410 research outputs found
DNA electrophoresis studied with the cage model
The cage model for polymer reptation, proposed by Evans and Edwards, and its
recent extension to model DNA electrophoresis, are studied by numerically exact
computation of the drift velocities for polymers with a length L of up to 15
monomers. The computations show the Nernst-Einstein regime (v ~ E) followed by
a regime where the velocity decreases exponentially with the applied electric
field strength. In agreement with de Gennes' reptation arguments, we find that
asymptotically for large polymers the diffusion coefficient D decreases
quadratically with polymer length; for the cage model, the proportionality
coefficient is DL^2=0.175(2). Additionally we find that the leading correction
term for finite polymer lengths scales as N^{-1/2}, where N=L-1 is the number
of bonds.Comment: LaTeX (cjour.cls), 15 pages, 6 figures, added correctness proof of
kink representation approac
№ 201. Ордер на обшук та арешт Харитона Гов’ядовського від 21лютого 1938 р.
Op de studiegroep Wiskunde met de Industrie in 2005 in Amsterdam was de medische wetenschap prominent aanwezig. Het woord ‘industrie’ in de naam van de workshop moet dan ook al sinds vele jaren ruim worden opgevat. De studiegroep is daarmee tevens een test hoe bruikbaar wiskunde eigenlijk is voor de samenleving. Hoe kunnen wiskundige disciplines commercieel worden ingezet, wat hebben we aan de nieuwste ontwikkelingen in de statistiek, wat is de betekenis van de steeds maar groeiende kennis van het modelleren met differentiaalvergelijkingen? Soms valt dit tegen, maar wiskundige common sense geeft de bedrijven ook dikwijls een andere blik op hun probleem. En de wiskundigen kunnen met hun neus bovenop een open-hartoperatie komen te staan
Is a colorectal neoplasm diagnosis a trigger to change dietary and other lifestyle habits for persons with Lynch syndrome? A prospective cohort study
A cancer diagnosis is suggested to be associated with changes in dietary and lifestyle habits. Whether this applies to persons with familial cancer, such as Lynch syndrome (LS) is unknown. We investigated whether a colorectal neoplasm (CRN) diagnosis in persons with LS is associated with changes in dietary and lifestyle habits over time. We used data of confirmed LS mutation carriers from the GEOLynch study, a prospective cohort study. Information on dietary intake and lifestyle habits was collected with a validated semi-quantitative food frequency questionnaire and a general questionnaire administered at baseline (2006–2008) and follow-up (2012–2017). Participants’ medical records were used to identify CRN diagnoses. Changes in dietary and lifestyle habits in the CRN and the no-CRN group were compared using multivariable linear regression models for continuous variables and cross-tables with percentage change at follow-up compared with baseline for categorical variables. Of the 324 included participants, 146 developed a CRN (CRN group) between baseline and follow-up, while 178 did not (no-CRN group). Smoking cessation was more often reported in the CRN than in the no-CRN group (41.4% vs. 35.0%). There were no differences in changes of energy intake, alcohol, red meat, processed meat, dairy, fruit, vegetables and dietary fiber consumption, BMI, physical activity and NSAID use. Apart from a potentially higher likelihood of smoking cessation, we found little evidence that a CRN diagnosis is associated with changes in lifestyle habits in persons with LS.</p
Restriction of host range by the sym2 allele of Afghan pea is nonspecific for the type of modification at the reducing terminus of nodulation signals
Microbial Biotechnolog
One-Step Agrobacterium Mediated Transformation of Eight Genes Essential for Rhizobium Symbiotic Signaling Using the Novel Binary Vector System pHUGE
Advancement in plant research is becoming impaired by the fact that the transfer of multiple genes is difficult to achieve. Here we present a new binary vector for Agrobacterium tumefaciens mediated transformation, pHUGE-Red, in concert with a cloning strategy suited for the transfer of up to nine genes at once. This vector enables modular cloning of large DNA fragments by employing Gateway technology and contains DsRED1 as visual selection marker. Furthermore, an R/Rs inducible recombination system was included allowing subsequent removal of the selection markers in the newly generated transgenic plants. We show the successful use of pHUGE-Red by transferring eight genes essential for Medicago truncatula to establish a symbiosis with rhizobia bacteria as one 74 kb T-DNA into four non-leguminous species; strawberry, poplar, tomato and tobacco. We provide evidence that all transgenes are expressed in the root tissue of the non-legumes. Visual control during the transformation process and subsequent marker gene removal makes the pHUGE-Red vector an excellent tool for the efficient transfer of multiple genes
Towards device-size atomistic models of amorphous silicon
The atomic structure of amorphous materials is believed to be well described
by the continuous random network model. We present an algorithm for the
generation of large, high-quality continuous random networks. The algorithm is
a variation of the "sillium" approach introduced by Wooten, Winer, and Weaire.
By employing local relaxation techniques, local atomic rearrangements can be
tried that scale almost independently of system size. This scaling property of
the algorithm paves the way for the generation of realistic device-size atomic
networks.Comment: 7 pages, 3 figure
MBSPDiscover: An Automatic Benchmark for MultiBSP Performance Analysis
International audienceMulti-Bulk Synchronous Parallel (MultiBSP) is a recently proposed parallel programming model for multicore machines that extends the classic BSP model. MultiBSP is very useful to design algorithms and estimate their running time, which are hard to do in High Performance Computing applications. For a correct estimation of the running time, the main parameters of the MultiBSP model for different multicore architectures need to be determined. This article presents a benchmark proposal for measuring the parameters that characterize the communication and synchronization cost for the model. Our approach discovers automatically the hierarchical structure of the multicore architecture by using a specific tool (hwloc) that allows obtaining runtime information about the machine. We describe the design, implementation and the results of benchmarking two multicore machines. Furthermore, we report the validation of the proposed method by using a real MultiBSP implementation of the vector inner product algorithm and comparing the predicted execution time against the real execution time
Parallel Sparse LU Decomposition on a Mesh Network of Transputers
A parallel algorithm is presented for the LU decomposition of a general sparse matrix on a distributed-memory MIMD multiprocessor with a square mesh communication network. In the algorithm, matrix elements are assigned to processors according to the grid distribution. Each processor represents the nonzero elements of its part of the matrix by a local, ordered, two-dimensional linked-list data structure. The complexity of important operations on this data structure and on several others is analysed. At each step of the algorithm, a parallel search for a set of m compatible pivot elements is performed. The Markowitz counts of the pivot elements are close to minimum, to preserve the sparsity of the matrix. The pivot elements also satisfy a threshold criterion, to ensure numerical stability. The compatibility of the m pivots enables the simultaneous elimination of m pivot rows and m pivot columns in a rank-m update of the reduced matrix. Experimental results on a network of 400 transputers are presented for a set of test matrices from the Harwell–Boeing sparse matrix collection
Associations of Height With the Risks of Colorectal and Endometrial Cancer in Persons With Lynch Syndrome
People with Lynch syndrome (LS), who carry a pathogenic mutation in a DNA mismatch repair gene, have increased risks of colorectal cancer (CRC) and endometrial cancer (EC). A high reported variability in cancer risk suggests the existence of factors that modify cancer risk for persons with LS. We aimed to investigate the associations between height and CRC and EC risk for persons with LS using data from 2 large studies. Information on 1,115 men and 1,553 women with LS from the Colon Cancer Family Registry (1998-2007) and the GEOLynch Cohort Study (2006-2017) was harmonized. We used weighted Cox proportional hazards regression models with age on the time axis to estimate adjusted hazard ratios and 95% confidence intervals for each 5-cm increment in self-reported height. CRC was diagnosed in 947 persons during 65,369 person-years of observation, and 171 women were diagnosed with EC during 39,227 person-years. Height was not associated with CRC for either men (per 5-cm increment, hazard ratio (HR) = 1.00, 95% confidence interval (CI): 0.91, 1.11) or women (per 5-cm increment, HR = 1.01, 95% CI: 0.92, 1.11), nor was height associated with EC (per 5-cm increment, HR = 1.08, 95% CI: 0.94, 1.24). Hence, we observed no evidence for an association of height with either CRC or EC among persons with LS.</p
Increasing Detection Performance of Surveillance Sensor Networks
We study a surveillance wireless sensor network (SWSN) comprised of small and low-cost sensors deployed in a region in order to detect objects crossing the field of interest.
In the present paper, we address two problems concerning the design and performance of an SWSN: optimal sensor placement and algorithms for object detection in the presence of false alarms. For both problems, we propose explicit decision rules and efficient algorithmic solutions. Further, we provide several numerical examples and present a simulation model that combines our placement and detection methods
- …