70 research outputs found
Recommended from our members
Molecular investigations on a chimeric strain of Staphylococcus aureus sequence type 80
A PVL-positive, methicillin-susceptible Staphylococcus aureus was cultured from pus from cervical lymphadenitis of a patient of East-African origin. Microarray hybridisation assigned the isolate to clonal complex (CC) 80 but revealed unusual features, including the presence of the ORF-CM14 enterotoxin homologue and of an ACME-III element as well as the absence of etD and edinB. The isolate was subjected to both, Illumina and Nanopore sequencing allowing characterisation of deviating regions within the strain´s genome. Atypical features of this strain were attributable to the presence of two genomic regions that originated from other S. aureus lineages and that comprised, respectively, 3% and 1.4% of the genome. One deviating region extended from walJ to sirB. It comprised ORF-CM14 and the ACME-III element. A homologous but larger fragment was also found in an atypical S. aureus CC1/ST567 strain whose lineage might have served as donor of this genomic region. This region itself is a chimera comprising fragments from CC1 as well as fragments of unknown origin. The other deviating region comprised the region from htsB to ecfA2, i.e., another 3% of the genome. It was very similar to CC1 sequences. Either this suggests an incorporation of CC1 DNA into the study strain, or alternatively a recombination event affecting “canonical” CC80. Thus, the study strain bears witness of several recombination events affecting supposedly core genomic genes. Although the exact mechanism is not yet clear, such chimerism seems to be an additional pathway in the evolution of S. aureus. This could facilitate also a transmission of virulence and resistance factors and therefore offer an additional evolutionary advantage
ShadowTutor: Distributed Partial Distillation for Mobile Video DNN Inference
Following the recent success of deep neural networks (DNN) on video computer
vision tasks, performing DNN inferences on videos that originate from mobile
devices has gained practical significance. As such, previous approaches
developed methods to offload DNN inference computations for images to cloud
servers to manage the resource constraints of mobile devices. However, when it
comes to video data, communicating information of every frame consumes
excessive network bandwidth and renders the entire system susceptible to
adverse network conditions such as congestion. Thus, in this work, we seek to
exploit the temporal coherence between nearby frames of a video stream to
mitigate network pressure. That is, we propose ShadowTutor, a distributed video
DNN inference framework that reduces the number of network transmissions
through intermittent knowledge distillation to a student model. Moreover, we
update only a subset of the student's parameters, which we call partial
distillation, to reduce the data size of each network transmission.
Specifically, the server runs a large and general teacher model, and the mobile
device only runs an extremely small but specialized student model. On sparsely
selected key frames, the server partially trains the student model by targeting
the teacher's response and sends the updated part to the mobile device. We
investigate the effectiveness of ShadowTutor with HD video semantic
segmentation. Evaluations show that network data transfer is reduced by 95% on
average. Moreover, the throughput of the system is improved by over three times
and shows robustness to changes in network bandwidth.Comment: Accepted at ICPP 202
Defensin-Like ZmES4 Mediates Pollen Tube Burst in Maize via Opening of the Potassium Channel KZM1
Species-preferential osmotic pollen tube burst and sperm discharge in maize involve induced opening of the pollen tube-expressed potassium channel KZM1 by the egg apparatus-derived defensin-like protein ZmES4
Rasiowa–Sikorski deduction systems in computer science applications
AbstractA Rasiowa-Sikorski system is a sequence-type formalization of logics. The system uses invertible decomposition rules which decompose a formula into sequences of simpler formulae whose validity is equivalent to validity of the original formula. There may also be expansion rules which close indecomposable sequences under certain properties of relations appearing in the formulae, like symmetry or transitivity. Proofs are finite decomposition trees with leaves having “fundamental”, valid labels. The author describes a general method of applying the R-S formalism to develop complete deduction systems for various brands of C.S and A.I. logic, including a logic for reasoning about relative similarity, a three-valued software specification logic with McCarthy's connectives and Kleene quantifiers, a logic for nondeterministic specifications, many-sorted FOL with possibly empty carriers of some sorts, and a three-valued logic for reasoning about concurrency
Measurement of global polarization of {\Lambda} hyperons in few-GeV heavy-ion collisions
The global polarization of {\Lambda} hyperons along the total orbital angular
momentum of a relativistic heavy-ion collision is presented based on the high
statistics data samples collected in Au+Au collisions at \sqrt{s_{NN}} = 2.4
GeV and Ag+Ag at 2.55 GeV with the High-Acceptance Di-Electron Spectrometer
(HADES) at GSI, Darmstadt. This is the first measurement below the strangeness
production threshold in nucleon-nucleon collisions. Results are reported as a
function of the collision centrality as well as a function of the hyperon
transverse momentum (p_T) and rapidity (y_{CM}) for the range of centrality
0--40%. We observe a strong centrality dependence of the polarization with an
increasing signal towards peripheral collisions. For mid-central (20--40%)
collisions the polarization magnitudes are (%) = 6.0 \pm 1.3
(stat.) \pm 2.0 (syst.) for Au+Au and (%) = 4.6 \pm 0.4 (stat.)
\pm 0.5 (syst.) for Ag+Ag, which are the largest values observed so far. This
observation thus provides a continuation of the increasing trend previously
observed by STAR and contrasts expectations from recent theoretical
calculations predicting a maximum in the region of collision energies about 3
GeV. The observed polarization is of a similar magnitude as predicted by 3D
fluid dynamics and the UrQMD plus thermal vorticity model and significantly
above results from the AMPT model.Comment: 8 pages, 4 figure
Recent developments in genetics and medically assisted reproduction : from research to clinical applications
Two leading European professional societies, the European Society of Human Genetics and the European Society for Human Reproduction and Embryology, have worked together since 2004 to evaluate the impact of fast research advances at the interface of assisted reproduction and genetics, including their application into clinical practice. In September 2016, the expert panel met for the third time. The topics discussed highlighted important issues covering the impacts of expanded carrier screening, direct-to-consumer genetic testing, voiding of the presumed anonymity of gamete donors by advanced genetic testing, advances in the research of genetic causes underlying male and female infertility, utilisation of massively parallel sequencing in preimplantation genetic testing and non-invasive prenatal screening, mitochondrial replacement in human oocytes, and additionally, issues related to cross-generational epigenetic inheritance following IVF and germline genome editing. The resulting paper represents a consensus of both professional societies involved.Peer reviewe
Twist exome capture allows for lower average sequence coverage in clinical exome sequencing
Background Exome and genome sequencing are the predominant techniques in the diagnosis and research of genetic disorders. Sufficient, uniform and reproducible/consistent sequence coverage is a main determinant for the sensitivity to detect single-nucleotide (SNVs) and copy number variants (CNVs). Here we compared the ability to obtain comprehensive exome coverage for recent exome capture kits and genome sequencing techniques. Results We compared three different widely used enrichment kits (Agilent SureSelect Human All Exon V5, Agilent SureSelect Human All Exon V7 and Twist Bioscience) as well as short-read and long-read WGS. We show that the Twist exome capture significantly improves complete coverage and coverage uniformity across coding regions compared to other exome capture kits. Twist performance is comparable to that of both short- and long-read whole genome sequencing. Additionally, we show that even at a reduced average coverage of 70× there is only minimal loss in sensitivity for SNV and CNV detection. Conclusion We conclude that exome sequencing with Twist represents a significant improvement and could be performed at lower sequence coverage compared to other exome capture techniques
- …