3,059 research outputs found
Performance-based regulation and its applications
2002-2003 > Academic research: refereed > Publication in refereed journalVersion of RecordPublishe
Few-Shot Single-View 3-D Object Reconstruction with Compositional Priors
The impressive performance of deep convolutional neural networks in
single-view 3D reconstruction suggests that these models perform non-trivial
reasoning about the 3D structure of the output space. However, recent work has
challenged this belief, showing that complex encoder-decoder architectures
perform similarly to nearest-neighbor baselines or simple linear decoder models
that exploit large amounts of per category data in standard benchmarks. On the
other hand settings where 3D shape must be inferred for new categories with few
examples are more natural and require models that generalize about shapes. In
this work we demonstrate experimentally that naive baselines do not apply when
the goal is to learn to reconstruct novel objects using very few examples, and
that in a \emph{few-shot} learning setting, the network must learn concepts
that can be applied to new categories, avoiding rote memorization. To address
deficiencies in existing approaches to this problem, we propose three
approaches that efficiently integrate a class prior into a 3D reconstruction
model, allowing to account for intra-class variability and imposing an implicit
compositional structure that the model should learn. Experiments on the popular
ShapeNet database demonstrate that our method significantly outperform existing
baselines on this task in the few-shot setting
Surveillance and Genome Analysis of Human Bocavirus in Patients with Respiratory Infection in Guangzhou, China.
Human bocavirus (HBoV) is a novel parvovirus associated with respiratory tract diseases and gastrointestinal illness in adult and pediatric patients throughout the world. To investigate the epidemiological and genetic variation of HBoV in Guangzhou, South China, we screened 3460 throat swab samples from 1686 children and 1774 adults with acute respiratory infection symptoms for HBoV between March 2010 and February 2011, and analyzed the complete genome sequence of 2 HBoV strains. Specimens were screened for HBoV by real-time PCR and other 6 common respiratory viruses by RT-PCR or PCR. HBoV was detected in 58 (1.68%) out of 3460 samples, mostly from pediatric patients (52/58) and inpatient children (47/58). Six adult patients were detected as HBoV positive and 5 were emergency cases. Of these HBoV positive cases, 19 (32.76%) had co-pathogens including influenza virus (n = 5), RSV (n = 5), parainfluenza (n = 4), adenovirus (n = 1), coronavirus (n = 7). The complete genome sequences of 2 HBoVs strains (Genbank no. JN794565 and JN794566) were analyzed. Phylogenetic analysis showed that the 2 HBoV strains were HBoV1, and were most genetically close to ST2 (GenBank accession number DQ0000496). Recombination analysis confirmed that HBoV strain GZ9081 was an intra-genotype recombinant strain among HBoV1 variants.published_or_final_versio
Transcript profiling of two alfalfa genotypes with contrasting cell wall composition in stems using a cross-species platform: optimizing analysis by masking biased probes
<p>Abstract</p> <p>Background</p> <p>The GeneChip<sup>® </sup><it>Medicago </it>Genome Array, developed for <it>Medicago truncatula</it>, is a suitable platform for transcript profiling in tetraploid alfalfa [<it>Medicago sativa </it>(L.) subsp. <it>sativa</it>]. However, previous research involving cross-species hybridization (CSH) has shown that sequence variation between two species can bias transcript profiling by decreasing sensitivity (number of expressed genes detected) and the accuracy of measuring fold-differences in gene expression.</p> <p>Results</p> <p>Transcript profiling using the <it>Medicago </it>GeneChip<sup>® </sup>was conducted with elongating stem (ES) and post-elongation stem (PES) internodes from alfalfa genotypes 252 and 1283 that differ in stem cell wall concentrations of cellulose and lignin. A protocol was developed that masked probes targeting inter-species variable (ISV) regions of alfalfa transcripts. A probe signal intensity threshold was selected that optimized both sensitivity and accuracy. After masking for both ISV regions and previously identified single-feature polymorphisms (SFPs), the number of differentially expressed genes between the two genotypes in both ES and PES internodes was approximately 2-fold greater than the number detected prior to masking. Regulatory genes, including transcription factor and receptor kinase genes that may play a role in development of secondary xylem, were significantly over-represented among genes up-regulated in 252 PES internodes compared to 1283 PES internodes. Several cell wall-related genes were also up-regulated in genotype 252 PES internodes. Real-time quantitative RT-PCR of differentially expressed regulatory and cell wall-related genes demonstrated increased sensitivity and accuracy after masking for both ISV regions and SFPs. Over 1,000 genes that were differentially expressed in ES and PES internodes of genotypes 252 and 1283 were mapped onto putative orthologous loci on <it>M. truncatula </it>chromosomes. Clustering simulation analysis of the differentially expressed genes suggested co-expression of some neighbouring genes on <it>Medicago </it>chromosomes.</p> <p>Conclusions</p> <p>The problems associated with transcript profiling in alfalfa stems using the <it>Medicago </it>GeneChip as a CSH platform were mitigated by masking probes targeting ISV regions and SFPs. Using this masking protocol resulted in the identification of numerous candidate genes that may contribute to differences in cell wall concentration and composition of stems of two alfalfa genotypes.</p
Functional Analysis of Alleged NOGGIN Mutation G92E Disproves Its Pathogenic Relevance
We identified an amino acid change (p.G92E) in the Bone Morphogenetic Protein antagonist NOGGIN in a 22-month-old boy who presented with a unilateral brachydactyly type B phenotype. Brachydactyly type B is a skeletal malformation that has been associated with increased Bone Morphogenetic Protein pathway activation in other patients. Previously, the amino acid change p.G92E in NOGGIN was described as causing fibrodysplasia ossificans progressiva, a rare genetic disorder characterized by limb malformations and progressive heterotopic bone formation in soft tissues that, like Brachydactyly type B, is caused by increased activation of Bone Morphogenetic Protein signaling. To determine whether G92E-NOGGIN shows impaired antagonism that could lead to increased Bone Morphogenetic Protein signaling, we performed functional assays to evaluate inhibition of BMP signaling. Interestingly, wt-NOGGIN shows different inhibition efficacies towards various Bone Morphogenetic Proteins that are known to be essential in limb development. However, comparing the biological activity of G92E-NOGGIN with wt-NOGGIN, we observed that G92E-NOGGIN inhibits activation of bone morphogenetic protein signaling with equal efficiency as wt-NOGGIN, supporting that G92E-NOGGIN does not cause pathological effects. Genetic testing of the child's parents revealed the same amino acid change in the healthy father, further supporting that p.G92E is a neutral amino acid substitution in NOGGIN. We conclude that p.G92E represents a rare polymorphism of the NOGGIN gene - causing neither brachydactyly nor fibrodysplasia ossificans progressiva. This study highlights that a given genetic variation should not be considered pathogenic unless supported by functional analyses
Search for Exotic Strange Quark Matter in High Energy Nuclear Reactions
We report on a search for metastable positively and negatively charged states
of strange quark matter in Au+Pb reactions at 11.6 A GeV/c in experiment E864.
We have sampled approximately six billion 10% most central Au+Pb interactions
and have observed no strangelet states (baryon number A < 100 droplets of
strange quark matter). We thus set upper limits on the production of these
exotic states at the level of 1-6 x 10^{-8} per central collision. These limits
are the best and most model independent for this colliding system. We discuss
the implications of our results on strangelet production mechanisms, and also
on the stability question of strange quark matter.Comment: 21 pages, 9 figures, to be published in Nuclear Physics A (Carl Dover
memorial edition
Fabrication and photoluminescent properties of Tb3+ doped carbon nanodots
Abstract Carbon nanodots (CNDs) doped with Tb ions were synthesized using different synthetic routes: hydrothermal treatment of a solution containing carbon source (sodium dextran sulfate) and TbCl3; mixing of CNDs and TbCl3 solutions; freezing-induced loading of Tb and carbon-containing source into pores of CaCO3 microparticles followed by hydrothermal treatment. Binding of Tb ions to CNDs (Tb-CND coupling) was confirmed using size-exclusion chromatography and manifested itself through a decrease of the Tb photoluminescence lifetime signal. The shortest Tb photoluminescence lifetime was observed for samples obtained by hydrothermal synthesis of CaCO3 microparticles where Tb and carbon source were loaded into pores via the freezing-induced process. The same system displays an increase of Tb photoluminescence via energy transfer with excitation at 320–340 nm. Based on the obtained results, freezing-induced loading of cations into CNDs using porous CaCO3 microparticles as reactors is proposed to be a versatile route for the introduction of active components into CNDs. The obtained CNDs with long-lived emission may be used for time-resolved imaging and visualization in living biological samples where time-resolved and long-lived luminescence microscopy is required
The EDKB: an established knowledge base for endocrine disrupting chemicals
<p>Abstract</p> <p>Background</p> <p>Endocrine disruptors (EDs) and their broad range of potential adverse effects in humans and other animals have been a concern for nearly two decades. Many putative EDs are widely used in commercial products regulated by the Food and Drug Administration (FDA) such as food packaging materials, ingredients of cosmetics, medical and dental devices, and drugs. The Endocrine Disruptor Knowledge Base (EDKB) project was initiated in the mid 1990’s by the FDA as a resource for the study of EDs. The EDKB database, a component of the project, contains data across multiple assay types for chemicals across a broad structural diversity. This paper demonstrates the utility of EDKB database, an integral part of the EDKB project, for understanding and prioritizing EDs for testing.</p> <p>Results</p> <p>The EDKB database currently contains 3,257 records of over 1,800 EDs from different assays including estrogen receptor binding, androgen receptor binding, uterotropic activity, cell proliferation, and reporter gene assays. Information for each compound such as chemical structure, assay type, potency, etc. is organized to enable efficient searching. A user-friendly interface provides rapid navigation, Boolean searches on EDs, and both spreadsheet and graphical displays for viewing results. The search engine implemented in the EDKB database enables searching by one or more of the following fields: chemical structure (including exact search and similarity search), name, molecular formula, CAS registration number, experiment source, molecular weight, etc. The data can be cross-linked to other publicly available and related databases including TOXNET, Cactus, ChemIDplus, ChemACX, Chem Finder, and NCI DTP. </p> <p>Conclusion</p> <p>The EDKB database enables scientists and regulatory reviewers to quickly access ED data from multiple assays for specific or similar compounds. The data have been used to categorize chemicals according to potential risks for endocrine activity, thus providing a basis for prioritizing chemicals for more definitive but expensive testing. The EDKB database is publicly available and can be found online at <url>http://edkb.fda.gov/webstart/edkb/index.html</url>.</p> <p><b>Disclaimer:</b><it>The views presented in this article do not necessarily reflect those of the US Food and Drug Administration.</it></p
Quantum magnetism and criticality
Magnetic insulators have proved to be fertile ground for studying new types
of quantum many body states, and I survey recent experimental and theoretical
examples. The insights and methods transfer also to novel superconducting and
metallic states. Of particular interest are critical quantum states, sometimes
found at quantum phase transitions, which have gapless excitations with no
particle- or wave-like interpretation, and control a significant portion of the
finite temperature phase diagram. Remarkably, their theory is connected to
holographic descriptions of Hawking radiation from black holes.Comment: 39 pages, 10 figures, review article for non-specialists; (v2) added
clarifications and references; (v3) minor corrections; (v4) added footnote on
hydrodynamic long-time tail
Long-term effect of respiratory training for chronic obstructive pulmonary disease patients at an outpatient clinic: a randomised controlled trial
Objective: To assess the effect of respiratory training (RT ) on lung function, activity tolerance and acute exacerbation frequency with chronic obstructive pulmonary disease (COPD). Design: A randomised controlled trial. Setting: Outpatient clinic and home of the COPD patients, Zhengzhou City, China. Subjects: Sixty participants with COPD were randomised into two groups: an intervention group ( n = 30) which received the RT in self-management and a control group ( n = 30) that received an education program during the study. Intervention: Pulmonary function, activity tolerance and frequency of acute exacerbation of these COPD patients were evaluated before and after the program. The intervention and control programs were delivered at monthly out - patient clinic visits over a period of 12 months. The pulmonary rehabilitation (PR) program was conducted by a physiotherapist (who delivered RT to the participant over a minimum of 1 h per visit) for the intervention group, whereas the control group received routine health education provided by physiotherapists. The intervention group patients were then instructed to perform exercises at home as taught in the RT at least 5 days per week at home. Results: After 12 months of RT, the lung function and the activity tolerance of the COPD patients in the intervention group were significantly improved and the exacerbation frequency was also decreased. Conclusion: Long-term RT can improve lung function and activity tolerance while decreasing the frequency of acute exacerbation for COPD patient
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