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  • Open Access
    Authors: 
    Jinluo Cheng; Julien Rioux; John E. Sipe;
    Publisher: American Physical Society (APS)
    Project: NSERC

    Using an empirical pseudopotential description of electron states and an adiabatic bond charge model for phonon states in bulk silicon, we theoretically investigate two-photon indirect optical injection of carriers and spins and two-color coherent control of the motion of the injected carriers and spins. For two-photon indirect carrier and spin injection, we identify the selection rules of band edge transitions, the injection in each conduction band valley, and the injection from each phonon branch at 4 K and 300 K. At 4 K, the TA phonon-assisted transitions dominate the injection at low photon energies, and the TO phonon-assisted at high photon energies. At 300 K, the former dominates at all photon energies of interest. The carrier injection shows anisotropy and linear-circular dichroism with respect to light propagation direction. For light propagating along the $<001>$ direction, the carrier injection exhibits valley anisotropy, and the injection into the $Z$ conduction band valley is larger than that into the $X/Y$ valleys. For $��^-$ light propagating along the $<001>$ ($<111>$) direction, the degree of spin polarization gives a maximum value about 20% (6%) at 4 K and -10% (20%) at 300 K, and at both temperature shows abundant structure near the injection edges due to contributions from different phonon branches. Forthe two-color coherent current injection with an incident optical field composed of a fundamental frequency and its second harmonic, the response tensors of the electron (hole) charge and spin currents are calculated at 4 K and 300 K. We show the current control for three different polarization scenarios. The spectral dependence of the maximum swarm velocity shows that the direction of charge current reverses under increase in photon energy. 15 pages and 14 figures

  • Publication . Article . Preprint . 2009
    Open Access
    Authors: 
    Viktoria Hnatkovska; Vadim Marmer; Yao Tang;

    This Paper Contains Supplemental Material to Hnatkovska, Marmer, and Tang (2009) 'Comparison of Misspecified Calibrated Models: The Minimum Distance Approach'.

  • Publication . Article . Preprint . Conference object . 2004
    Open Access English
    Authors: 
    Sajina, Anna; Scott, Douglas; Dennefeld, Michel; Dole, Herve; Lacy, Mark; Lagache, Guilaine;
    Publisher: HAL CCSD
    Country: France
    Project: NSERC

    We present preliminary results on a study of the 2--850 micron SEDs of a sample of 30 FIRBACK galaxies selected at 170 micron. These sources are representative of the brightest ~10% of the Cosmic Infrared Background. They are a mixture of mostly local (z<~0.3) starforming galaxies, and a tail of ULIGs that extend up to z~1, and are likely to be a similar population to faint SCUBA sources. We use archival Spitzer IRAC and MIPS data to extend the spectral coverage to the mid-IR regime, resulting in an unprecended (for this redshift range) census of their infrared SEDs. This allows us to study in far greater detail this important population linking the near-IR stellar emission with PAH and thermal dust emission. We do this using a Markov Chain Monte Carlo method, which easily allows for the inclusion of ~6 free parameters, as well as an estimate of parameter uncertainties and correlations. Comment: 5 pages, 3 figures. Proceeding for the conference "Starbursts: From 30 Doradus to Lyman Break Galaxies", held in Cambridge (UK) in September, 2004

  • Open Access
    Authors: 
    Xu, L.; Kumar, P.; Buldyrev, S. V.; Chen, S. -H.; Poole, P. H.; Sciortino, F.; Stanley, H. E.;
    Publisher: arXiv
    Project: NSF | Cooperative Molecular Mot... (0096892)

    We investigate, for two water models displaying a liquid-liquid critical point, the relation between changes in dynamic and thermodynamic anomalies arising from the presence of the liquid-liquid critical point. We find a correlation between the dynamic fragility transition and the locus of specific heat maxima $C_P^{\rm max}$ (``Widom line'') emanating from the critical point. Our findings are consistent with a possible relation between the previously hypothesized liquid-liquid phase transition and the transition in the dynamics recently observed in neutron scattering experiments on confined water. More generally, we argue that this connection between $C_P^{\rm max}$ and dynamic crossover is not limited to the case of water, a hydrogen bond network forming liquid, but is a more general feature of crossing the Widom line. Specifically, we also study the Jagla potential, a spherically-symmetric two-scale potential known to possess a liquid-liquid critical point, in which the competition between two liquid structures is generated by repulsive and attractive ramp interactions. Comment: 6 pages and 5 figures

  • Open Access English
    Authors: 
    Ahmed Radwan; Ibraheem Othman;
    Publisher: Wiley

    Abstract A 59‐year‐old man was diagnosed with JAK2‐positive polycythemia vera. Subsequently, further laboratory testing revealed elevated ferritin and iron saturation. Genetic testing for HFE gene mutation screen revealed that the patient was positive for heterozygous C282Y mutation. The patient was ultimately diagnosed with both polycythemia vera and hereditary hemochromatosis. This case report highlights the crucial role of maintaining clinical suspicion for hereditary hemochromatosis in patients with polycythemia vera and vice versa.

  • Open Access
    Authors: 
    Jeremy Kahn; Mikhail Lyubich;
    Publisher: Societe Mathematique de France
    Project: NSERC

    A decoration of the Mandelbrot set $M$ is a part of $M$ cut off by two external rays landing at some tip of a satellite copy of $M$ attached to the main cardioid. In this paper we consider infinitely renormalizable quadratic polynomials satisfying the decoration condition, which means that the combinatorics of the renormalization operators involved is selected from a finite family of decorations. For this class of maps we prove {\it a priori} bounds. They imply local connectivity of the corresponding Julia sets and the Mandelbrot set at the corresponding parameter values. Comment: LaTeX, 29 pages, 2 figures

  • Publication . Article . Preprint . 2016 . Embargo End Date: 01 Jan 2014
    Open Access
    Authors: 
    Jason P. Bell; Albert Heinle; Viktor Levandovskyy;
    Publisher: arXiv
    Project: NSERC

    A domain $R$ is said to have the finite factorization property if every nonzero non-unit element of $R$ has at least one and at most finitely many distinct factorizations up to multiplication of irreducible factors by central units. Let $k$ be an algebraically closed field and let $A$ be a $k$-algebra. We show that if $A$ has an associated graded ring that is a domain with the property that the dimension of each homogeneous component is finite then $A$ is a finite factorization domain. As a corollary, we show that many classes of algebras have the finite factorization property, including Weyl algebras, enveloping algebras of finite-dimensional Lie algebras, quantum affine spaces and shift algebras. This provides a termination criterion for factorization procedures over these algebras. In addition, we give explicit upper bounds on the number of distinct factorizations of an element in terms of data from the filtration.

  • Open Access
    Authors: 
    Mohsen Mosleh; Gordon Pennycook; David G. Rand;
    Publisher: Public Library of Science (PLoS)
    Project: SSHRC

    There is an increasing imperative for psychologists and other behavioral scientists to understand how people behave on social media. However, it is often very difficult to execute experimental research on actual social media platforms, or to link survey responses to online behavior in order to perform correlational analyses. Thus, there is a natural desire to use self-reported behavioral intentions in standard survey studies to gain insight into online behavior. But are such hypothetical responses hopelessly disconnected from actual sharing decisions? Or are online survey samples via sources such as Amazon Mechanical Turk (MTurk) so different from the average social media user that the survey responses of one group give little insight into the on-platform behavior of the other? Here we investigate these issues by examining 67 pieces of political news content. We evaluate whether there is a meaningful relationship between (i) the level of sharing (tweets and retweets) of a given piece of content on Twitter, and (ii) the extent to which individuals (total N = 993) in online surveys on MTurk reported being willing to share that same piece of content. We found that the same news headlines that were more likely to be hypothetically shared on MTurk were also shared more frequently by Twitter users, r = .44. For example, across the observed range of MTurk sharing fractions, a 20 percentage point increase in the fraction of MTurk participants who reported being willing to share a news headline on social media was associated with 10x as many actual shares on Twitter. We also found that the correlation between sharing and various features of the headline was similar using both MTurk and Twitter data. These findings suggest that self-reported sharing intentions collected in online surveys are likely to provide some meaningful insight into what content would actually be shared on social media.

  • Publication . Article . Preprint . 2023 . Embargo End Date: 01 Jan 2022
    Open Access
    Authors: 
    Zachary Bradshaw; Chen-Chih Lai; Tai-Peng Tsai;
    Publisher: arXiv
    Project: NSERC

    We first prove decay estimates and spacetime integral bounds for Stokes flows in amalgam spaces $E^r_q$ which connect the classical Lebesgue spaces to the spaces of uniformly locally $r$-integrable functions. Using these estimates, we construct mild solutions of the Navier-Stokes equations in the amalgam spaces satisfying the corresponding spacetime integral bounds. Time-global solutions are constructed for small data in $E^3_q$, $1\le q \le 3$. Our results provide new bounds for the strong solutions classically constructed by Kato and the more recent solutions in uniformly local spaces constructed by Maekawa and Terasawa. As an application we obtain a result on the stability of suitability for weak solutions to the perturbed Navier-Stokes equation where the drift velocity solves the Navier-Stokes equations and has small data in a local $L^3$ class. Extending an earlier result, we also construct global-in-time local energy weak solutions in $E^2_q$, $1\le q <2$. 57 pages, 1 figure

  • Open Access English
    Authors: 
    Rene Quevedo; El-Hachem N; Petr Smirnov; Zhaleh Safikhani; Trevor J. Pugh; Benjamin Haibe-Kains;
    Publisher: Cold Spring Harbor Laboratory

    ABSTRACTBackgroundSomatic copy-number alterations that affect large genomic regions are a major source of genomic diversity in cancer and can impact cellular phenotypes. Clonal heterogeneity within cancer cell lines can affect phenotypic presentation, including drug response.MethodsWe aggregated and analyzed SNP and copy number profiles from six pharmacogenomic datasets encompassing 1,691 cell lines screened for 13 molecules. To look for sources of genotype and karyotype discordances, we compared SNP genotypes and segmental copy-ratios across 5 kb genomic bins. To assess the impact of genomic discordances on pharmacogenomic studies, we assessed gene expression and drug sensitivity data for compared discordant and concordant lines.ResultsWe found 6/1,378 (0.4%) cell lines profiled in two studies to be discordant in both genotypic and karyotypic identity, 51 (3.7%) discordant in genotype, 97 (7.0%) discordant in karyotype, and 125 (9.1%) potential misidentifications. We highlight cell lines REH, NCI-H23 and PSN1 as having drug response discordances that may hinge on divergent copy-number qConclusionsOur study highlights the low level of misidentification as evidence of effective cell line authentication standards in recent pharmacogenomic studies. However, the proclivity of cell lines to acquire somatic copy-number variants can alter the cellular phenotype, resulting in a biological and predictable effects on drug sensitivity. These findings highlight the need for verification of cell line copy number profiles to inform interpretation of drug sensitivity data in biomedical studies.

Include:
110,317 Research products, page 1 of 11,032
  • Open Access
    Authors: 
    Jinluo Cheng; Julien Rioux; John E. Sipe;
    Publisher: American Physical Society (APS)
    Project: NSERC

    Using an empirical pseudopotential description of electron states and an adiabatic bond charge model for phonon states in bulk silicon, we theoretically investigate two-photon indirect optical injection of carriers and spins and two-color coherent control of the motion of the injected carriers and spins. For two-photon indirect carrier and spin injection, we identify the selection rules of band edge transitions, the injection in each conduction band valley, and the injection from each phonon branch at 4 K and 300 K. At 4 K, the TA phonon-assisted transitions dominate the injection at low photon energies, and the TO phonon-assisted at high photon energies. At 300 K, the former dominates at all photon energies of interest. The carrier injection shows anisotropy and linear-circular dichroism with respect to light propagation direction. For light propagating along the $<001>$ direction, the carrier injection exhibits valley anisotropy, and the injection into the $Z$ conduction band valley is larger than that into the $X/Y$ valleys. For $��^-$ light propagating along the $<001>$ ($<111>$) direction, the degree of spin polarization gives a maximum value about 20% (6%) at 4 K and -10% (20%) at 300 K, and at both temperature shows abundant structure near the injection edges due to contributions from different phonon branches. Forthe two-color coherent current injection with an incident optical field composed of a fundamental frequency and its second harmonic, the response tensors of the electron (hole) charge and spin currents are calculated at 4 K and 300 K. We show the current control for three different polarization scenarios. The spectral dependence of the maximum swarm velocity shows that the direction of charge current reverses under increase in photon energy. 15 pages and 14 figures

  • Publication . Article . Preprint . 2009
    Open Access
    Authors: 
    Viktoria Hnatkovska; Vadim Marmer; Yao Tang;

    This Paper Contains Supplemental Material to Hnatkovska, Marmer, and Tang (2009) 'Comparison of Misspecified Calibrated Models: The Minimum Distance Approach'.

  • Publication . Article . Preprint . Conference object . 2004
    Open Access English
    Authors: 
    Sajina, Anna; Scott, Douglas; Dennefeld, Michel; Dole, Herve; Lacy, Mark; Lagache, Guilaine;
    Publisher: HAL CCSD
    Country: France
    Project: NSERC

    We present preliminary results on a study of the 2--850 micron SEDs of a sample of 30 FIRBACK galaxies selected at 170 micron. These sources are representative of the brightest ~10% of the Cosmic Infrared Background. They are a mixture of mostly local (z<~0.3) starforming galaxies, and a tail of ULIGs that extend up to z~1, and are likely to be a similar population to faint SCUBA sources. We use archival Spitzer IRAC and MIPS data to extend the spectral coverage to the mid-IR regime, resulting in an unprecended (for this redshift range) census of their infrared SEDs. This allows us to study in far greater detail this important population linking the near-IR stellar emission with PAH and thermal dust emission. We do this using a Markov Chain Monte Carlo method, which easily allows for the inclusion of ~6 free parameters, as well as an estimate of parameter uncertainties and correlations. Comment: 5 pages, 3 figures. Proceeding for the conference "Starbursts: From 30 Doradus to Lyman Break Galaxies", held in Cambridge (UK) in September, 2004

  • Open Access
    Authors: 
    Xu, L.; Kumar, P.; Buldyrev, S. V.; Chen, S. -H.; Poole, P. H.; Sciortino, F.; Stanley, H. E.;
    Publisher: arXiv
    Project: NSF | Cooperative Molecular Mot... (0096892)

    We investigate, for two water models displaying a liquid-liquid critical point, the relation between changes in dynamic and thermodynamic anomalies arising from the presence of the liquid-liquid critical point. We find a correlation between the dynamic fragility transition and the locus of specific heat maxima $C_P^{\rm max}$ (``Widom line'') emanating from the critical point. Our findings are consistent with a possible relation between the previously hypothesized liquid-liquid phase transition and the transition in the dynamics recently observed in neutron scattering experiments on confined water. More generally, we argue that this connection between $C_P^{\rm max}$ and dynamic crossover is not limited to the case of water, a hydrogen bond network forming liquid, but is a more general feature of crossing the Widom line. Specifically, we also study the Jagla potential, a spherically-symmetric two-scale potential known to possess a liquid-liquid critical point, in which the competition between two liquid structures is generated by repulsive and attractive ramp interactions. Comment: 6 pages and 5 figures

  • Open Access English
    Authors: 
    Ahmed Radwan; Ibraheem Othman;
    Publisher: Wiley

    Abstract A 59‐year‐old man was diagnosed with JAK2‐positive polycythemia vera. Subsequently, further laboratory testing revealed elevated ferritin and iron saturation. Genetic testing for HFE gene mutation screen revealed that the patient was positive for heterozygous C282Y mutation. The patient was ultimately diagnosed with both polycythemia vera and hereditary hemochromatosis. This case report highlights the crucial role of maintaining clinical suspicion for hereditary hemochromatosis in patients with polycythemia vera and vice versa.

  • Open Access
    Authors: 
    Jeremy Kahn; Mikhail Lyubich;
    Publisher: Societe Mathematique de France
    Project: NSERC

    A decoration of the Mandelbrot set $M$ is a part of $M$ cut off by two external rays landing at some tip of a satellite copy of $M$ attached to the main cardioid. In this paper we consider infinitely renormalizable quadratic polynomials satisfying the decoration condition, which means that the combinatorics of the renormalization operators involved is selected from a finite family of decorations. For this class of maps we prove {\it a priori} bounds. They imply local connectivity of the corresponding Julia sets and the Mandelbrot set at the corresponding parameter values. Comment: LaTeX, 29 pages, 2 figures

  • Publication . Article . Preprint . 2016 . Embargo End Date: 01 Jan 2014
    Open Access
    Authors: 
    Jason P. Bell; Albert Heinle; Viktor Levandovskyy;
    Publisher: arXiv
    Project: NSERC

    A domain $R$ is said to have the finite factorization property if every nonzero non-unit element of $R$ has at least one and at most finitely many distinct factorizations up to multiplication of irreducible factors by central units. Let $k$ be an algebraically closed field and let $A$ be a $k$-algebra. We show that if $A$ has an associated graded ring that is a domain with the property that the dimension of each homogeneous component is finite then $A$ is a finite factorization domain. As a corollary, we show that many classes of algebras have the finite factorization property, including Weyl algebras, enveloping algebras of finite-dimensional Lie algebras, quantum affine spaces and shift algebras. This provides a termination criterion for factorization procedures over these algebras. In addition, we give explicit upper bounds on the number of distinct factorizations of an element in terms of data from the filtration.

  • Open Access
    Authors: 
    Mohsen Mosleh; Gordon Pennycook; David G. Rand;
    Publisher: Public Library of Science (PLoS)
    Project: SSHRC

    There is an increasing imperative for psychologists and other behavioral scientists to understand how people behave on social media. However, it is often very difficult to execute experimental research on actual social media platforms, or to link survey responses to online behavior in order to perform correlational analyses. Thus, there is a natural desire to use self-reported behavioral intentions in standard survey studies to gain insight into online behavior. But are such hypothetical responses hopelessly disconnected from actual sharing decisions? Or are online survey samples via sources such as Amazon Mechanical Turk (MTurk) so different from the average social media user that the survey responses of one group give little insight into the on-platform behavior of the other? Here we investigate these issues by examining 67 pieces of political news content. We evaluate whether there is a meaningful relationship between (i) the level of sharing (tweets and retweets) of a given piece of content on Twitter, and (ii) the extent to which individuals (total N = 993) in online surveys on MTurk reported being willing to share that same piece of content. We found that the same news headlines that were more likely to be hypothetically shared on MTurk were also shared more frequently by Twitter users, r = .44. For example, across the observed range of MTurk sharing fractions, a 20 percentage point increase in the fraction of MTurk participants who reported being willing to share a news headline on social media was associated with 10x as many actual shares on Twitter. We also found that the correlation between sharing and various features of the headline was similar using both MTurk and Twitter data. These findings suggest that self-reported sharing intentions collected in online surveys are likely to provide some meaningful insight into what content would actually be shared on social media.

  • Publication . Article . Preprint . 2023 . Embargo End Date: 01 Jan 2022
    Open Access
    Authors: 
    Zachary Bradshaw; Chen-Chih Lai; Tai-Peng Tsai;
    Publisher: arXiv
    Project: NSERC

    We first prove decay estimates and spacetime integral bounds for Stokes flows in amalgam spaces $E^r_q$ which connect the classical Lebesgue spaces to the spaces of uniformly locally $r$-integrable functions. Using these estimates, we construct mild solutions of the Navier-Stokes equations in the amalgam spaces satisfying the corresponding spacetime integral bounds. Time-global solutions are constructed for small data in $E^3_q$, $1\le q \le 3$. Our results provide new bounds for the strong solutions classically constructed by Kato and the more recent solutions in uniformly local spaces constructed by Maekawa and Terasawa. As an application we obtain a result on the stability of suitability for weak solutions to the perturbed Navier-Stokes equation where the drift velocity solves the Navier-Stokes equations and has small data in a local $L^3$ class. Extending an earlier result, we also construct global-in-time local energy weak solutions in $E^2_q$, $1\le q <2$. 57 pages, 1 figure

  • Open Access English
    Authors: 
    Rene Quevedo; El-Hachem N; Petr Smirnov; Zhaleh Safikhani; Trevor J. Pugh; Benjamin Haibe-Kains;
    Publisher: Cold Spring Harbor Laboratory

    ABSTRACTBackgroundSomatic copy-number alterations that affect large genomic regions are a major source of genomic diversity in cancer and can impact cellular phenotypes. Clonal heterogeneity within cancer cell lines can affect phenotypic presentation, including drug response.MethodsWe aggregated and analyzed SNP and copy number profiles from six pharmacogenomic datasets encompassing 1,691 cell lines screened for 13 molecules. To look for sources of genotype and karyotype discordances, we compared SNP genotypes and segmental copy-ratios across 5 kb genomic bins. To assess the impact of genomic discordances on pharmacogenomic studies, we assessed gene expression and drug sensitivity data for compared discordant and concordant lines.ResultsWe found 6/1,378 (0.4%) cell lines profiled in two studies to be discordant in both genotypic and karyotypic identity, 51 (3.7%) discordant in genotype, 97 (7.0%) discordant in karyotype, and 125 (9.1%) potential misidentifications. We highlight cell lines REH, NCI-H23 and PSN1 as having drug response discordances that may hinge on divergent copy-number qConclusionsOur study highlights the low level of misidentification as evidence of effective cell line authentication standards in recent pharmacogenomic studies. However, the proclivity of cell lines to acquire somatic copy-number variants can alter the cellular phenotype, resulting in a biological and predictable effects on drug sensitivity. These findings highlight the need for verification of cell line copy number profiles to inform interpretation of drug sensitivity data in biomedical studies.