Understanding heterogeneity among individuals who smoke cigarettes and vape: assessment of biomarkers of exposure and potential harm among subpopulations from the PATH Wave 1 Data

Autor: Pavel N. Lizhnyak, Brendan Noggle, Lai Wei, Jeffery Edmiston, Elizabeth Becker, Ryan A. Black, Mohamadi Sarkar

Publikováno v: Harm Reduction Journal, Vol 19, Iss 1, Pp 1-10 (2022)

Abstract Introduction People who both smoke cigarettes and vape are often considered as a homogenous group even though multiple subgroups may exist. We examined biomarkers of exposure (BOE) and biomarkers of potential harm (BOPH) to differentiate bet

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IS-PRM-Based Peptide Targeting Informed by Long-Read Sequencing for Alternative Proteome Detection.

Autor: Korchak JA; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States., Jeffery ED; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States., Bandyopadhyay S; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States.; Center for Public Health Genomics, University of Virginia, Charlottesville, Virginia 22903, United States., Jordan BT; Cancer Genomics Research Laboratory, Frederick National Laboratory for Cancer Research, Frederick, Maryland 21701, United States., Lehe MD; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States., Watts EF; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States., Fenix A; Department of Laboratory Medicine and Pathology, University of Washington, Seattle, Washington 98195, United States., Wilhelm M; Computational Mass Spectrometry, Technical University of Munich (TUM), D-85354 Freising, Germany., Sheynkman GM; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, Virginia 22903, United States.; Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, Virginia 22903, United States.; UVA Comprehensive Cancer Center, University of Virginia, Charlottesville, Virginia 22903, United States.

Publikováno v: Journal of the American Society for Mass Spectrometry [J Am Soc Mass Spectrom] 2024 Nov 06; Vol. 35 (11), pp. 2614-2630. Date of Electronic Publication: 2024 Jul 16.

Splicing neoantigen discovery with SNAF reveals shared targets for cancer immunotherapy.

Autor: Li G; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Biomedical Informatics, College of Medicine, University of Cincinnati, Cincinnati, OH 45267, USA., Mahajan S; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA., Ma S; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA., Jeffery ED; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22903, USA., Zhang X; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA., Bhattacharjee A; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA., Venkatasubramanian M; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Computer Science, University of Cincinnati, Cincinnati, OH 45229, USA., Weirauch MT; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Center for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital, Cincinnati, OH 45229, USA.; Division of Human Genetics, Cincinnati Children's Hospital, Cincinnati, OH 45229, USA.; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Miraldi ER; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Grimes HL; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Sheynkman GM; Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA 22903, USA., Tilburgs T; Division of Immunobiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Salomonis N; Division of Biomedical Informatics, Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA.; Department of Biomedical Informatics, College of Medicine, University of Cincinnati, Cincinnati, OH 45267, USA.; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA.

Publikováno v: Science translational medicine [Sci Transl Med] 2024 Jan 17; Vol. 16 (730), pp. eade2886. Date of Electronic Publication: 2024 Jan 17.

Long-read proteogenomics to connect disease-associated sQTLs to the protein isoform effectors of disease.

Autor: Abood A, Mesner LD, Jeffery ED, Murali M, Lehe M, Saquing J, Farber CR, Sheynkman GM

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2023 Mar 21. Date of Electronic Publication: 2023 Mar 21.