Exploring new frontiers in type 1 diabetes through advanced mass-spectrometry-based molecular measurements.

Autor: Sarkar S; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Zheng X; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Clair GC; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Kwon YM; Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., You Y; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Swensen AC; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Webb-Robertson BM; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA., Nakayasu ES; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: ernesto.nakayasu@pnnl.gov., Qian WJ; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: weijun.qian@pnnl.gov., Metz TO; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA. Electronic address: thomas.metz@pnnl.gov.

Publikováno v: Trends in molecular medicine [Trends Mol Med] 2024 Aug 15. Date of Electronic Publication: 2024 Aug 15.

Viral afterlife: SARS-CoV-2 as a reservoir of immunomimetic peptides that reassemble into proinflammatory supramolecular complexes.

Autor: Zhang Y; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095.; Biomedical Engineering, School of Engineering, Westlake University, Hangzhou, Zhejiang 310012, China., Bharathi V; University of North Carolina Blood Research Center, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Dokoshi T; Department of Dermatology, University of California San Diego, La Jolla, CA 92093., de Anda J; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095., Ursery LT; University of North Carolina Blood Research Center, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Kulkarni NN; Department of Dermatology, University of California San Diego, La Jolla, CA 92093., Nakamura Y; Department of Dermatology, University of California San Diego, La Jolla, CA 92093., Chen J; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095., Luo EWC; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095., Wang L; Division of Gastroenterology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215., Xu H; Division of Gastroenterology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215., Coady A; Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093., Zurich R; Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093., Lee MW; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095., Matsui T; Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025., Lee H; Division of Molecular Medicine, Harbor-University of California Los Angeles Medical Center, Los Angeles County, Torrance, CA 90502., Chan LC; Division of Molecular Medicine, Harbor-University of California Los Angeles Medical Center, Los Angeles County, Torrance, CA 90502.; Division of Infectious Diseases, Harbor-University of California Los Angeles Medical Center, Los Angeles County, Torrance, CA 90502.; Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, CA 90095.; Institute for Infection & Immunity, Lundquist Institute for Biomedical Innovation, Harbor-University of California Los Angeles Medical Center, Torrance, CA 90502., Schepmoes AA; Environmental Molecular Science Division, Pacific Northwest National Laboratory, Richland, WA 99354., Lipton MS; Environmental Molecular Science Division, Pacific Northwest National Laboratory, Richland, WA 99354., Zhao R; Environmental Molecular Science Division, Pacific Northwest National Laboratory, Richland, WA 99354., Adkins JN; Biological Science Division, Pacific Northwest National Laboratory, Richland, WA 99354., Clair GC; Biological Science Division, Pacific Northwest National Laboratory, Richland, WA 99354., Thurlow LR; Division of Oral and Craniofacial Health Sciences, Adams School of Dentistry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599.; Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Schisler JC; McAllister Heart Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599.; Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599.; Computational Medicine Program, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Wolfgang MC; Department of Microbiology and Immunology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599.; Marsico Lung Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Hagan RS; Marsico Lung Institute, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599.; Division of Pulmonary Diseases and Critical Care Medicine, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Yeaman MR; Division of Molecular Medicine, Harbor-University of California Los Angeles Medical Center, Los Angeles County, Torrance, CA 90502.; Division of Infectious Diseases, Harbor-University of California Los Angeles Medical Center, Los Angeles County, Torrance, CA 90502.; Department of Medicine, David Geffen School of Medicine, University of California, Los Angeles, CA 90095.; Institute for Infection & Immunity, Lundquist Institute for Biomedical Innovation, Harbor-University of California Los Angeles Medical Center, Torrance, CA 90502., Weiss TM; Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA 94025., Chen X; Division of Gastroenterology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215., Li MMH; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095., Nizet V; Department of Pediatrics, School of Medicine, University of California San Diego, La Jolla, CA 92093., Antoniak S; Department of Pathology and Laboratory Medicine, University of North Carolina Blood Research Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Mackman N; University of North Carolina Blood Research Center, Department of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599., Gallo RL; Department of Dermatology, University of California San Diego, La Jolla, CA 92093., Wong GCL; Department of Bioengineering, University of California, Los Angeles, CA 90095.; Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 9009.; California NanoSystems Institute, University of California, Los Angeles, CA 90095.; Department of Microbiology, Immunology & Molecular Genetics, University of California, Los Angeles, CA 90095.

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2024 Feb 06; Vol. 121 (6), pp. e2300644120. Date of Electronic Publication: 2024 Feb 02.

Chymotrypsin-like Elastase-1 Mediates Progressive Emphysema in Alpha-1 Antitrypsin Deficiency.

Autor: Devine AJ; Division of Critical Care Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States., Smith NJ; University of Cincinnati School of Medicine, Cincinnati, Ohio, United States., Joshi R; Division of Critical Care Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States., Fan Q; Division of Critical Care Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States., Borchers MT; Division of Critical Care Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States.; Division of Pulmonary and Critical Care Medicine, University of Cincinnati, Cincinnati, Ohio, United States., Clair GC; Pacific Northwest National Laboratory, Richland, Washington, United States., Adkins JN; Pacific Northwest National Laboratory, Richland, Washington, United States., Varisco BM; Division of Critical Care Medicine, Cincinnati Children's Hospital Medical Center, Cincinnati, Ohio, United States.; University of Cincinnati School of Medicine, Cincinnati, Ohio, United States.; Department of Pediatrics, University of Arkansas for Medical Sciences, Little Rock, Arkansas, United States.; Arkansas Children's Research Institute, Little Rock, Arkansas, United States.

Publikováno v: Chronic obstructive pulmonary diseases (Miami, Fla.) [Chronic Obstr Pulm Dis] 2023 Oct 26; Vol. 10 (4), pp. 380-391.

Rat bronchoalveolar lavage proteome changes following e-cigarette aerosol exposures.

Autor: Day NJ; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., Wang J; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., Johnston CJ; Division of Pulmonology, Department of Pediatric Pulmonology, University of Rochester Medical Center, Rochester, New York, United States.; Department of Environmental Medicine, University of Rochester Medical Center, Rochester, New York, United States., Kim SY; Division of Pulmonology, Department of Pediatric Pulmonology, University of Rochester Medical Center, Rochester, New York, United States.; Department of Environmental Medicine, University of Rochester Medical Center, Rochester, New York, United States., Olson HM; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., House EL; Division of Pulmonology, Department of Pediatric Pulmonology, University of Rochester Medical Center, Rochester, New York, United States.; Department of Environmental Medicine, University of Rochester Medical Center, Rochester, New York, United States., Attah IK; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., Clair GC; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., Qian WJ; Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, United States., McGraw MD; Division of Pulmonology, Department of Pediatric Pulmonology, University of Rochester Medical Center, Rochester, New York, United States.; Department of Environmental Medicine, University of Rochester Medical Center, Rochester, New York, United States.

Publikováno v: American journal of physiology. Lung cellular and molecular physiology [Am J Physiol Lung Cell Mol Physiol] 2023 May 01; Vol. 324 (5), pp. L571-L583. Date of Electronic Publication: 2023 Mar 07.

Guiding the choice of informatics software and tools for lipidomics research applications.

Autor: Ni Z; Center of Membrane Biochemistry and Lipid Research, Faculty of Medicine Carl Gustav Carus of TU Dresden, Dresden, Germany., Wölk M; Center of Membrane Biochemistry and Lipid Research, Faculty of Medicine Carl Gustav Carus of TU Dresden, Dresden, Germany., Jukes G; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK., Mendivelso Espinosa K; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK., Ahrends R; Department of Analytical Chemistry, University of Vienna, Vienna, Austria., Aimo L; Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva, Switzerland., Alvarez-Jarreta J; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK.; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Andrews S; Babraham Institute, Babraham Research Campus, Cambridge, UK., Andrews R; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK., Bridge A; Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, Geneva, Switzerland., Clair GC; Biological Science Division, Pacific Northwest National Laboratory, Richland, WA, USA., Conroy MJ; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK., Fahy E; Department of Bioengineering, University of California, San Diego, CA, USA., Gaud C; Babraham Institute, Babraham Research Campus, Cambridge, UK., Goracci L; Department of Chemistry, Biology and Biotechnology, University of Perugia, Perugia, Italy., Hartler J; Institute of Pharmaceutical Sciences, University of Graz, Graz, Austria.; Field of Excellence BioHealthe-University of Graz, Graz, Austria., Hoffmann N; Center for Biotechnology, University of Bielefeld, Bielefeld, Germany., Kopczyinki D; Department of Analytical Chemistry, University of Vienna, Vienna, Austria., Korf A; Bruker Daltonics GmbH & Co. KG, Bremen, Germany., Lopez-Clavijo AF; Babraham Institute, Babraham Research Campus, Cambridge, UK., Malik A; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Ackerman JM; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany., Molenaar MR; Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany., O'Donovan C; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK., Pluskal T; Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic., Shevchenko A; Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany., Slenter D; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, The Netherlands., Siuzdak G; Scripps Center for Metabolomics and Mass Spectrometry, The Scripps Research Institute, La Jolla, CA, USA., Kutmon M; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, The Netherlands.; Maastricht Centre for Systems Biology, Maastricht University, Maastricht, The Netherlands., Tsugawa H; Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology, Tokyo, Japan.; RIKEN Center for Sustainable Resource Science, Yokohama, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Graduate School of Medical Life Science, Yokohama City University, Yokohama, Japan., Willighagen EL; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, The Netherlands., Xia J; Institute of Parasitology, McGill University, Montreal, Canada., O'Donnell VB; Systems Immunity Research Institute, School of Medicine, Cardiff University, Cardiff, UK. O-DonnellVB@cardiff.ac.uk., Fedorova M; Center of Membrane Biochemistry and Lipid Research, Faculty of Medicine Carl Gustav Carus of TU Dresden, Dresden, Germany. maria.fedorova@tu-dresden.de.

Publikováno v: Nature methods [Nat Methods] 2023 Feb; Vol. 20 (2), pp. 193-204. Date of Electronic Publication: 2022 Dec 21.