Michael Bereman

Bedlack, R., Barkhaus, P., Barnes, B., Bereman, M., Bertorini, T., Carter, G., … Wicks, P. (2022). [Review of ALSUntangled #60: light therapy]. AMYOTROPHIC LATERAL SCLEROSIS AND FRONTOTEMPORAL DEGENERATION, 23(3-4), 315–319. https://doi.org/10.1080/21678421.2021.1883668

Amato, C. M., Fricke, A., Marella, S., Mogus, J. P., Bereman, M., & McCoy, K. A. (2022). An experimental evaluation of the efficacy of perinatal sulforaphane supplementation to decrease the incidence and severity of vinclozolin-induced hypospadias in the mouse model. TOXICOLOGY AND APPLIED PHARMACOLOGY, 451. https://doi.org/10.1016/j.taap.2022.116177

Martin, R. M., Bereman, M. S., & Marsden, K. C. (2022, January 14). The Cyanotoxin 2,4-DAB Reduces Viability and Causes Behavioral and Molecular Dysfunctions Associated with Neurodegeneration in Larval Zebrafish. NEUROTOXICITY RESEARCH, Vol. 40. https://doi.org/10.1007/s12640-021-00465-4

Bedlack, R., Stephens, J., Barkhaus, P. E., Bereman, M., Caress, J. B., Crayle, J., … Salmon, K. (2021). ALSUntangled 59: Tamoxifen THE ALSUNTANGLED GROUP. AMYOTROPHIC LATERAL SCLEROSIS AND FRONTOTEMPORAL DEGENERATION, 22(7-8), 595–598. https://doi.org/10.1080/21678421.2021.1876731

Martin, R. M., Bereman, M. S., & Marsden, K. C. (2021). BMAA and MCLR Interact to Modulate Behavior and Exacerbate Molecular Changes Related to Neurodegeneration in Larval Zebrafish. TOXICOLOGICAL SCIENCES, 179(2), 251–261. https://doi.org/10.1093/toxsci/kfaa178

Rister, A. L., Amato, C. M., Nash, T., McCoy, M. W., Bereman, M., & McCoy, K. A. (2021). Toxicant exposure during pregnancy increases protective proteins in the dam and a sexually dimorphic response in the fetus. TOXICOLOGY AND APPLIED PHARMACOLOGY, 413. https://doi.org/10.1016/j.taap.2021.115407

Bereman, M. S., Kirkwood, K. I., Sabaretnam, T., Furlong, S., Rowe, D. B., Guillemin, G. J., … Muddiman, D. C. (2020). Metabolite Profiling Reveals Predictive Biomarkers and the Absence of beta-Methyl Amino-L-alanine in Plasma from Individuals Diagnosed with Amyotrophic Lateral Sclerosis. JOURNAL OF PROTEOME RESEARCH, 19(8), 3276–3285. https://doi.org/10.1021/acs.jproteome.0c00216

Mellinger, A. L., Griffith, E. H., & Bereman, M. S. (2020). Peptide variability and signatures associated with disease progression in CSF collected longitudinally from ALS patients. ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 412(22), 5465–5475. https://doi.org/10.1007/s00216-020-02765-8

Hilton, G., Barosova, H., Petri-Fink, A., Rothen-Rutishauser, B., & Bereman, M. (2019). Leveraging proteomics to compare submerged versus air-liquid interface carbon nanotube exposure to a 3D lung cell model. TOXICOLOGY IN VITRO, 54, 58–66. https://doi.org/10.1016/j.tiv.2018.09.010

Ideraabdullah, F. Y., Belenchia, A. M., Rosenfeld, C. S., Kullman, S. W., Knuth, M., Mahapatra, D., … Peterson, C. A. (2019). [Review of Maternal vitamin D deficiency and developmental origins of health and disease (DOHaD)]. JOURNAL OF ENDOCRINOLOGY, 241(2), R65–R80. https://doi.org/10.1530/JOE-18-0541

Martin, R. M., Stallrich, J., & Bereman, M. S. (2019). Mixture designs to investigate adverse effects upon co-exposure to environmental cyanotoxins. Toxicology, 421, 74–83. https://doi.org/10.1016/j.tox.2019.04.013

Beri, J., Kirkwood, K. I., Muddiman, D. C., & Bereman, M. S. (2018). A novel integrated strategy for the detection and quantification of the neurotoxin beta-N-methylamino-l-alanine in environmental samples. ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(10), 2597–2605. https://doi.org/10.1007/s00216-018-0930-0

Bereman, M. S., Beri, J., Enders, J. R., & Nash, T. (2018). Machine Learning Reveals Protein Signatures in CSF and Plasma Fluids of Clinical Value for ALS. SCIENTIFIC REPORTS, 8(1). https://doi.org/10.1038/s41598-018-34642-x

Wang, P., Wander, C. M., Yuan, C.-X., Bereman, M. S., & Cohen, T. J. (2017). Acetylation-induced TDP-43 pathology is suppressed by an HSF1-dependent chaperone program. Nature Communications, 8(1). https://doi.org/10.1038/S41467-017-00088-4

Beck, K., Camp, N., Bereman, M., Bollinger, J., Egertson, J., MacCoss, M., & Wolf-Yadlin, A. (2017). Development of selected reaction monitoring methods to systematically quantify kinase abundance and phosphorylation stoichiometry in human samples. Kinase Signaling Networks, 1636, 353–369.

Beri, J., Nash, T., Martin, R. M., & Bereman, M. S. (2017). Exposure to BMAA mirrors molecular processes linked to neurodegenerative disease. PROTEOMICS, 17(17-18), 1700161. https://doi.org/10.1002/PMIC.201700161

Dogu, E., Mohammad-Taheri, S., Abbatiello, S. E., Bereman, M. S., MacLean, B., Schilling, B., & Vitek, O. (2017). MSstatsQC: Longitudinal System Suitability Monitoring and Quality Control for Targeted Proteomic Experiments. MOLECULAR & CELLULAR PROTEOMICS, 16(7), 1335–1347. https://doi.org/10.1074/mcp.m116.064774

Hilton, G. M., Taylor, A. J., Hussain, S., Dandley, E. C., Griffith, E. H., Garantziotis, S., … Bereman, M. S. (2017). Mapping differential cellular protein response of mouse alveolar epithelial cells to multi-walled carbon nanotubes as a function of atomic layer deposition coating. NANOTOXICOLOGY, 11(3), 313–326. https://doi.org/10.1080/17435390.2017.1299888

Reaves, D. K., Hoadley, K. A., Fagan-Solis, K. D., Jima, D. D., Bereman, M., Thorpe, L., … Fleming, J. M. (2017). Nuclear Localized LSR: A Novel Regulator of Breast Cancer Behavior and Tumorigenesis. MOLECULAR CANCER RESEARCH, 15(2), 165–178. https://doi.org/10.1158/1541-7786.mcr-16-0085-t

Bereman, M. S., Beri, J., Sharma, V., Nathe, C., Eckels, J., MacLean, B., & MacCoss, M. J. (2016). An Automated Pipeline to Monitor System Performance in Liquid Chromatography-Tandem Mass Spectrometry Proteomic Experiments. JOURNAL OF PROTEOME RESEARCH, 15(12), 4763–4769. https://doi.org/10.1021/acs.jproteome.6b00744

Murray, I., Walker, G., & Bereman, M. S. (2016). Improving the analytical performance and versatility of paper spray mass spectrometry via paper microfluidics. ANALYST, 141(13), 4065–4073. https://doi.org/10.1039/c6an00649c

Porter, C. J., & Bereman, M. S. (2015). Data-independent-acquisition mass spectrometry for identification of targeted-peptide site-specific modifications. ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 407(22), 6627–6635. https://doi.org/10.1007/s00216-015-8819-7

Beri, J., Rosenblatt, M. M., Strauss, E., Urh, M., & Bereman, M. S. (2015). Reagent for Evaluating Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) Performance in Bottom-Up Proteomic Experiments. ANALYTICAL CHEMISTRY, 87(23), 11635–11640. https://doi.org/10.1021/acs.analchem.5b04121

Bereman, M. S. (2015). [Review of Tools for monitoring system suitability in LC MS/MS centric proteomic experiments]. PROTEOMICS, 15(5-6), 891–902. https://doi.org/10.1002/pmic.201400373

Hilton, G. M., Taylor, A. J., McClure, C. D., Parsons, G. N., Bonner, J. C., & Bereman, M. S. (2015). Toxicoproteomic analysis of pulmonary carbon nanotube exposure using LC-MS/MS. TOXICOLOGY, 329, 80–87. https://doi.org/10.1016/j.tox.2015.01.011

Hall, J. R., Bereman, M. S., Nepomuceno, A. I., Thompson, E. A., Muddiman, D. C., & Smart, R. C. (2014). C/EBPα regulates CRL4Cdt2-mediated degradation of p21 in response to UVB-induced DNA damage to control the G1/S checkpoint. Cell Cycle, 13(22), 3602–3610. https://doi.org/10.4161/15384101.2014.962957

Pinheiro, P., Bereman, M. S., Burd, J., Pals, M., Armstrong, S., Howe, K. J., … Cilia, M. (2014). Evidence of the Biochemical Basis of Host Virulence in the Greenbug Aphid,Schizaphis graminum(Homoptera: Aphididae). Journal of Proteome Research, 13(4), 2094–2108. https://doi.org/10.1021/PR4012415

Bereman, M. S., Johnson, R., Bollinger, J., Boss, Y., Shulman, N., MacLean, B., … MacCoss, M. J. (2014). Implementation of Statistical Process Control for Proteomic Experiments Via LC MS/MS. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 25(4), 581–587. https://doi.org/10.1007/s13361-013-0824-5

Bereman, M. S., Hsieh, E. J., Corso, T. N., Van Pelt, C. K., & MacCoss, M. J. (2013). Development and Characterization of a Novel Plug and Play Liquid Chromatography-Mass Spectrometry (LC-MS) Source That Automates Connections between the Capillary Trap, Column, and Emitter. Molecular & Cellular Proteomics, 12(6), 1701–1708. https://doi.org/10.1074/MCP.O112.024893

Bereman, M. S., Tomazela, D. M., Heins, H. S., Simonato, M., Cogo, P. E., Hamvas, A., … MacCoss, M. J. (2012). A method to determine the kinetics of multiple proteins in human infants with respiratory distress syndrome. Analytical and Bioanalytical Chemistry, 403(8), 2397–2402. https://doi.org/10.1007/S00216-012-5953-3

Egertson, J. D., Eng, J. K., Bereman, M. S., Hsieh, E. J., Merrihew, G. E., & MacCoss, M. J. (2012). De Novo Correction of Mass Measurement Error in Low Resolution Tandem MS Spectra for Shotgun Proteomics. Journal of The American Society for Mass Spectrometry, 23(12), 2075–2082. https://doi.org/10.1007/S13361-012-0482-Z

Hsieh, E. J., Bereman, M. S., Durand, S., Valaskovic, G. A., & MacCoss, M. J. (2012). Effects of Column and Gradient Lengths on Peak Capacity and Peptide Identification in Nanoflow LC-MS/MS of Complex Proteomic Samples. Journal of The American Society for Mass Spectrometry, 24(1), 148–153. https://doi.org/10.1007/S13361-012-0508-6

Bereman, M. S., Canterbury, J. D., Egertson, J. D., Horner, J., Remes, P. M., Schwartz, J., … MacCoss, M. J. (2012). Evaluation of Front-End Higher Energy Collision-Induced Dissociation on a Benchtop Dual-Pressure Linear Ion Trap Mass Spectrometer for Shotgun Proteomics. Analytical Chemistry, 84(3), 1533–1539. https://doi.org/10.1021/ac203210a

Cilia, M., Bereman, M., Fish, T., MacCoss, M. J., & Gray, S. (2012). Homopteran Vector Biomarkers for Efficient Circulative Plant Virus Transmission are Conserved in Multiple Aphid Species and the Whitefly Bemisia tabaci. Journal of Integrative Agriculture, 11(2), 249–262. https://doi.org/10.1016/S2095-3119(12)60009-4

Spivak, M., Bereman, M. S., MacCoss, M. J., & Noble, W. S. (2012). Learning Score Function Parameters for Improved Spectrum Identification in Tandem Mass Spectrometry Experiments. Journal of Proteome Research, 11(9), 4499–4508. https://doi.org/10.1021/pr300234m

Schilling, B., Rardin, M. J., MacLean, B. X., Zawadzka, A. M., Frewen, B. E., Cusack, M. P., … Gibson, B. W. (2012). Platform-independent and Label-free Quantitation of Proteomic Data Using MS1 Extracted Ion Chromatograms in Skyline. Molecular & Cellular Proteomics, 11(5), 202–214. https://doi.org/10.1074/mcp.M112.017707

Bereman, M. S., MacLean, B., Tomazela, D. M., Liebler, D. C., & MacCoss, M. J. (2012). The development of selected reaction monitoring methods for targeted proteomics via empirical refinement. PROTEOMICS, 12(8), 1134–1141. https://doi.org/10.1002/pmic.201200042

Bereman, M. S., Egertson, J. D., & MacCoss, M. J. (2011). Comparison between procedures using SDS for shotgun proteomic analyses of complex samples. PROTEOMICS, 11(14), 2931–2935. https://doi.org/10.1002/pmic.201100045

Pierce, S. B., Spurrell, C. H., Mandell, J. B., Lee, M. K., Zeligson, S., Bereman, M. S., … Motulsky, A. G. (2011). Garrod's fourth inborn error of metabolism solved by the identification of mutations causing pentosuria. Proceedings of the National Academy of Sciences, 108(45), 18313–18317. https://doi.org/10.1073/pnas.1115888108

Dixon, R. B., Bereman, M. S., Petitte, J. N., Hawkridge, A. M., & Muddiman, D. C. (2011). One-year plasma N-linked glycome intra-individual and inter-individual variability in the chicken model of spontaneous ovarian adenocarcinoma. INTERNATIONAL JOURNAL OF MASS SPECTROMETRY, 305(2-3), 79–86. https://doi.org/10.1016/j.ijms.2010.05.023

Bereman, M. S., Comins, D. L., & Muddiman, D. C. (2010). Increasing the hydrophobicity and electrospray response of glycans through derivatization with novel cationic hydrazides. CHEMICAL COMMUNICATIONS, 46(2), 237–239. https://doi.org/10.1039/b915589a

Bereman, M. S., & Muddiman, D. C. (2010). The effects of abundant plasma protein depletion on global glycan profiling using NanoLC FT-ICR mass spectrometry. ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 396(4), 1473–1479. https://doi.org/10.1007/s00216-009-3368-6

Bereman, M. S., Young, D. D., Deiters, A., & Muddiman, D. C. (2009). Development of a Robust and High Throughput Method for Profiling N-Linked Glycans Derived from Plasma Glycoproteins by NanoLC-FTICR Mass Spectrometry. JOURNAL OF PROTEOME RESEARCH, 8(7), 3764–3770. https://doi.org/10.1021/pr9002323

Bereman, M. S., Williams, T. I., & Muddiman, D. C. (2009). Development of a nanoLC LTQ Orbitrap Mass Spectrometric Method for Profiling Glycans Derived from Plasma from Healthy, Benign Tumor Control, and Epithelial Ovarian Cancer Patients. ANALYTICAL CHEMISTRY, 81(3), 1130–1136. https://doi.org/10.1021/ac802262w

Bereman, M. S., Lyndon, M. M., Dixon, R. B., & Muddiman, D. C. (2008). Mass measurement accuracy comparisons between a double-focusing magnetic sector and a time-of-flight mass analyzer. RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 22(10), 1563–1566. https://doi.org/10.1002/rcm.3544

Bereman, M. S., Williams, T. I., & Muddiman, D. C. (2007). Carbohydrate analysis by desorption electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. ANALYTICAL CHEMISTRY, 79(22), 8812–8815. https://doi.org/10.1021/ac0713858

Bereman, M. S., & Muddiman, D. C. (2007). Detection of attomole amounts of analyte by desorption electrospray ionization mass spectrometry (DESI-MS) determined using fluorescence spectroscopy. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 18(6), 1093–1096. https://doi.org/10.1016/j.jasms.2007.03.006

Dixon, R. B., Bereman, M. S., Muddiman, D., & Hawkridge, A. M. (2007). Remote mass spectrometric sampling of electrospray- and desorption electrospra-generated ions using an air ejector. Journal of the American Society for Mass Spectrometry, 18(10), 1844–1847. https://doi.org/10.1016/i.jasms.2007.07.024

Dixon, R. B., Bereman, M. S., Muddiman, D. C., & Hawkridge, A. M. (2007). Remote mass spectrometric sampling of electrospray- and desorption electrospray-generated ions using an air ejector. Journal of the American Society for Mass Spectrometry, 18(10), 1844–1847. https://doi.org/10.1016/J.JASMS.2007.07.024

Bereman, M. S., Nyadong, L., Fernandez, F. M., & Muddiman, D. C. (2006). Direct high-resolution peptide and protein analysis by desorption electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. Rapid Communications in Mass Spectrometry, 20(22), 3409–3411. https://doi.org/10.1002/rcm.2759