95 research outputs found
Environment, Education, and Personality Innovation Based Index
No full textA Master of Science thesis in Engineering Systems Management by Mahmoud Ghandi Mahmoud Al Qawasmi entitled, “Environment, Education, and Personality Innovation Based Index”, submitted in April 2022. Thesis advisor is Dr. Hussam Alshraideh. Soft copy is available (Thesis, Completion Certificate, Approval Signatures, and AUS Archives Consent Form).Innovation and Entrepreneurship (I&E) are evolving as highly important concepts around the world, as they heavily contribute to the economic development of many countries. Identifying, educating, and supporting innovators and entrepreneurs are urgent and crucial as there are no innovators and entrepreneurs’ identification frameworks exist yet considering all aspects of I&E. As researchers highlight the importance of I&E in societies, they tried to identify the related factors affecting the development of innovators and entrepreneurs by developing and using different models, such as the General Enterprise Tendency Index, the Complex Process Model of Entrepreneurship, and the Global Entrepreneurship Index. Factors related to I&E as found in the literature are classified as environmental factors, personal factors, and academic performance-related factors. However, the topic of how to identify innovators and entrepreneurs using all three factors combined, and how these factors interact is still ambiguous and needs to be studied. In this thesis, a framework is developed to model and assess the effect of I&E-related factors and their interaction on a newly developed I&E index. We developed a literature review-based questionnaire that addresses all three factors and their effects. Collected responses were analyzed through a Structural Equation Modelling (SEM) approach. The model consisted of three constructs representing the three factors found in the literature and an output variable representing the proposed I&E index. To evaluate the developed model, the Tucker-Lewis Index (TLI), the Comparative Fit Index (CFI), the Root Mean Square Error (RSME) of Approximation, and the P-value were utilized. Model metrics showed an excellent model fit with CFI of 0.911, TLI of 0.905, RMSEA of 0.036, and a p-value of 0.000. Although model results indicate significant effects of the three factors on the developed I&E index, the personal traits factor had the highest effect encouraging more research on personality development for better innovation and entrepreneurship achievements among individuals.College of EngineeringDepartment of Industrial EngineeringMaster of Science in Engineering Systems Management (MSESM
Abstract 1555: Pan-cancer patterns of synthetic lethality: statistical modeling of gene dependency profiles
No full textAbstract
We present a methodology to fit statistical models of cell-viability profiles from RNAi-gene knockdowns. This method allows us to classify genes according to the degree of skewness in their viability distributions. The set of genes with the highest degree of skewness is highly enriched with many known oncogenes and tumor suppressors. We characterize many of these genes, compare them against the results of large sequencing efforts, and use them as inputs to a matrix-decomposition procedure that identifies the most salient cell viabilities shared by different cancer types. We catalog these pan-cancer patterns of synthetic lethality and characterize them by the genomic, transcriptional, and phenotypic features. This analysis provides a rich catalog of the most salient Achilles’ Heels of Pan-Cancer that can be helpful to identify new therapeutic strategies across cancers.
Citation Format: Huwate Yeerna, Ramya Rangan, Andrew Aguirre, William Kim, Francisca Vazquez, Barbara Weir, Mahmoud Ghandi, Aviad Tsherniak, Jesse Boehm, William Hahn, Jill Mesirov, Pablo Tamayo. Pan-cancer patterns of synthetic lethality: statistical modeling of gene dependency profiles [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 1555. doi:10.1158/1538-7445.AM2017-1555</jats:p
CCLE
No full textCCLE PharmacoSet (PSet) generated by ORCESTRA. Metadata can be found on ORCESTRA at: http://orcestra.ca/10.5281/zenodo.4721823
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The CCLE data were generated and shared by the Broad Institute of Harvard and MIT as part of the Cancer Cell Line Encyclopedia project. The Haibe-Kains Lab has reprocessed and re-annotated the data to maximize overlap with other pharmacogenomic datasets.
Data Usage Policy
CCLE publishes its data under the Terms and Conditions linked here. The DepMap data, including the CCLE data, are provided under Creative Commons Attribution 4.0 license.
Contact [email protected] for more information
Please cite the following when using these data
Cancer Cell Line Encyclopedia Consortium, and Genomics of Drug Sensitivity in Cancer Consortium. 2015. Pharmacogenomic Agreement between Two Cancer Cell Line Data Sets. Nature 528 (7580):84–87. https://doi.org/10.1038/nature15736.
Jordi Barretina, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, William R. Sellers, Robert Schlegel, Levi A. Garraway, et. al. 2012. The Cancer Cell Line Encyclopedia Enables Predictive Modelling of Anticancer Drug Sensitivity. Nature 483 (7391):603–7. https://doi.org/10.1038/nature11003.
For omics data:
Mahmoud Ghandi, Franklin W. Huang, Judit Jané-Valbuena, Gregory V. Kryukov, ... Todd R. Golub, Levi A. Garraway & William R. Sellers. 2019. Next-generation characterization of the Cancer Cell Line Encyclopedia. Nature 569, 503–508 (2019).
For metabolomics:
Haoxin Li, Shaoyang Ning, Mahmoud Ghandi, Gregory V. Kryukov, Shuba Gopal, ... Levi A. Garraway & William R. Sellers. The landscape of cancer cell line metabolism. Nature Medicine 25, 850-860 (2019)
Proton, muon and 13C hyperfine coupling constants of C60X and C70X (X = H, Mu)
No full textThe reaction of H atoms with fullerene C70 has been investigated by identifying the radical products formed by addition of the atom muonium (Mu) to the fullerene in solution. Four of the five possible radical isomers of C70Mu were detected by avoided level-crossing resonance (μLCR) spectroscopy, using a dilute solution of enriched 13C70 in decalin. DFT calculations were used to predict muon and 13C isotropic hyperfine constants as an aid to assigning the observed μLCR signals. Computational methods were benchmarked against previously published experimental data for 13C60Mu in solution. Analysis of the μLCR spectrum resulted in the first experimental determination of 13C hyperfine constants in either C70Mu or C70H. The large number of values confirms predictions that the four radical isomers have extended distributions of unpaired electron spin.Peer reviewedFinal article publishe
Muonium kinetics in sub- and supercritical water
No full textPeer reviewedMuonium is long-lived in pure water and has been studied over a very wide range of temperatures and pressures, from 5°C to over 400°C and from 1 to 400bar. We have determined rate constants for representative reactions of muonium in aqueous solution; equivalent data on H atom kinetics is sparse and stops well short of the maximum temperature and pressure attained in our experiments. The results show remarkable deviations from the predictions of standard reaction theories. In particular, rate constants pass through a maximum with temperature well below the critical point. This seems to be a general phenomenon, since we have observed it for spin-exchange and chemical reactions that are diffusion limited at low temperatures, as well as for activated reactions. We believe that a key factor in the drop of rate constants at high temperature is the cage effect, in particular the number of collisions between a pair of reactants over the duration of their encounter. Whatever the reason, the implications are profound for both the efficiency of supercritical water oxidation reactors and for the modelling of radiation chemistry in pressurized water nuclear reactors.Final article publishedMuoniumSupercritical waterChemical kineticsRadiation chemistr
Hyperfine coupling constants of muonium in sub and supercritical water
No full textMuonium, like the hydrogen atom, is a hydrophobic solute in water under standard conditions. Molecular dynamics simulations suggest that the free atom exists in a transient clathrate-like cage of hydrogen-bonded water molecules. The hyperfine constants of Mu and H are very close to their vacuum values, supporting the picture of an atom “rattling” around in a hole in the liquid. Muonium has now been studied in water over a wide range of temperatures and pressures, from standard conditions to over 400°C and 400 bar (the critical point is at 374°C, 221 bar). Drastic changes occur in the properties of water over this range of conditions, so large changes in the muonium hyperfine constant might well be expected. Surprisingly, the changes are small. The hyperfine coupling constant goes through a minimum in the subcritical region, and then increases toward the vacuum value under supercritical conditions. [ABSTRACT FROM PUBLISHER]Peer reviewedFinal article publishedSupercritical waterHyperfine couplingMuoniu
Zero frequency resonance: Another way to measure muon-electron hyperfine constants
No full textAt a magnetic field determined by the zero crossing of the ω12 frequency of a paramagnetic species like a muonium-substituted radical some muons experience a total magnetic field of zero, simply because the hyperfine field exactly cancels the externally applied field. Since the muon polarization does not rotate under this condition, an integral positron asymmetry is seen even in transverse field if the resonance condition is met. Essentially, the same data acquisition set-up and high beam currents as used in other integral μSR techniques, such as ALCR, can be used to scan for the resonant field, which scales linearly with the hyperfine constant, Aμ. A theoretical treatment of the resonances in the case of isotropic Aμ is presented along with measured spectra demonstrating the technique.Peer reviewedFinal article publishedTime-integral μSRHyperfine couplingμSR technique
Structure and dynamics of the Mu adduct of diketene
No full textThe radical formed by muonium addition to diketene has been studied by transverse field muon spin rotation (TF-[small micro]SR) and muon avoided level-crossing resonance ([small micro]ALCR). The TF-[small micro]SR spectrum shows that muonium adds to only one site in diketene, and it is clear from the [small micro]ALCR spectrum that the radical product contains two inequivalent sets of protons. The muon and proton hyperfine coupling constants (hfcs) were determined at several temperatures between 280 and 362 K. The muon hfc falls with increasing temperature, one proton hfc increases, and the other remains constant. The magnitude and temperature dependence of the hfcs support assignment of the 4-muonomethyl-oxetan-2-on-4-yl radical. Density functional calculations were performed to model the temperature dependence of the hfcs. The results are consistent with a preferred conformation of the muoniated methyl group in which the C-Mu bond eclipses the orbital containing the unpaired electron.Peer reviewedFinal article publishe
Detection of muoniated organic free radicals in supercritical water
No full textMuoniated free radicals have been detected in muon-irradiated aqueous solutions at high temperatures and pressures. Results are presented for the cyclohexadienyl radical, formed by muonium addition to benzene, and for tert-butyl, formed by reaction of muonium with isobutene, itself formed in situ from the dehydration of the starting material, tert-butanol. This is the first report of the direct identification of organic free radicals in near critical and supercritical water.Peer reviewe
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