Effect of asymptomatic transmission and emergence time on multi-strain viral disease severity.

Autor: Alizad-Rahvar AR; School of Biological Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran., Sadeghi M; Department of Medical Genetics, National Institute for Genetic Engineering and Biotechnology, Tehran, Iran.

Publikováno v: PloS one [PLoS One] 2022 Oct 07; Vol. 17 (10), pp. e0269464. Date of Electronic Publication: 2022 Oct 07 (Print Publication: 2022).

LogicNet: probabilistic continuous logics in reconstructing gene regulatory networks.

Autor: Malekpour SA; School of Biological Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran. a.malekpour@ut.ac.ir., Alizad-Rahvar AR; School of Biological Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran., Sadeghi M; National Institute of Genetic Engineering and Biotechnology, Tehran, Iran.

Publikováno v: BMC bioinformatics [BMC Bioinformatics] 2020 Jul 20; Vol. 21 (1), pp. 318. Date of Electronic Publication: 2020 Jul 20.

Characterizing genomic alterations in cancer by complementary functional associations.

Autor: Kim JW; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Botvinnik OB; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Bioinformatics and Systems Biology Program, University of California at San Diego, La Jolla, California, USA.; Department of Cellular and Molecular Medicine, University of California at San Diego, La Jolla, California, USA.; Stem Cell Program and Institute for Genomic Medicine, University of California at San Diego, La Jolla, California, USA., Abudayyeh O; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Harvard Medical School, Boston, Massachusetts, USA., Birger C; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Rosenbluh J; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Shrestha Y; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Abazeed ME; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Radiation Oncology, Cleveland Clinic, Cleveland, Ohio, USA., Hammerman PS; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Harvard Medical School, Boston, Massachusetts, USA.; Department of Medicine, Dana Farber Cancer Institute, Boston, Massachusetts, USA., DiCara D; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Konieczkowski DJ; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Johannessen CM; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Liberzon A; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Alizad-Rahvar AR; Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Alberta, Canada., Alexe G; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Pediatric Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Boston Children's Hospital, Boston, Massachusetts, USA.; Bioinformatics Graduate Program, Boston University, Boston, Massachusetts, USA., Aguirre A; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Ghandi M; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Greulich H; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts, USA., Vazquez F; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Weir BA; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Van Allen EM; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Tsherniak A; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Shao DD; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Zack TI; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Program in Biophysics, Harvard University, Boston, Massachusetts, USA., Noble M; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Getz G; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Beroukhim R; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts, USA.; Program in Biophysics, Harvard University, Boston, Massachusetts, USA., Garraway LA; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts, USA., Ardakani M; Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Alberta, Canada., Romualdi C; Department of Biology, University of Padova, Padova, Italy., Sales G; Department of Biology, University of Padova, Padova, Italy., Barbie DA; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Boehm JS; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA., Hahn WC; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA.; Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts, USA.; Center for Cancer Genome Discovery, Dana-Farber Cancer Institute, Boston, Massachusetts, USA., Mesirov JP; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medicine, University of California San Diego, La Jolla, California, USA.; Moores Cancer Center, University of California San Diego, La Jolla, California, USA., Tamayo P; Eli and Edythe Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.; Department of Medicine, University of California San Diego, La Jolla, California, USA.; Moores Cancer Center, University of California San Diego, La Jolla, California, USA.

Publikováno v: Nature biotechnology [Nat Biotechnol] 2016 May; Vol. 34 (5), pp. 539-46. Date of Electronic Publication: 2016 Apr 18.

Boundary effect correction in k-nearest-neighbor estimation.

Autor: Alizad Rahvar AR; Department of Electrical and Computer Engineering, University of Alberta, Edmonton, Alberta, Canada. alizad@ece.ualberta.ca, Ardakani M

Publikováno v: Physical review. E, Statistical, nonlinear, and soft matter physics [Phys Rev E Stat Nonlin Soft Matter Phys] 2011 May; Vol. 83 (5 Pt 1), pp. 051121. Date of Electronic Publication: 2011 May 19.