn BL, Cavazos AR, Crowe SA, Stewart FJ, DiChristina TJ, Reinhard CT, Glass JB. Novel insights into the taxonomic diversity and molecular mechanisms of bacterial Mn(III) reduction. Environmental Microbiology Reports. PMID 32613749 DOI: 10.1111/1758-2229.12867  0.355
2020 Kumar P, Johnson JE, Easterly C, Mehta S, Sajulga R, Nunn B, Jagtap PD, Griffin TJ. A sectioning and database enrichment approach for improved peptide spectrum matching in large, genome-guided protein sequence databases. Journal of Proteome Research. PMID 32396365 DOI: 10.1021/Acs.Jproteome.0C00260  0.38
2019 Krayushkina D, Timmins-Schiffman E, Faux J, May DH, Riffle M, Harvey HR, Nunn BL. Growth phase proteomics of the heterotrophic marine bacterium Ruegeria pomeroyi. Scientific Data. 6: 303. PMID 31796751 DOI: 10.1038/S41597-019-0308-Y  0.778
2019 Johnson R, Searle BC, Nunn BL, Gilmore JM, Phillips M, Amemiya CT, Heck M, MacCoss MJ. Assessing protein sequence database suitability using de novo sequencing. Molecular & Cellular Proteomics : McP. PMID 31732549 DOI: 10.1074/Mcp.Tir119.001752  0.438
2019 Mikan MP, Harvey HR, Timmins-Schiffman E, Riffle M, May DH, Salter I, Noble WS, Nunn BL. Metaproteomics reveal that rapid perturbations in organic matter prioritize functional restructuring over taxonomy in western Arctic Ocean microbiomes. The Isme Journal. PMID 31492961 DOI: 10.1038/S41396-019-0503-Z  0.768
2019 Spencer LH, Horwith M, Lowe AT, Venkataraman YR, Timmins-Schiffman E, Nunn BL, Roberts SB. Pacific geoduck (Panopea generosa) resilience to natural pH variation. Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics. 30: 91-101. PMID 30818101 DOI: 10.1016/J.Cbd.2019.01.010  0.789
2019 Saito MA, Bertrand EM, Duffy ME, Gaylord DA, Held NA, Hervey WJ, Hettich RL, Jagtap P, Janech MG, Kinkade DB, Leary D, McIlvin M, Moore E, Morris R, Neely BA, ... Nunn B, et al. Progress and Challenges in Ocean Metaproteomics and Proposed Best Practices for Data Sharing. Journal of Proteome Research. PMID 30702898 DOI: 10.1021/Acs.Jproteome.8B00761  0.419
2019 Venkataraman Y, Timmins-Schiffman E, Horwith M, Lowe A, Nunn B, Vadopalas B, Spencer L, Roberts S. Characterization of Pacific oyster Crassostrea gigas proteomic response to natural environmental differences Marine Ecology Progress Series. 610: 65-81. DOI: 10.3354/Meps12858  0.784
2018 Timmins-Schiffman E, Mikan MP, Ting YS, Harvey HR, Nunn BL. MS analysis of a dilution series of bacteria:phytoplankton to improve detection of low abundance bacterial peptides. Scientific Reports. 8: 9276. PMID 29915279 DOI: 10.1038/S41598-018-27650-4  0.787
2018 Blank C, Easterly C, Gruening B, Johnson J, Kolmeder CA, Kumar P, May D, Mehta S, Mesuere B, Brown Z, Elias JE, Hervey WJ, McGowan T, Muth T, Nunn B, et al. Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework. Proteomes. 6. PMID 29385081 DOI: 10.3390/Proteomes6010007  0.703
2017 Riffle M, May DH, Timmins-Schiffman E, Mikan MP, Jaschob D, Noble WS, Nunn BL. MetaGOmics: A Web-Based Tool for Peptide-Centric Functional and Taxonomic Analysis of Metaproteomics Data. Proteomes. 6. PMID 29280960 DOI: 10.3390/Proteomes6010002  0.782
2017 Smith MC, Timmins-Schiffman E, Coton M, Coton E, Hymery N, Nunn BL, Madec S. Differential impacts of individual and combined exposures of deoxynivalenol and zearalenone on the HepaRG human hepatic cell proteome. Journal of Proteomics. 173: 89-98. PMID 29208510 DOI: 10.1016/J.Jprot.2017.11.025  0.79
2017 Timmins-Schiffman EB, Crandall GA, Vadopalas B, Riffle ME, Nunn BL, Roberts S. Integrating discovery-driven proteomics and selected reaction monitoring to develop a non-invasive assay for geoduck reproductive maturation. Journal of Proteome Research. PMID 28730805 DOI: 10.1021/Acs.Jproteome.7B00288  0.774
2017 Pino LK, Searle BC, Bollinger JG, Nunn B, MacLean B, MacCoss MJ. The Skyline ecosystem: Informatics for quantitative mass spectrometry proteomics. Mass Spectrometry Reviews. PMID 28691345 DOI: 10.1002/Mas.21540  0.358
2016 Timmins-Schiffman E, May DH, Mikan M, Riffle M, Frazar C, Harvey HR, Noble WS, Nunn BL. Critical decisions in metaproteomics: achieving high confidence protein annotations in a sea of unknowns. The Isme Journal. PMID 27824341 DOI: 10.1038/Ismej.2016.132  0.752
2016 May DH, Timmins-Schiffman E, Mikan MP, Harvey HR, Borenstein E, Nunn BL, Noble WS. An alignment-free 'metapeptide' strategy for metaproteomic characterization of microbiome samples using shotgun metagenomic sequencing. Journal of Proteome Research. PMID 27396978 DOI: 10.1021/Acs.Jproteome.6B00239  0.76
2016 Boyd PW, Dillingham PW, Mcgraw CM, Armstrong EA, Cornwall CE, Feng YY, Hurd CL, Gault-Ringold M, Roleda MY, Timmins-Schiffman E, Nunn BL. Physiological responses of a Southern Ocean diatom to complex future ocean conditions Nature Climate Change. 6: 207-213. DOI: 10.1038/Nclimate2811  0.768
2015 Bridoux MC, Neibauer J, Ingalls AE, Nunn BL, Keil RG. Suspended marine particulate proteins in coastal and oligotrophic waters Journal of Marine Systems. 143: 39-48. DOI: 10.1016/J.Jmarsys.2014.10.014  0.714
2014 Nunn BL, Slattery KV, Cameron KA, Timmins-Schiffman E, Junge K. Proteomics of Colwellia psychrerythraea at subzero temperatures - a life with limited movement, flexible membranes and vital DNA repair. Environmental Microbiology. PMID 25471130 DOI: 10.1111/1462-2920.12691  0.806
2014 Timmins-Schiffman E, Coffey WD, Hua W, Nunn BL, Dickinson GH, Roberts SB. Shotgun proteomics reveals physiological response to ocean acidification in Crassostrea gigas. Bmc Genomics. 15: 951. PMID 25362893 DOI: 10.1186/1471-2164-15-951  0.759
2014 Poulson-Ellestad KL, Jones CM, Roy J, Viant MR, Fernández FM, Kubanek J, Nunn BL. Metabolomics and proteomics reveal impacts of chemically mediated competition on marine plankton. Proceedings of the National Academy of Sciences of the United States of America. 111: 9009-14. PMID 24889616 DOI: 10.1073/Pnas.1402130111  0.32
2014 Moore E, Harvey H, Faux J, Goodlett D, Nunn B. Electrophoretic Extraction and Proteomic Characterization of Proteins Buried in Marine Sediments Chromatography. 1: 176-193. DOI: 10.3390/Chromatography1040176  0.817
2014 Moore EK, Harvey HR, Faux JF, Goodlett DR, Nunn BL. Protein recycling in Bering Sea algal incubations Marine Ecology Progress Series. 515: 45-59. DOI: 10.3354/Meps10936  0.747
2013 Timmins-Schiffman E, Nunn BL, Goodlett DR, Roberts SB. Shotgun proteomics as a viable approach for biological discovery in the Pacific oyster. Conservation Physiology. 1: cot009. PMID 27293593 DOI: 10.1093/Conphys/Cot009  0.822
2013 Nunn BL, Faux JF, Hippmann AA, Maldonado MT, Harvey HR, Goodlett DR, Boyd PW, Strzepek RF. Diatom proteomics reveals unique acclimation strategies to mitigate Fe limitation. Plos One. 8: e75653. PMID 24146769 DOI: 10.1371/Journal.Pone.0075653  0.732
2013 Morris RM, Nunn BL. Sample preparation and processing for planktonic microbial community proteomics. Methods in Enzymology. 531: 271-87. PMID 24060126 DOI: 10.1016/B978-0-12-407863-5.00014-9  0.437
2013 Mattes TE, Nunn BL, Marshall KT, Proskurowski G, Kelley DS, Kawka OE, Goodlett DR, Hansell DA, Morris RM. Sulfur oxidizers dominate carbon fixation at a biogeochemical hot spot in the dark ocean. The Isme Journal. 7: 2349-60. PMID 23842654 DOI: 10.1038/Ismej.2013.113  0.535
2012 Moore EK, Nunn BL, Goodlett DR, Harvey HR. Identifying and tracking proteins through the marine water column: insights into the inputs and preservation mechanisms of protein in sediments. Geochimica Et Cosmochimica Acta. 83: 324-359. PMID 22711915 DOI: 10.1016/J.Gca.2012.01.002  0.817
2012 Moore EK, Nunn BL, Faux JF, Goodlett DR, Harvey HR. Evaluation of electrophoretic protein extraction and database-driven protein identification from marine sediments Limnology and Oceanography: Methods. 10: 353-366. DOI: 10.4319/Lom.2012.10.353  0.819
2011 Velasquez I, Nunn BL, Ibisanmi E, Goodlett DR, Hunter KA, Sander SG. Detection of hydroxamate siderophores in coastal and Sub-Antarctic waters off the South Eastern Coast of New Zealand Marine Chemistry. 126: 97-107. DOI: 10.1016/J.Marchem.2011.04.003  0.509
2010 McMillan DG, Velasquez I, Nunn BL, Goodlett DR, Hunter KA, Lamont I, Sander SG, Cook GM. Acquisition of iron by alkaliphilic bacillus species. Applied and Environmental Microbiology. 76: 6955-61. PMID 20802068 DOI: 10.1128/Aem.01393-10  0.495
2010 Morris RM, Nunn BL, Frazar C, Goodlett DR, Ting YS, Rocap G. Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction. The Isme Journal. 4: 673-85. PMID 20164862 DOI: 10.1038/Ismej.2010.4  0.605
2010 Nunn BL, Ting YS, Malmström L, Tsai YS, Squier A, Goodlett DR, Harvey HR. The path to preservation: Using proteomics to decipher the fate of diatom proteins during microbial degradation Limnology and Oceanography. 55: 1790-1804. DOI: 10.4319/Lo.2010.55.4.1790  0.819
2009 Nunn BL, Aker JR, Shaffer SA, Tsai S, Strzepek RF, Boyd PW, Freeman TL, Brittnacher M, Malmström L, Goodlett DR. Deciphering diatom biochemical pathways via whole-cell proteomics. Aquatic Microbial Ecology : International Journal. 55: 241-253. PMID 19829762 DOI: 10.3354/Ame01284  0.808
2009 Hengel SM, Shaffer SA, Nunn BL, Goodlett DR. Tandem mass spectrometry investigation of ADP-ribosylated kemptide. Journal of the American Society For Mass Spectrometry. 20: 477-83. PMID 19070509 DOI: 10.1016/J.Jasms.2008.10.025  0.774
2007 Nunn BL, Timperman AT. Marine proteomics Marine Ecology Progress Series. 332: 281-289. DOI: 10.3354/meps332281  0.365
2006 Nunn BL, Shaffer SA, Scherl A, Gallis B, Wu M, Miller SI, Goodlett DR. Comparison of a Salmonella typhimurium proteome defined by shotgun proteomics directly on an LTQ-FT and by proteome pre-fractionation on an LCQ-DUO. Briefings in Functional Genomics & Proteomics. 5: 154-68. PMID 16798750 DOI: 10.1093/Bfgp/Ell024  0.796
2006 Nunn BL, Keil RG. A comparison of non-hydrolytic methods for extracting amino acids and proteins from coastal marine sediments Marine Chemistry. 98: 31-42. DOI: 10.1016/J.Marchem.2005.06.005  0.624
2005 Nunn BL, Keil RG. Size distribution and amino acid chemistry of base-extractable proteins from Washington coast sediments Biogeochemistry. 75: 177-200. DOI: 10.1007/S10533-004-6546-9  0.638
2004 Keil RG, Dickens AF, Arnarson T, Nunn BL, Devol AH. What is the oxygen exposure time of laterally transported organic matter along the Washington margin? Marine Chemistry. 92: 157-165. DOI: 10.1016/J.Marchem.2004.06.024  0.762
2003 Nunn BL, Norbeck A, Keil RG. Hydrolysis patterns and the production of peptide intermediates during protein degradation in marine systems Marine Chemistry. 83: 59-73. DOI: 10.1016/S0304-4203(03)00096-3  0.691
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