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Best matches for Paša-Tolić L[au]:

High-throughput proteomics. Zhang Z et al. Annu Rev Anal Chem (Palo Alto Calif). (2014)

Informed-Proteomics: open-source software package for top-down proteomics. Park J et al. Nat Methods. (2017)

Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention. Smallwood HS et al. Cell Rep. (2017)

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Items: 1 to 50 of 180


Dealing with complexity: general discussion.

Afonso C, Barrow MP, Bell NGA, Davies AN, Duca D, Focsa C, Gauchotte-Lindsay C, Giusti P, Godfrey R, Goodacre R, Hawkes JA, Hertkorn N, Jansen JJ, Jones D, Kew W, Le Guennec A, Lubben A, Paša-Tolić L, Rodgers RP, Rüger CP, Schmitt-Kopplin P, Schoenmakers PJ, Sciarrone D, Summerfield S, Uhrín D, van Zelst FHM.

Faraday Discuss. 2019 Aug 15;218(0):138-156. doi: 10.1039/C9FD90055A. No abstract available.


Data mining and visualisation: general discussion.

Afonso C, Barrow MP, Davies AN, Delsuc MA, Ebbels T, Fernandez-Lima F, Gauchotte-Lindsay C, Giusti P, Goodacre R, Hertkorn N, Jansen JJ, Jones D, Kew W, Kuhn S, Le Guennec A, Lubben A, Parkinson J, Paša-Tolić L, Rogers S, Rudd TR, Schoenmakers PJ, Sidebottom P, Summerfield S, Tinnevelt GH, Trifirò G, Trygg J, van der Hooft JJJ.

Faraday Discuss. 2019 Aug 15;218(0):354-371. doi: 10.1039/C9FD90044F. No abstract available.


High resolution techniques: general discussion.

Adair E, Afonso C, Bell NGA, Davies AN, Delsuc MA, Godfrey R, Goodacre R, Hawkes JA, Hertkorn N, Jones D, Lameiras P, Le Guennec A, Lubben A, Nilsson M, Paša-Tolić L, Richards J, Rodgers RP, Rüger CP, Schmitt-Kopplin P, Schoenmakers PJ, Sidebottom P, Staerk D, Summerfield S, Uhrín D, van Delft P, van der Hooft JJJ, van Zelst FHM, Zherebker A.

Faraday Discuss. 2019 Aug 15;218(0):247-267. doi: 10.1039/c9fd90045d. No abstract available.


Best practices and benchmarks for intact protein analysis for top-down mass spectrometry.

Donnelly DP, Rawlins CM, DeHart CJ, Fornelli L, Schachner LF, Lin Z, Lippens JL, Aluri KC, Sarin R, Chen B, Lantz C, Jung W, Johnson KR, Koller A, Wolff JJ, Campuzano IDG, Auclair JR, Ivanov AR, Whitelegge JP, Paša-Tolić L, Chamot-Rooke J, Danis PO, Smith LM, Tsybin YO, Loo JA, Ge Y, Kelleher NL, Agar JN.

Nat Methods. 2019 Jul;16(7):587-594. doi: 10.1038/s41592-019-0457-0. Epub 2019 Jun 27. Review.


Online supercritical fluid extraction mass spectrometry (SFE-LC-FTMS) for sensitive characterization of soil organic matter.

Shen Y, Zhao R, Tolić N, Tfaily MM, Robinson EW, Boiteau R, Paša-Tolić L, Hess NJ.

Faraday Discuss. 2019 Aug 15;218(0):157-171. doi: 10.1039/c9fd00011a.


Ambient Metabolic Profiling and Imaging of Biological Samples with Ultrahigh Molecular Resolution Using Laser Ablation Electrospray Ionization 21 Tesla FTICR Mass Spectrometry.

Stopka SA, Samarah LZ, Shaw JB, Liyu AV, Veličković D, Agtuca BJ, Kukolj C, Koppenaal DW, Stacey G, Paša-Tolić L, Anderton CR, Vertes A.

Anal Chem. 2019 Apr 16;91(8):5028-5035. doi: 10.1021/acs.analchem.8b05084. Epub 2019 Mar 12.


Atmo-ecometabolomics: a novel atmospheric particle chemical characterization methodology for ecological research.

Rivas-Ubach A, Liu Y, Steiner AL, Sardans J, Tfaily MM, Kulkarni G, Kim YM, Bourrianne E, Paša-Tolić L, Peñuelas J, Guenther A.

Environ Monit Assess. 2019 Jan 16;191(2):78. doi: 10.1007/s10661-019-7205-x.


We Are What We Eat: A Stoichiometric and Ecometabolomic Study of Caterpillars Feeding on Two Pine Subspecies of Pinus sylvestris.

Rivas-Ubach A, Peñuelas J, Hódar JA, Oravec M, Paša-Tolić L, Urban O, Sardans J.

Int J Mol Sci. 2018 Dec 24;20(1). pii: E59. doi: 10.3390/ijms20010059.


Metabolic Noise and Distinct Subpopulations Observed by Single Cell LAESI Mass Spectrometry of Plant Cells in situ.

Stopka SA, Khattar R, Agtuca BJ, Anderton CR, Paša-Tolić L, Stacey G, Vertes A.

Front Plant Sci. 2018 Nov 15;9:1646. doi: 10.3389/fpls.2018.01646. eCollection 2018.


Siderophore profiling of co-habitating soil bacteria by ultra-high resolution mass spectrometry.

Boiteau RM, Fansler SJ, Farris Y, Shaw JB, Koppenaal DW, Pasa-Tolic L, Jansson JK.

Metallomics. 2019 Jan 23;11(1):166-175. doi: 10.1039/c8mt00252e.


Increasing the Separation Capacity of Intact Histone Proteoforms Chromatography Coupling Online Weak Cation Exchange-HILIC to Reversed Phase LC UVPD-HRMS.

Gargano AFG, Shaw JB, Zhou M, Wilkins CS, Fillmore TL, Moore RJ, Somsen GW, Paša-Tolić L.

J Proteome Res. 2018 Nov 2;17(11):3791-3800. doi: 10.1021/acs.jproteome.8b00458. Epub 2018 Oct 8.


Observed metabolic asymmetry within soybean root nodules reflects unexpected complexity in rhizobacteria-legume metabolite exchange.

Veličković D, Agtuca BJ, Stopka SA, Vertes A, Koppenaal DW, Paša-Tolić L, Stacey G, Anderton CR.

ISME J. 2018 Sep;12(9):2335-2338. doi: 10.1038/s41396-018-0188-8. Epub 2018 Jun 13.


Author Correction: Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2018 Jul;15(7):554. doi: 10.1038/s41592-018-0040-0.


Toward individual glomerular phenotyping: advent of precision medicine in kidney biopsies.

Sharma K, Paša-Tolić L.

Kidney Int. 2018 Jun;93(6):1265-1267. doi: 10.1016/j.kint.2018.01.035.


Moving beyond the van Krevelen Diagram: A New Stoichiometric Approach for Compound Classification in Organisms.

Rivas-Ubach A, Liu Y, Bianchi TS, Tolić N, Jansson C, Paša-Tolić L.

Anal Chem. 2018 May 15;90(10):6152-6160. doi: 10.1021/acs.analchem.8b00529. Epub 2018 Apr 27.


High Speed Intact Protein Characterization Using 4X Frequency Multiplication, Ion Trap Harmonization, and 21 Tesla FTICR-MS.

Shaw JB, Gorshkov MV, Wu Q, Paša-Tolić L.

Anal Chem. 2018 May 1;90(9):5557-5562. doi: 10.1021/acs.analchem.7b04606. Epub 2018 Apr 13.


Subnanogram proteomics: impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples.

Zhu Y, Zhao R, Piehowski PD, Moore RJ, Lim S, Orphan VJ, Paša-Tolić L, Qian WJ, Smith RD, Kelly RT.

Int J Mass Spectrom. 2018 Apr;427:4-10. doi: 10.1016/j.ijms.2017.08.016. Epub 2017 Sep 1.


"Candidatus Paraporphyromonas polyenzymogenes" encodes multi-modular cellulases linked to the type IX secretion system.

Naas AE, Solden LM, Norbeck AD, Brewer H, Hagen LH, Heggenes IM, McHardy AC, Mackie RI, Paša-Tolić L, Arntzen MØ, Eijsink VGH, Koropatkin NM, Hess M, Wrighton KC, Pope PB.

Microbiome. 2018 Mar 1;6(1):44. doi: 10.1186/s40168-018-0421-8.


ProForma: A Standard Proteoform Notation.

LeDuc RD, Schwämmle V, Shortreed MR, Cesnik AJ, Solntsev SK, Shaw JB, Martin MJ, Vizcaino JA, Alpi E, Danis P, Kelleher NL, Smith LM, Ge Y, Agar JN, Chamot-Rooke J, Loo JA, Pasa-Tolic L, Tsybin YO.

J Proteome Res. 2018 Mar 2;17(3):1321-1325. doi: 10.1021/acs.jproteome.7b00851. Epub 2018 Feb 14.


Surface Induced Dissociation Coupled with High Resolution Mass Spectrometry Unveils Heterogeneity of a 211 kDa Multicopper Oxidase Protein Complex.

Zhou M, Yan J, Romano CA, Tebo BM, Wysocki VH, Paša-Tolić L.

J Am Soc Mass Spectrom. 2018 Apr;29(4):723-733. doi: 10.1007/s13361-017-1882-x. Epub 2018 Jan 31.


Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil.

Yao Q, Li Z, Song Y, Wright SJ, Guo X, Tringe SG, Tfaily MM, Paša-Tolić L, Hazen TC, Turner BL, Mayes MA, Pan C.

Nat Ecol Evol. 2018 Mar;2(3):499-509. doi: 10.1038/s41559-017-0463-5. Epub 2018 Jan 22.


Multimodal MSI in Conjunction with Broad Coverage Spatially Resolved MS2 Increases Confidence in Both Molecular Identification and Localization.

Veličković D, Chu RK, Carrell AA, Thomas M, Paša-Tolić L, Weston DJ, Anderton CR.

Anal Chem. 2018 Jan 2;90(1):702-707. doi: 10.1021/acs.analchem.7b04319. Epub 2017 Dec 19.


Close and distant: Contrasting the metabolism of two closely related subspecies of Scots pine under the effects of folivory and summer drought.

Rivas-Ubach A, Sardans J, Hódar JA, Garcia-Porta J, Guenther A, Paša-Tolić L, Oravec M, Urban O, Peñuelas J.

Ecol Evol. 2017 Sep 25;7(21):8976-8988. doi: 10.1002/ece3.3343. eCollection 2017 Nov.


Formularity: Software for Automated Formula Assignment of Natural and Other Organic Matter from Ultrahigh-Resolution Mass Spectra.

Tolić N, Liu Y, Liyu A, Shen Y, Tfaily MM, Kujawinski EB, Longnecker K, Kuo LJ, Robinson EW, Paša-Tolić L, Hess NJ.

Anal Chem. 2017 Dec 5;89(23):12659-12665. doi: 10.1021/acs.analchem.7b03318. Epub 2017 Nov 21.


De Novo Sequencing of Peptides from High-Resolution Bottom-Up Tandem Mass Spectra using Top-Down Intended Methods.

Vyatkina K, Dekker LJM, Wu S, VanDuijn MM, Liu X, Tolić N, Luider TM, Paša-Tolić L.

Proteomics. 2017 Dec;17(23-24). doi: 10.1002/pmic.201600321.


A compendium of multi-omic sequence information from the Saanich Inlet water column.

Hawley AK, Torres-Beltrán M, Zaikova E, Walsh DA, Mueller A, Scofield M, Kheirandish S, Payne C, Pakhomova L, Bhatia M, Shevchuk O, Gies EA, Fairley D, Malfatti SA, Norbeck AD, Brewer HM, Pasa-Tolic L, Del Rio TG, Suttle CA, Tringe S, Hallam SJ.

Sci Data. 2017 Oct 31;4:170160. doi: 10.1038/sdata.2017.160.


Biogenic manganese oxide nanoparticle formation by a multimeric multicopper oxidase Mnx.

Romano CA, Zhou M, Song Y, Wysocki VH, Dohnalkova AC, Kovarik L, Paša-Tolić L, Tebo BM.

Nat Commun. 2017 Sep 29;8(1):746. doi: 10.1038/s41467-017-00896-8.


Informed-Proteomics: open-source software package for top-down proteomics.

Park J, Piehowski PD, Wilkins C, Zhou M, Mendoza J, Fujimoto GM, Gibbons BC, Shaw JB, Shen Y, Shukla AK, Moore RJ, Liu T, Petyuk VA, Tolić N, Paša-Tolić L, Smith RD, Payne SH, Kim S.

Nat Methods. 2017 Sep;14(9):909-914. doi: 10.1038/nmeth.4388. Epub 2017 Aug 7. Erratum in: Nat Methods. 2018 Jul;15(7):554.


Quantitative iTRAQ-based secretome analysis reveals species-specific and temporal shifts in carbon utilization strategies among manganese(II)-oxidizing Ascomycete fungi.

Zeiner CA, Purvine SO, Zink EM, Paša-Tolić L, Chaput DL, Wu S, Santelli CM, Hansel CM.

Fungal Genet Biol. 2017 Sep;106:61-75. doi: 10.1016/j.fgb.2017.06.004. Epub 2017 Jul 1.


Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism.

Staley C, Ferrieri AP, Tfaily MM, Cui Y, Chu RK, Wang P, Shaw JB, Ansong CK, Brewer H, Norbeck AD, Markillie M, do Amaral F, Tuleski T, Pellizzaro T, Agtuca B, Ferrieri R, Tringe SG, Paša-Tolić L, Stacey G, Sadowsky MJ.

Microbiome. 2017 Jun 24;5(1):65. doi: 10.1186/s40168-017-0287-1.


Targeting Metabolic Reprogramming by Influenza Infection for Therapeutic Intervention.

Smallwood HS, Duan S, Morfouace M, Rezinciuc S, Shulkin BL, Shelat A, Zink EE, Milasta S, Bajracharya R, Oluwaseum AJ, Roussel MF, Green DR, Pasa-Tolic L, Thomas PG.

Cell Rep. 2017 May 23;19(8):1640-1653. doi: 10.1016/j.celrep.2017.04.039.


Sequential extraction protocol for organic matter from soils and sediments using high resolution mass spectrometry.

Tfaily MM, Chu RK, Toyoda J, Tolić N, Robinson EW, Paša-Tolić L, Hess NJ.

Anal Chim Acta. 2017 Jun 15;972:54-61. doi: 10.1016/j.aca.2017.03.031. Epub 2017 Mar 31.


Quantitative cardiac phosphoproteomics profiling during ischemia-reperfusion in an immature swine model.

Ledee D, Kang MA, Kajimoto M, Purvine S, Brewer H, Pasa-Tolic L, Portman MA.

Am J Physiol Heart Circ Physiol. 2017 Jul 1;313(1):H125-H137. doi: 10.1152/ajpheart.00842.2016. Epub 2017 Apr 28.


A mass graph-based approach for the identification of modified proteoforms using top-down tandem mass spectra.

Kou Q, Wu S, Tolic N, Paša-Tolic L, Liu Y, Liu X.

Bioinformatics. 2017 May 1;33(9):1309-1316. doi: 10.1093/bioinformatics/btw806.


Laser-ablation electrospray ionization mass spectrometry with ion mobility separation reveals metabolites in the symbiotic interactions of soybean roots and rhizobia.

Stopka SA, Agtuca BJ, Koppenaal DW, Paša-Tolić L, Stacey G, Vertes A, Anderton CR.

Plant J. 2017 Jul;91(2):340-354. doi: 10.1111/tpj.13569. Epub 2017 May 23.


High-resolution ultrahigh-pressure long column reversed-phase liquid chromatography for top-down proteomics.

Shen Y, Tolić N, Piehowski PD, Shukla AK, Kim S, Zhao R, Qu Y, Robinson E, Smith RD, Paša-Tolić L.

J Chromatogr A. 2017 May 19;1498:99-110. doi: 10.1016/j.chroma.2017.01.008. Epub 2017 Jan 5.


Molecular Characterization of Organosulfur Compounds in Biodiesel and Diesel Fuel Secondary Organic Aerosol.

Blair SL, MacMillan AC, Drozd GT, Goldstein AH, Chu RK, Paša-Tolić L, Shaw JB, Tolić N, Lin P, Laskin J, Laskin A, Nizkorodov SA.

Environ Sci Technol. 2017 Jan 3;51(1):119-127. doi: 10.1021/acs.est.6b03304. Epub 2016 Dec 22.


Profiling of Histone Post-Translational Modifications in Mouse Brain with High-Resolution Top-Down Mass Spectrometry.

Zhou M, Paša-Tolić L, Stenoien DL.

J Proteome Res. 2017 Feb 3;16(2):599-608. doi: 10.1021/acs.jproteome.6b00694. Epub 2016 Dec 21.


Surface-Induced Dissociation of Protein Complexes in a Hybrid Fourier Transform Ion Cyclotron Resonance Mass Spectrometer.

Yan J, Zhou M, Gilbert JD, Wolff JJ, Somogyi Á, Pedder RE, Quintyn RS, Morrison LJ, Easterling ML, Paša-Tolić L, Wysocki VH.

Anal Chem. 2017 Jan 3;89(1):895-901. doi: 10.1021/acs.analchem.6b03986. Epub 2016 Dec 15.


Unambiguous identification and discovery of bacterial siderophores by direct injection 21 Tesla Fourier transform ion cyclotron resonance mass spectrometry.

Walker LR, Tfaily MM, Shaw JB, Hess NJ, Paša-Tolić L, Koppenaal DW.

Metallomics. 2017 Jan 25;9(1):82-92. doi: 10.1039/c6mt00201c.


Profiling Changes in Histone Post-translational Modifications by Top-Down Mass Spectrometry.

Zhou M, Wu S, Stenoien DL, Zhang Z, Connolly L, Freitag M, Paša-Tolić L.

Methods Mol Biol. 2017;1507:153-168.


21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometer Greatly Expands Mass Spectrometry Toolbox.

Shaw JB, Lin TY, Leach FE 3rd, Tolmachev AV, Tolić N, Robinson EW, Koppenaal DW, Paša-Tolić L.

J Am Soc Mass Spectrom. 2016 Dec;27(12):1929-1936. Epub 2016 Oct 12.


Comparative Analysis of Secretome Profiles of Manganese(II)-Oxidizing Ascomycete Fungi.

Zeiner CA, Purvine SO, Zink EM, Paša-Tolić L, Chaput DL, Haridas S, Wu S, LaButti K, Grigoriev IV, Henrissat B, Santelli CM, Hansel CM.

PLoS One. 2016 Jul 19;11(7):e0157844. doi: 10.1371/journal.pone.0157844. eCollection 2016.


Characterization of Proteoforms with Unknown Post-translational Modifications Using the MIScore.

Kou Q, Zhu B, Wu S, Ansong C, Tolić N, Paša-Tolić L, Liu X.

J Proteome Res. 2016 Aug 5;15(8):2422-32. doi: 10.1021/acs.jproteome.5b01098. Epub 2016 Jul 1.


Soybean Roots Grown under Heat Stress Show Global Changes in Their Transcriptional and Proteomic Profiles.

Valdés-López O, Batek J, Gomez-Hernandez N, Nguyen CT, Isidra-Arellano MC, Zhang N, Joshi T, Xu D, Hixson KK, Weitz KK, Aldrich JT, Paša-Tolić L, Stacey G.

Front Plant Sci. 2016 Apr 25;7:517. doi: 10.3389/fpls.2016.00517. eCollection 2016.


Top-down analysis of protein samples by de novo sequencing techniques.

Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Luider TM, Paša-Tolić L, Pevzner PA.

Bioinformatics. 2016 Sep 15;32(18):2753-9. doi: 10.1093/bioinformatics/btw307. Epub 2016 May 14.


Vacuum Ultraviolet Photodissociation and Fourier Transform-Ion Cyclotron Resonance (FT-ICR) Mass Spectrometry: Revisited.

Shaw JB, Robinson EW, Paša-Tolić L.

Anal Chem. 2016 Mar 15;88(6):3019-23. doi: 10.1021/acs.analchem.6b00148. Epub 2016 Feb 26.


Utilizing a Robotic Sprayer for High Lateral and Mass Resolution MALDI FT-ICR MSI of Microbial Cultures.

Anderton CR, Chu RK, Tolić N, Creissen A, Paša-Tolić L.

J Am Soc Mass Spectrom. 2016 Mar;27(3):556-9. doi: 10.1007/s13361-015-1324-6. Epub 2016 Jan 4.


An adaptable multiple power source for mass spectrometry and other scientific instruments.

Lin TY, Anderson GA, Norheim RV, Prost SA, LaMarche BL, Leach FE 3rd, Auberry KJ, Smith RD, Koppenaal DW, Robinson EW, Paša-Tolić L.

Rev Sci Instrum. 2015 Sep;86(9):094102. doi: 10.1063/1.4930967.


De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra.

Vyatkina K, Wu S, Dekker LJ, VanDuijn MM, Liu X, Tolić N, Dvorkin M, Alexandrova S, Luider TM, Paša-Tolić L, Pevzner PA.

J Proteome Res. 2015 Nov 6;14(11):4450-62. doi: 10.1021/pr501244v. Epub 2015 Oct 13.


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