Processes in DNA damage response from a whole-cell multi-omics perspective.

Autor: Pino JC; Chemical and Physical Biology Graduate Program, Vanderbilt University, Nashville, TN, USA.; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Pacific Northwest National Laboratory, Seattle, WA, USA., Lubbock ALR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, Nashville, TN, USA., Harris LA; Department of Biomedical Engineering, University of Arkansas, Fayetteville, AR, USA.; Interdisciplinary Graduate Program in Cell & Molecular Biology, University of Arkansas, Fayetteville, AR, USA.; Cancer Biology Program, Winthrop P. Rockefeller Cancer Institute, University of Arkansas for Medical Sciences, Little Rock, AR, USA., Gutierrez DB; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA., Farrow MA; Department of Pathology, Microbiology, and Immunology, Vanderbilt University School of Medicine, Nashville, TN, USA., Muszynski N; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA., Tsui T; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA., Sherrod SD; Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Chemistry, Vanderbilt University, Nashville, TN, USA.; Center for Innovative Technology (CIT), Vanderbilt University, Nashville, TN, USA., Norris JL; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Chemistry, Vanderbilt University, Nashville, TN, USA., McLean JA; Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Chemistry, Vanderbilt University, Nashville, TN, USA.; Center for Innovative Technology (CIT), Vanderbilt University, Nashville, TN, USA., Caprioli RM; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Chemistry, Vanderbilt University, Nashville, TN, USA.; Department of Pharmacology, Vanderbilt University, Nashville, TN, USA.; Department of Medicine, Vanderbilt University, Nashville, TN, USA., Wikswo JP; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Physics and Astronomy, Vanderbilt University, Nashville, TN, USA.; Department of Molecular Physiology and Biophysics, Vanderbilt University, Nashville, TN, USA.; Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University, Nashville, TN, USA., Lopez CF; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN, USA.; Pacific Northwest National Laboratory, Seattle, WA, USA.

Publikováno v: IScience [iScience] 2022 Oct 19; Vol. 25 (11), pp. 105341. Date of Electronic Publication: 2022 Oct 19 (Print Publication: 2022).

Selective Inhibition of JAK1 Primes STAT5-Driven Human Leukemia Cells for ATRA-Induced Differentiation.

Autor: Ramsey HE; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Stengel K; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA., Pino JC; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Bioinformatics, Vanderbilt University School of Medicine, Nashville, TN, USA., Johnston G; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA., Childress M; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Gorska AE; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Arrate PM; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Fuller L; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA., Villaume M; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Fischer MA; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Ferrell PB Jr; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA., Roe CE; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Pathology, Microbiology and Immunology, Vanderbilt University School of Medicine, Nashville, TN, USA., Zou J; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA., Lubbock ALR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Bioinformatics, Vanderbilt University School of Medicine, Nashville, TN, USA., Stubbs M; Incyte Research Institute, Wilmington, DE, USA., Zinkel S; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA.; Division of Hematology/Oncology, Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, 777 Preston Research Building, 2200 Pierce Avenue, Nashville, TN, 37232, USA., Irish JM; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Pathology, Microbiology and Immunology, Vanderbilt University School of Medicine, Nashville, TN, USA., Lopez CF; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Bioinformatics, Vanderbilt University School of Medicine, Nashville, TN, USA., Hiebert S; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA.; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.; Division of Hematology/Oncology, Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, 777 Preston Research Building, 2200 Pierce Avenue, Nashville, TN, 37232, USA., Savona MR; Cancer Biology Program, Vanderbilt University School of Medicine, Nashville, TN, USA. michael.savona@vanderbilt.edu.; Department of Medicine, Vanderbilt University School of Medicine, Nashville, TN, USA. michael.savona@vanderbilt.edu.; Vanderbilt Center for Immunobiology, Nashville, TN, USA. michael.savona@vanderbilt.edu.; Division of Hematology/Oncology, Vanderbilt-Ingram Cancer Center, Vanderbilt University Medical Center, 777 Preston Research Building, 2200 Pierce Avenue, Nashville, TN, 37232, USA. michael.savona@vanderbilt.edu.

Publikováno v: Targeted oncology [Target Oncol] 2021 Sep; Vol. 16 (5), pp. 663-674. Date of Electronic Publication: 2021 Jul 29.

MuSyC is a consensus framework that unifies multi-drug synergy metrics for combinatorial drug discovery.

Autor: Wooten DJ; Department of Physics, Pennsylvania State University, University Park, PA, USA., Meyer CT; Program in Chemical and Physical Biology, Vanderbilt University School of Medicine, Nashville, TN, USA., Lubbock ALR; Department of Biochemistry, Vanderbilt University Nashville, Nashville, TN, USA., Quaranta V; Department of Biochemistry, Vanderbilt University Nashville, Nashville, TN, USA. vito.quaranta@vanderbilt.edu.; Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, TN, USA. vito.quaranta@vanderbilt.edu., Lopez CF; Department of Biochemistry, Vanderbilt University Nashville, Nashville, TN, USA. c.lopez@vanderbilt.edu.; Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, TN, USA. c.lopez@vanderbilt.edu.; Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN, USA. c.lopez@vanderbilt.edu.

Publikováno v: Nature communications [Nat Commun] 2021 Jul 29; Vol. 12 (1), pp. 4607. Date of Electronic Publication: 2021 Jul 29.

Thunor: visualization and analysis of high-throughput dose-response datasets.

Autor: Lubbock ALR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA., Harris LA; Department of Biomedical Engineering, University of Arkansas, Fayetteville, AR, 72701, USA.; Interdisciplinary Graduate Program in Cell and Molecular Biology, University of Arkansas, Fayetteville, AR, 72701, USA.; Cancer Biology Program, Winthrop P. Rockefeller Cancer Institute, University of Arkansas for Medical Sciences, Little Rock, AR, 72205, USA., Quaranta V; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA.; Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA., Tyson DR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA., Lopez CF; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA.; Department of Pharmacology, Vanderbilt University School of Medicine, Nashville, TN, 37232, USA.; Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, TN, 37232, USA.

Publikováno v: Nucleic acids research [Nucleic Acids Res] 2021 Jul 02; Vol. 49 (W1), pp. W633-W640.

ACDC: Automated Cell Detection and Counting for Time-Lapse Fluorescence Microscopy.

Autor: Rundo L; Department of Radiology, University of Cambridge, Cambridge CB2 0QQ, UK.; Cancer Research UK Cambridge Centre, University of Cambridge, Cambridge CB2 0RE, UK., Tangherloni A; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK.; Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1HH, UK.; Wellcome Trust-Medical Research Council Cambridge, Stem Cell Institute, Cambridge CB2 0AW, UK., Tyson DR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, USA., Betta R; Department of Informatics, Systems and Communication, University of Milano-Bicocca, 20126 Milan, Italy., Militello C; Institute of Molecular Bioimaging and Physiology, Italian National Research Council, 90015 Cefalù (PA), Italy., Spolaor S; Department of Informatics, Systems and Communication, University of Milano-Bicocca, 20126 Milan, Italy., Nobile MS; Department of Industrial Engineering & Innovation Sciences, Eindhoven University of Technology, 5612 AZ Eindhoven, The Netherlands.; SYSBIO/ISBE.IT Centre for Systems Biology, 20126 Milan, Italy., Besozzi D; Department of Informatics, Systems and Communication, University of Milano-Bicocca, 20126 Milan, Italy., Lubbock ALR; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, USA., Quaranta V; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, USA., Mauri G; Department of Informatics, Systems and Communication, University of Milano-Bicocca, 20126 Milan, Italy.; SYSBIO/ISBE.IT Centre for Systems Biology, 20126 Milan, Italy., Lopez CF; Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, USA., Cazzaniga P; SYSBIO/ISBE.IT Centre for Systems Biology, 20126 Milan, Italy.; Department of Human and Social Sciences, University of Bergamo, 24129 Bergamo, Italy.

Publikováno v: Applied sciences (Basel, Switzerland) [Appl Sci (Basel)] 2020 Sep 02; Vol. 10 (18). Date of Electronic Publication: 2020 Sep 06.