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Identification of metabolic profiles associated with human exposure to perfluoroalkyl substances.

Salihovic S, Fall T, Ganna A, Broeckling CD, Prenni JE, Hyötyläinen T, Kärrman A, Lind PM, Ingelsson E, Lind L.

J Expo Sci Environ Epidemiol. 2018 Sep 5. doi: 10.1038/s41370-018-0060-y. [Epub ahead of print]


Metabolomics and Ionomics of Potato Tuber Reveals an Influence of Cultivar and Market Class on Human Nutrients and Bioactive Compounds.

Chaparro JM, Holm DG, Broeckling CD, Prenni JE, Heuberger AL.

Front Nutr. 2018 May 23;5:36. doi: 10.3389/fnut.2018.00036. eCollection 2018.


Glucose challenge metabolomics implicates medium-chain acylcarnitines in insulin resistance.

Nowak C, Hetty S, Salihovic S, Castillejo-Lopez C, Ganna A, Cook NL, Broeckling CD, Prenni JE, Shen X, Giedraitis V, Ärnlöv J, Lind L, Berne C, Sundström J, Fall T, Ingelsson E.

Sci Rep. 2018 Jun 6;8(1):8691. doi: 10.1038/s41598-018-26701-0.


Seasonal Changes in Endocannabinoid Concentrations between Active and Hibernating Marmots (Marmota flaviventris).

Mulawa EA, Kirkwood JS, Wolfe LM, Wojda SJ, Prenni JE, Florant GL, Donahue SW.

J Biol Rhythms. 2018 Aug;33(4):388-401. doi: 10.1177/0748730418777660. Epub 2018 Jun 4.


Comprehensive Tandem-Mass-Spectrometry Coverage of Complex Samples Enabled by Data-Set-Dependent Acquisition.

Broeckling CD, Hoyes E, Richardson K, Brown JM, Prenni JE.

Anal Chem. 2018 Jul 3;90(13):8020-8027. doi: 10.1021/acs.analchem.8b00929. Epub 2018 Jun 15.


Biochemical Characterization of Isoniazid-resistant Mycobacterium tuberculosis: Can the Analysis of Clonal Strains Reveal Novel Targetable Pathways?

Nieto R LM, Mehaffy C, Islam MN, Fitzgerald B, Belisle J, Prenni J, Dobos K.

Mol Cell Proteomics. 2018 Sep;17(9):1685-1701. doi: 10.1074/mcp.RA118.000821. Epub 2018 May 29.


Adaptive remodeling of skeletal muscle energy metabolism in high-altitude hypoxia: Lessons from AltitudeOmics.

Chicco AJ, Le CH, Gnaiger E, Dreyer HC, Muyskens JB, D'Alessandro A, Nemkov T, Hocker AD, Prenni JE, Wolfe LM, Sindt NM, Lovering AT, Subudhi AW, Roach RC.

J Biol Chem. 2018 May 4;293(18):6659-6671. doi: 10.1074/jbc.RA117.000470. Epub 2018 Mar 14.


Common bean varieties demonstrate differential physiological and metabolic responses to the pathogenic fungus Sclerotinia sclerotiorum.

Robison FM, Turner MF, Jahn CE, Schwartz HF, Prenni JE, Brick MA, Heuberger AL.

Plant Cell Environ. 2018 Feb 24. doi: 10.1111/pce.13176. [Epub ahead of print]


Ion-neutral Clustering of Bile Acids in Electrospray Ionization Across UPLC Flow Regimes.

Brophy P, Broeckling CD, Murphy J, Prenni JE.

J Am Soc Mass Spectrom. 2018 Apr;29(4):651-662. doi: 10.1007/s13361-017-1878-6. Epub 2018 Feb 9.


Stacked Injections of Biphasic Extractions for Improved Metabolomic Coverage and Sample Throughput.

Broeckling CD, Prenni JE.

Anal Chem. 2018 Jan 16;90(2):1147-1153. doi: 10.1021/acs.analchem.7b03654. Epub 2018 Jan 2.


MALDI-TOF-MS with PLS Modeling Enables Strain Typing of the Bacterial Plant Pathogen Xanthomonas axonopodis.

Sindt NM, Robison F, Brick MA, Schwartz HF, Heuberger AL, Prenni JE.

J Am Soc Mass Spectrom. 2018 Feb;29(2):413-421. doi: 10.1007/s13361-017-1839-0. Epub 2017 Nov 27.


Pregnancy-induced changes in metabolome and proteome in ovine uterine flushings.

Romero JJ, Liebig BE, Broeckling CD, Prenni JE, Hansen TR.

Biol Reprod. 2017 Aug 1;97(2):273-287. doi: 10.1093/biolre/iox078.


Gender Diversity in a STEM Subfield - Analysis of a Large Scientific Society and Its Annual Conferences.

Shishkova E, Kwiecien NW, Hebert AS, Westphall MS, Prenni JE, Coon JJ.

J Am Soc Mass Spectrom. 2017 Dec;28(12):2523-2531. doi: 10.1007/s13361-017-1803-z. Epub 2017 Sep 26.


Correction: Effect of Insulin Resistance on Monounsaturated Fatty Acid Levels: A Multi-cohort Non-targeted Metabolomics and Mendelian Randomization Study.

Nowak C, Salihovic S, Ganna A, Brandmaier S, Tukiainen T, Broeckling CD, Magnusson PK, Prenni JE, Wang-Sattler R, Peters A, Strauch K, Meitinger T, Giedraitis V, Ärnlöv J, Berne C, Gieger C, Ripatti S, Lind L, Pedersen NL, Sundström J, Ingelsson E, Fall T.

PLoS Genet. 2017 Sep 14;13(9):e1007002. doi: 10.1371/journal.pgen.1007002. eCollection 2017 Sep.


Impact of inoculum sources on biotransformation of pharmaceuticals and personal care products.

Kim S, Rossmassler K, Broeckling CD, Galloway S, Prenni J, De Long SK.

Water Res. 2017 Nov 15;125:227-236. doi: 10.1016/j.watres.2017.08.041. Epub 2017 Aug 21.


Metabolomics of the tick-Borrelia interaction during the nymphal tick blood meal.

Hoxmeier JC, Fleshman AC, Broeckling CD, Prenni JE, Dolan MC, Gage KL, Eisen L.

Sci Rep. 2017 Mar 13;7:44394. doi: 10.1038/srep44394.


Effect of Insulin Resistance on Monounsaturated Fatty Acid Levels: A Multi-cohort Non-targeted Metabolomics and Mendelian Randomization Study.

Nowak C, Salihovic S, Ganna A, Brandmaier S, Tukiainen T, Broeckling CD, Magnusson PK, Prenni JE, Wang-Sattler R, Peters A, Strauch K, Meitinger T, Giedraitis V, Ärnlöv J, Berne C, Gieger C, Ripatti S, Lind L, Pedersen NL, Sundström J, Ingelsson E, Fall T.

PLoS Genet. 2016 Oct 21;12(10):e1006379. doi: 10.1371/journal.pgen.1006379. eCollection 2016 Oct. Erratum in: PLoS Genet. 2017 Sep 14;13(9):e1007002.


Exploring the Bone Proteome to Help Explain Altered Bone Remodeling and Preservation of Bone Architecture and Strength in Hibernating Marmots.

Doherty AH, Roteliuk DM, Gookin SE, McGrew AK, Broccardo CJ, Condon KW, Prenni JE, Wojda SJ, Florant GL, Donahue SW.

Physiol Biochem Zool. 2016 Sep-Oct;89(5):364-76. doi: 10.1086/687413. Epub 2016 Jun 29.


A novel microflow LC-MS method for the quantitation of endocannabinoids in serum.

Kirkwood JS, Broeckling CD, Donahue S, Prenni JE.

J Chromatogr B Analyt Technol Biomed Life Sci. 2016 Oct 15;1033-1034:271-277. doi: 10.1016/j.jchromb.2016.08.035. Epub 2016 Aug 22.


Enabling Efficient and Confident Annotation of LC-MS Metabolomics Data through MS1 Spectrum and Time Prediction.

Broeckling CD, Ganna A, Layer M, Brown K, Sutton B, Ingelsson E, Peers G, Prenni JE.

Anal Chem. 2016 Sep 20;88(18):9226-34. doi: 10.1021/acs.analchem.6b02479. Epub 2016 Sep 8.


Non-targeted Metabolomics in Diverse Sorghum Breeding Lines Indicates Primary and Secondary Metabolite Profiles Are Associated with Plant Biomass Accumulation and Photosynthesis.

Turner MF, Heuberger AL, Kirkwood JS, Collins CC, Wolfrum EJ, Broeckling CD, Prenni JE, Jahn CE.

Front Plant Sci. 2016 Jul 11;7:953. doi: 10.3389/fpls.2016.00953. eCollection 2016.


Non-targeted metabolomics combined with genetic analyses identifies bile acid synthesis and phospholipid metabolism as being associated with incident type 2 diabetes.

Fall T, Salihovic S, Brandmaier S, Nowak C, Ganna A, Gustafsson S, Broeckling CD, Prenni JE, Kastenmüller G, Peters A, Magnusson PK, Wang-Sattler R, Giedraitis V, Berne C, Gieger C, Pedersen NL, Ingelsson E, Lind L.

Diabetologia. 2016 Oct;59(10):2114-24. doi: 10.1007/s00125-016-4041-1. Epub 2016 Jul 12.


Proteomic profiling of eccrine sweat reveals its potential as a diagnostic biofluid for active tuberculosis.

Adewole OO, Erhabor GE, Adewole TO, Ojo AO, Oshokoya H, Wolfe LM, Prenni JE.

Proteomics Clin Appl. 2016 May;10(5):547-53. doi: 10.1002/prca.201500071. Epub 2016 Apr 1.


Evaluation of non-volatile metabolites in beer stored at high temperature and utility as an accelerated method to predict flavour stability.

Heuberger AL, Broeckling CD, Sedin D, Holbrook C, Barr L, Kirkpatrick K, Prenni JE.

Food Chem. 2016 Jun 1;200:301-7. doi: 10.1016/j.foodchem.2016.01.022. Epub 2016 Jan 7.


The metabolic fingerprint of p,p'-DDE and HCB exposure in humans.

Salihovic S, Ganna A, Fall T, Broeckling CD, Prenni JE, van Bavel B, Lind PM, Ingelsson E, Lind L.

Environ Int. 2016 Mar;88:60-66. doi: 10.1016/j.envint.2015.12.015. Epub 2015 Dec 22.


Retention projection enables accurate calculation of liquid chromatographic retention times across labs and methods.

Abate-Pella D, Freund DM, Ma Y, Simón-Manso Y, Hollender J, Broeckling CD, Huhman DV, Krokhin OV, Stoll DR, Hegeman AD, Kind T, Fiehn O, Schymanski EL, Prenni JE, Sumner LW, Boswell PG.

J Chromatogr A. 2015 Sep 18;1412:43-51. doi: 10.1016/j.chroma.2015.07.108. Epub 2015 Aug 3.


Proteome Characterization of Leaves in Common Bean.

Robison FM, Heuberger AL, Brick MA, Prenni JE.

Proteomes. 2015 Aug 18;3(3):236-248. doi: 10.3390/proteomes3030236.


Analysis of the metabolome of Anopheles gambiae mosquito after exposure to Mycobacterium ulcerans.

Hoxmeier JC, Thompson BD, Broeckling CD, Small P, Foy BD, Prenni J, Dobos KM.

Sci Rep. 2015 Mar 18;5:9242. doi: 10.1038/srep09242.


Proteomic characterization of the nucleolar linker histone H1 interaction network.

Szerlong HJ, Herman JA, Krause CM, DeLuca JG, Skoultchi A, Winger QA, Prenni JE, Hansen JC.

J Mol Biol. 2015 Jun 5;427(11):2056-71. doi: 10.1016/j.jmb.2015.01.001. Epub 2015 Jan 10.


Large-scale metabolomic profiling identifies novel biomarkers for incident coronary heart disease.

Ganna A, Salihovic S, Sundström J, Broeckling CD, Hedman AK, Magnusson PK, Pedersen NL, Larsson A, Siegbahn A, Zilmer M, Prenni J, Arnlöv J, Lind L, Fall T, Ingelsson E.

PLoS Genet. 2014 Dec 11;10(12):e1004801. doi: 10.1371/journal.pgen.1004801. eCollection 2014 Dec.


Evaluating plant immunity using mass spectrometry-based metabolomics workflows.

Heuberger AL, Robison FM, Lyons SM, Broeckling CD, Prenni JE.

Front Plant Sci. 2014 Jun 24;5:291. doi: 10.3389/fpls.2014.00291. eCollection 2014. Review.


RAMClust: a novel feature clustering method enables spectral-matching-based annotation for metabolomics data.

Broeckling CD, Afsar FA, Neumann S, Ben-Hur A, Prenni JE.

Anal Chem. 2014 Jul 15;86(14):6812-7. doi: 10.1021/ac501530d. Epub 2014 Jun 26.


Characterization of the canine urinary proteome.

Brandt LE, Ehrhart EJ, Scherman H, Olver CS, Bohn AA, Prenni JE.

Vet Clin Pathol. 2014 Jun;43(2):193-205. doi: 10.1111/vcp.12147. Epub 2014 Apr 28.


Proteomic Profiling of Sugar Beet (Beta vulgaris) Leaves during Rhizomania Compatible Interactions.

Webb KM, Broccardo CJ, Prenni JE, Wintermantel WM.

Proteomes. 2014 Apr 9;2(2):208-223. doi: 10.3390/proteomes2020208.


Hands-on workshops as an effective means of learning advanced technologies including genomics, proteomics and bioinformatics.

Reisdorph N, Stearman R, Kechris K, Phang TL, Reisdorph R, Prenni J, Erle DJ, Coldren C, Schey K, Nesvizhskii A, Geraci M.

Genomics Proteomics Bioinformatics. 2013 Dec;11(6):368-77. doi: 10.1016/j.gpb.2013.10.002. Epub 2013 Dec 6.


"Retention projection" enables reliable use of shared gas chromatographic retention data across laboratories, instruments, and methods.

Barnes BB, Wilson MB, Carr PW, Vitha MF, Broeckling CD, Heuberger AL, Prenni J, Janis GC, Corcoran H, Snow NH, Chopra S, Dhandapani R, Tawfall A, Sumner LW, Boswell PG.

Anal Chem. 2013 Dec 3;85(23):11650-7. doi: 10.1021/ac4033615. Epub 2013 Nov 19.


Application of nontargeted metabolite profiling to discover novel markers of quality traits in an advanced population of malting barley.

Heuberger AL, Broeckling CD, Kirkpatrick KR, Prenni JE.

Plant Biotechnol J. 2014 Feb;12(2):147-60. doi: 10.1111/pbi.12122. Epub 2013 Oct 1.


Multiplexed analysis of steroid hormones in human serum using novel microflow tile technology and LC-MS/MS.

Broccardo CJ, Schauer KL, Kohrt WM, Schwartz RS, Murphy JP, Prenni JE.

J Chromatogr B Analyt Technol Biomed Life Sci. 2013 Sep 1;934:16-21. doi: 10.1016/j.jchromb.2013.06.031. Epub 2013 Jul 4.


Mass spectrometry contamination from Tinuvin 770, a common additive in laboratory plastics.

Schauer KL, Broccardo CJ, Webb KM, Covey PA, Prenni JE.

J Biomol Tech. 2013 Jul;24(2):57-61. doi: 10.7171/jbt.13-2402-004.


Proteomic profiling and pathway analysis of the response of rat renal proximal convoluted tubules to metabolic acidosis.

Schauer KL, Freund DM, Prenni JE, Curthoys NP.

Am J Physiol Renal Physiol. 2013 Sep 1;305(5):F628-40. doi: 10.1152/ajprenal.00210.2013. Epub 2013 Jun 26.


Proteomic profiling of the mitochondrial inner membrane of rat renal proximal convoluted tubules.

Freund DM, Prenni JE, Curthoys NP.

Proteomics. 2013 Aug;13(16):2495-9. doi: 10.1002/pmic.201200558.


Large scale non-targeted metabolomic profiling of serum by ultra performance liquid chromatography-mass spectrometry (UPLC-MS).

Broeckling CD, Heuberger AL, Prenni JE.

J Vis Exp. 2013 Mar 14;(73):e50242. doi: 10.3791/50242.


Leveraging non-targeted metabolite profiling via statistical genomics.

Shen M, Broeckling CD, Chu EY, Ziegler G, Baxter IR, Prenni JE, Hoekenga OA.

PLoS One. 2013;8(2):e57667. doi: 10.1371/journal.pone.0057667. Epub 2013 Feb 28.


Improved detection of quantitative differences using a combination of spectral counting and MS/MS total ion current.

Freund DM, Prenni JE.

J Proteome Res. 2013 Apr 5;12(4):1996-2004. doi: 10.1021/pr400100k. Epub 2013 Mar 12.


Linker histone H1.0 interacts with an extensive network of proteins found in the nucleolus.

Kalashnikova AA, Winkler DD, McBryant SJ, Henderson RK, Herman JA, DeLuca JG, Luger K, Prenni JE, Hansen JC.

Nucleic Acids Res. 2013 Apr;41(7):4026-35. doi: 10.1093/nar/gkt104. Epub 2013 Feb 21.


A genome-wide assessment of variability in human serum metabolism.

Hong MG, Karlsson R, Magnusson PK, Lewis MR, Isaacs W, Zheng LS, Xu J, Grönberg H, Ingelsson E, Pawitan Y, Broeckling C, Prenni JE, Wiklund F, Prince JA.

Hum Mutat. 2013 Mar;34(3):515-24. doi: 10.1002/humu.22267.


Advances in Nutritional Metabolomics.

Ryan EP, Heuberger AL, Broeckling CD, Borresen EC, Tillotson C, Prenni JE.

Curr Metabolomics. 2013;1(2):109-120. doi: 10.2174/2213235x11301020001.


Response of the mitochondrial proteome of rat renal proximal convoluted tubules to chronic metabolic acidosis.

Freund DM, Prenni JE, Curthoys NP.

Am J Physiol Renal Physiol. 2013 Jan 15;304(2):F145-55. doi: 10.1152/ajprenal.00526.2012. Epub 2012 Nov 7.


Upregulation of the phthiocerol dimycocerosate biosynthetic pathway by rifampin-resistant, rpoB mutant Mycobacterium tuberculosis.

Bisson GP, Mehaffy C, Broeckling C, Prenni J, Rifat D, Lun DS, Burgos M, Weissman D, Karakousis PC, Dobos K.

J Bacteriol. 2012 Dec;194(23):6441-52. doi: 10.1128/JB.01013-12. Epub 2012 Sep 21.


Metabolomic profiling of beer reveals effect of temperature on non-volatile small molecules during short-term storage.

Heuberger AL, Broeckling CD, Lewis MR, Salazar L, Bouckaert P, Prenni JE.

Food Chem. 2012 Dec 1;135(3):1284-9. doi: 10.1016/j.foodchem.2012.05.048. Epub 2012 May 18.


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