TY - JOUR AB - We study the growth dynamics of ordered structures of strongly interacting polar molecules in optical lattices. Using a dipole blockade of microwave excitations, we map the system onto an interacting spin-1/2 model possessing ground states with crystalline order, and describe a way to prepare these states by nonadiabatically driving the transitions between molecular rotational levels. The proposed technique bypasses the need to cross a phase transition and allows for the creation of ordered domains of considerably larger size compared to approaches relying on adiabatic preparation. AU - Lemeshko, Mikhail AU - Krems, Roman AU - Weimer, Hendrik ID - 2201 IS - 3 JF - Physical Review Letters TI - Nonadiabatic preparation of spin crystals with ultracold polar molecules VL - 109 ER - TY - JOUR AB - We propose a method for sensitive parallel detection of low-frequency electromagnetic fields based on the fine structure interactions in paramagnetic polar molecules. Compared to the recently implemented scheme employing ultracold 87Rb atoms by Böhi, the technique based on molecules offers a 100-fold higher sensitivity, the possibility to measure both the electric and magnetic field components, and a probe of a wide range of frequencies from the dc limit to the THz regime. AU - Alyabyshev, Sergey V AU - Mikhail Lemeshko AU - Krems, Roman V ID - 2202 IS - 1 JF - Physical Review A - Atomic, Molecular, and Optical Physics TI - Sensitive imaging of electromagnetic fields with paramagnetic polar molecules VL - 86 ER - TY - JOUR AB - Nestin-cre transgenic mice have been widely used to direct recombination to neural stem cells (NSCs) and intermediate neural progenitor cells (NPCs). Here we report that a readily utilized, and the only commercially available, Nestin-cre line is insufficient for directing recombination in early embryonic NSCs and NPCs. Analysis of recombination efficiency in multiple cre-dependent reporters and a genetic mosaic line revealed consistent temporal and spatial patterns of recombination in NSCs and NPCs. For comparison we utilized a knock-in Emx1cre line and found robust recombination in NSCs and NPCs in ventricular and subventricular zones of the cerebral cortices as early as embryonic day 12.5. In addition we found that the rate of Nestin-cre driven recombination only reaches sufficiently high levels in NSCs and NPCs during late embryonic and early postnatal periods. These findings are important when commercially available cre lines are considered for directing recombination to embryonic NSCs and NPCs. AU - Liang, Huixuan AU - Hippenmeyer, Simon AU - Ghashghaei, H. ID - 2263 IS - 12 JF - Biology open TI - A Nestin-cre transgenic mouse is insufficient for recombination in early embryonic neural progenitors VL - 1 ER - TY - CONF AB - Capturing real-world objects with laser-scanning technology has become an everyday task. Recently, the acquisition of dynamic scenes at interactive frame rates has become feasible. A high-quality visualization of the resulting point cloud stream would require a per-frame reconstruction of object surfaces. Unfortunately, reconstruction computations are still too time-consuming to be applied interactively. In this paper we present a local surface reconstruction and visualization technique that provides interactive feedback for reasonably sized point clouds, while achieving high image quality. Our method is performed entirely on the GPU and in screen pace, exploiting the efficiency of the common rasterization pipeline. The approach is very general, as no assumption is made about point connectivity or sampling density. This naturally allows combining the outputs of multiple scanners in a single visualization, which is useful for many virtual and augmented reality applications. AU - Preiner, Reinhold AU - Jeschke, Stefan AU - Wimmer, Michael ID - 2267 TI - Auto splats: Dynamic point cloud visualization on the GPU ER - TY - JOUR AB - Mosaic Analysis with Double Markers (MADM) is a method for generating genetically mosaic mice, in which sibling mutant and wild-type cells are labeled with different fluorescent markers. It is a powerful tool that enables analysis of gene function at the single cell level in vivo. It requires transgenic cassettes to be located between the centromere and the mutation in the gene of interest on the same chromosome. Here we compare procedures for introduction of MADM cassettes into new loci in the mouse genome, and describe new approaches for expanding the utility of MADM. We show that: 1) Targeted homologous recombination outperforms random transgenesis in generation of reliably expressed MADM cassettes, 2) MADM cassettes in new genomic loci need to be validated for biallelic and ubiquitous expression, 3) Recombination between MADM cassettes on different chromosomes can be used to study reciprocal chromosomal deletions/duplications, and 4) MADM can be modified to permit transgene expression by combining it with a binary expression system. The advances described in this study expand current, and enable new and more versatile applications of MADM. AU - Tasic, Bosiljka AU - Miyamichi, Kazunari AU - Simon Hippenmeyer AU - Dani, Vardhan S. AU - Zeng, H. AU - Joo, William AU - Zong, Hui AU - Chen-Tsai, Yanru AU - Luo, Liqun ID - 2262 IS - 3 JF - PLoS One TI - Extensions of MADM (Mosaic Analysis with Double Markers) in Mice VL - 7 ER - TY - CONF AB - This paper presents an analytic formulation for anti-aliased sampling of 2D polygons and 3D polyhedra. Our framework allows the exact evaluation of the convolution integral with a linear function defined on the polytopes. The filter is a spherically symmetric polynomial of any order, supporting approximations to refined variants such as the Mitchell-Netravali filter family. This enables high-quality rasterization of triangles and tetrahedra with linearly interpolated vertex values to regular and non-regular grids. A closed form solution of the convolution is presented and an efficient implementation on the GPU using DirectX and CUDA C is described. AU - Thomas Auzinger AU - Guthe, Michael AU - Stefan Jeschke ID - 2268 IS - 121 TI - Analytic anti-aliasing of linear functions on polytopes VL - 31 ER - TY - JOUR AB - We introduce propagation models (PMs), a formalism able to express several kinds of equations that describe the behavior of biochemical reaction networks. Furthermore, we introduce the propagation abstract data type (PADT), which separates concerns regarding different numerical algorithms for the transient analysis of biochemical reaction networks from concerns regarding their implementation, thus allowing for portable and efficient solutions. The state of a propagation abstract data type is given by a vector that assigns mass values to a set of nodes, and its (next) operator propagates mass values through this set of nodes. We propose an approximate implementation of the (next) operator, based on threshold abstraction, which propagates only "significant" mass values and thus achieves a compromise between efficiency and accuracy. Finally, we give three use cases for propagation models: the chemical master equation (CME), the reaction rate equation (RRE), and a hybrid method that combines these two equations. These three applications use propagation models in order to propagate probabilities and/or expected values and variances of the model's variables. AU - Henzinger, Thomas A AU - Mateescu, Maria ID - 2302 IS - 2 JF - IEEE ACM Transactions on Computational Biology and Bioinformatics TI - The propagation approach for computing biochemical reaction networks VL - 10 ER - TY - JOUR AB - The translation of "next-generation" sequencing directly to the clinic is still being assessed but has the potential for genetic diseases to reduce costs, advance accuracy, and point to unsuspected yet treatable conditions. To study its capability in the clinic, we performed whole-exome sequencing in 118 probands with a diagnosis of a pediatric-onset neurodevelopmental disease in which most known causes had been excluded. Twenty-two genes not previously identified as disease-causing were identified in this study (19% of cohort), further establishing exome sequencing as a useful tool for gene discovery. New genes identified included EXOC8 in Joubert syndrome and GFM2 in a patient with microcephaly, simplified gyral pattern, and insulin-dependent diabetes. Exome sequencing uncovered 10 probands (8% of cohort) with mutations in genes known to cause a disease different from the initial diagnosis. Upon further medical evaluation, these mutations were found to account for each proband's disease, leading to a change in diagnosis, some of which led to changes in patient management. Our data provide proof of principle that genomic strategies are useful in clarifying diagnosis in a proportion of patients with neurodevelopmental disorders. AU - Dixon-Salazar, Tracy J AU - Silhavy, Jennifer L AU - Udpa, Nitin AU - Schroth, Jana AU - Bielas, Stephanie L AU - Schaffer, Ashleigh E AU - Olvera, Jesus AU - Bafna, Vineet K AU - Zaki, Maha S AU - Abdel-Salam, Ghada M AU - Mansour, Lobna A AU - Selim, Laila A AU - Abdel-Hadi, Sawsan S AU - Marzouki, Naima AU - Ben-Omran, Tawfeg I AU - Al-Saana, Nouriya A AU - Sönmez, Fatma M AU - Celep, Figen AU - Azam, Matloob AU - Hill, Kiley J AU - Collazo, Adrienne AU - Fenstermaker, Ali G AU - Gaia Novarino AU - Akizu, Naiara AU - Garimella, Kiran V AU - Sougnez, Carrie L AU - Russ, Carsten AU - Gabriel, Stacey B AU - Gleeson, Joseph G ID - 2313 IS - 138 JF - Science Translational Medicine TI - Exome sequencing can improve diagnosis and alter patient management VL - 4 ER - TY - JOUR AB - Autism spectrum disorders are a genetically heterogeneous constellation of syndromes characterized by impairments in reciprocal social interaction. Available somatic treatments have limited efficacy. We have identified inactivating mutations in the gene BCKDK (Branched Chain Ketoacid Dehydrogenase Kinase) in consanguineous families with autism, epilepsy, and intellectual disability. The encoded protein is responsible for phosphorylation-mediated inactivation of the E1α subunit of branched-chain ketoacid dehydrogenase (BCKDH). Patients with homozygous BCKDK mutations display reductions in BCKDK messenger RNA and protein, E1α phosphorylation, and plasma branched-chain amino acids. Bckdk knockout mice show abnormal brain amino acid profiles and neurobehavioral deficits that respond to dietary supplementation. Thus, autism presenting with intellectual disability and epilepsy caused by BCKDK mutations represents a potentially treatable syndrome. AU - Gaia Novarino AU - El-Fishawy, Paul AU - Kayserili, Hülya AU - Meguid, Nagwa A AU - Scott, Eric M AU - Schroth, Jana AU - Silhavy, Jennifer L AU - Kara, Majdi AU - Khalil, Rehab O AU - Ben-Omran, Tawfeg I AU - Ercan-Sencicek, Adife G AU - Hashish, Adel F AU - Sanders, Stephan J AU - Gupta, Abha R AU - Hashem, Hebatalla S AU - Matern, Dietrich AU - Gabriel, Stacey B AU - Sweetman, Lawrence AU - Rahimi, Yasmeen AU - Harris, Robert A AU - State, Matthew W AU - Gleeson, Joseph G ID - 2314 IS - 6105 JF - Science TI - Mutations in BCKD-kinase lead to a potentially treatable form of autism with epilepsy VL - 338 ER - TY - JOUR AB - We show that bosons interacting via pair potentials with negative scattering length form bound states for a suitable number of particles. In other words, the absence of many-particle bound states of any kind implies the non-negativity of the scattering length of the interaction potential. AU - Seiringer, Robert ID - 2318 IS - 3 JF - Journal of Spectral Theory TI - Absence of bound states implies non-negativity of the scattering length VL - 2 ER - TY - CONF AB - We present a summary of our recent rigorous derivation of the celebrated Ginzburg-Landau (GL) theory, starting from the microscopic Bardeen-Cooper-Schrieffer (BCS) model. Close to the critical temperature, GL arises as an effective theory on the macroscopic scale. The relevant scaling limit is semiclassical in nature, and semiclassical analysis, with minimal regularity assumptions, plays an important part in our proof. AU - Frank, Rupert L AU - Hainzl, Christian AU - Robert Seiringer AU - Solovej, Jan P ID - 2317 TI - Microscopic derivation of the Ginzburg-Landau model ER - TY - CONF AB - We summarize our recent results on the ground state energy of multi-polaron systems. In particular, we discuss stability and existence of the thermodynamic limit, and we discuss the absence of binding in the case of large Coulomb repulsion and the corresponding binding-unbinding transition. We also consider the Pekar-Tomasevich approximation to the ground state energy and we study radial symmetry of the ground state density. AU - Frank, Rupert L AU - Lieb, Élliott H AU - Robert Seiringer AU - Thomas, Lawrence E ID - 2316 TI - Ground state properties of multi-polaron systems ER - TY - JOUR AB - The Manin conjecture is established for Châtelet surfaces over Q aris-ing as minimal proper smooth models of the surface Y 2 + Z 2 = f(X) in A 3 Q, where f ∈ Z[X] is a totally reducible polynomial of degree 3 without repeated roots. These surfaces do not satisfy weak approximation. AU - de la Bretèche, Régis AU - Timothy Browning AU - Peyre, Emmanuel ID - 237 IS - 1 JF - Annals of Mathematics TI - On Manin's conjecture for a family of Châtelet surfaces VL - 175 ER - TY - JOUR AB - For given positive integers a, b, q we investigate the density of solutions (x, y) ∈ Z2 to congruences ax + by2 ≡ 0 mod q. AU - Baier, Stephan AU - Timothy Browning ID - 238 IS - 2 JF - Functiones et Approximatio, Commentarii Mathematici TI - Inhomogeneous quadratic congruences VL - 47 ER - TY - CHAP AB - Bose–Einstein condensation (BEC) in cold atomic gases was first achieved experimentally in 1995 [1, 6]. After initial failed attempts with spin-polarized atomic hydrogen, the first successful demonstrations of this phenomenon used gases of rubidium and sodium atoms, respectively. Since then there has been a surge of activity in this field, with ingenious experiments putting forth more and more astonishing results about the behavior of matter at very cold temperatures. AU - Robert Seiringer ED - Rivasseau, Vincent ED - Robert Seiringer ED - Solovej, Jan P ED - Spencer, Thomas ID - 2399 T2 - Quantum Many Body Systems TI - Cold quantum gases and bose einstein condensation VL - 2051 ER - TY - JOUR AB - We study the BCS gap equation for a Fermi gas with unequal population of spin-up and spin-down states. For cosh (δ μ/T) ≤ 2, with T the temperature and δμ the chemical potential difference, the question of existence of non-trivial solutions can be reduced to spectral properties of a linear operator, similar to the unpolarized case studied previously in [Frank, R. L., Hainzl, C., Naboko, S., and Seiringer, R., J., Geom. Anal.17, 559-567 (2007)10.1007/BF02937429; Hainzl, C., Hamza, E., Seiringer, R., and Solovej, J. P., Commun., Math. Phys.281, 349-367 (2008)10.1007/s00220-008-0489-2; and Hainzl, C. and Seiringer, R., Phys. Rev. B77, 184517-110 435 (2008)]10.1103/PhysRevB.77.184517. For cosh (δ μ/T) > 2 the phase diagram is more complicated, however. We derive upper and lower bounds for the critical temperature, and study their behavior in the small coupling limit. AU - Freiji, Abraham AU - Hainzl, Christian AU - Robert Seiringer ID - 2394 IS - 1 JF - Journal of Mathematical Physics TI - The gap equation for spin-polarized fermions VL - 53 ER - TY - JOUR AB - We give the first rigorous derivation of the celebrated Ginzburg-Landau (GL) theory, starting from the microscopic Bardeen-Cooper-Schrieffer (BCS) model. Close to the critical temperature, GL arises as an effective theory on the macroscopic scale. The relevant scaling limit is semiclassical in nature, and semiclassical analysis, with minimal regularity assumptions, plays an important part in our proof. AU - Frank, Rupert L AU - Hainzl, Christian AU - Robert Seiringer AU - Solovej, Jan P ID - 2395 IS - 3 JF - Journal of the American Mathematical Society TI - Microscopic derivation of Ginzburg-Landau theory VL - 25 ER - TY - JOUR AB - A positive temperature analogue of the scattering length of a potential V can be defined via integrating the difference of the heat kernels of -Δ and, with Δ the Laplacian. An upper bound on this quantity is a crucial input in the derivation of a bound on the critical temperature of a dilute Bose gas (Seiringer and Ueltschi in Phys Rev B 80:014502, 2009). In (Seiringer and Ueltschi in Phys Rev B 80:014502, 2009), a bound was given in the case of finite range potentials and sufficiently low temperature. In this paper, we improve the bound and extend it to potentials of infinite range. AU - Landon, Benjamin AU - Robert Seiringer ID - 2396 IS - 3 JF - Letters in Mathematical Physics TI - The scattering length at positive temperature VL - 100 ER - TY - GEN AB - We extend the mathematical theory of quantum hypothesis testing to the general W*-algebraic setting and explore its relation with recent developments in non-equilibrium quantum statistical mechanics. In particular, we relate the large deviation principle for the full counting statistics of entropy flow to quantum hypothesis testing of the arrow of time. AU - Jakšić, Vojkan AU - Ogata, Yoshiko AU - Pillet, Claude A AU - Robert Seiringer ID - 2398 IS - 6 T2 - Reviews in Mathematical Physics TI - Quantum hypothesis testing and non-equilibrium statistical mechanics VL - 24 ER - TY - JOUR AB - We consider the low-density limit of a Fermi gas in the BCS approximation. We show that if the interaction potential allows for a two-particle bound state, the system at zero temperature is well approximated by the Gross-Pitaevskii functional, describing a Bose-Einstein condensate of fermion pairs. AU - Hainzl, Christian AU - Robert Seiringer ID - 2397 IS - 2 JF - Letters in Mathematical Physics TI - Low density limit of BCS theory and Bose-Einstein condensation of Fermion pairs VL - 100 ER -