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microstructure segmentation with deep learning encoders pre-trained on a large microscopy dataset

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npj Computational materials 2022年第1期8卷 1905-1916页

作者： Joshua Stuckner bryan Harder Timothy m.Smith materials and Structures Division NASA Glenn Research Center21000 Brookpark RdClevelandOH44135USA

This study examined the improvement of microscopy segmentation intersection over union accuracy by transfer learning from a large dataset of microscopy images called *** neural network encoder architectures were trained on over 100,000 labeled microscopy images from 54 material *** pre-trained encoders were then embedded into multiple segmentation architectures including UNet and DeepLabV3+to evaluate segmentation performance on created benchmark microscopy *** to ImageNet pre-training,models pre-trained on microNet generalized better to out-of-distribution micrographs taken under different imaging and sample conditions and were more accurate with less training *** training with only a single Ni-superalloy image,pre-training on microNet produced a 72.2%reduction in relative intersection over union *** results suggest that transfer learning from large in-domain datasets generate models with learned feature representations that are more useful for downstream tasks and will likely improve any microscopy image analysis technique that can leverage pre-trained encoders.

关键词： union intersection image

Efficient predictions of formation energies and convex hulls from density functional tight binding calculations

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Journal of materials Science & Technology 2023年第10期141卷 236-244页

作者： Anshuman Kumar Zulfikhar A.Ali bryan m.Wong materials Science&Engineering Program University of California-RiversideRiverside92521CAUSA Department of Physics&Astronomy University of California-RiversideRiverside92521CAUSA materials Science&Engineering Program Department of Chemical&Environmental EngineeringDepartment of Physics&Astronomyand Department of ChemistryUniversity of California-RiversideRiverside92521CAUSA

Defects in materials significantly alter their electronic and structural properties,which affect the per-formance of electronic devices,structural alloys,and functional ***,calculating all the possible defects in complex materials with conventional Density Functional Theory(DFT)can be compu-tationally *** enhance the efficiency of these calculations,we interfaced Density Functional Tight Binding(DFTB)with the Clusters Approach to Statistical mechanics(CASm)software package for the first *** SiC and ZnO as representative examples,we show that DFTB gives accurate results and can be used as an efficient computational approach for calculating and pre-screening formation ener-gies/convex *** DFTB+CASm implementation allows for an efficient exploration(up to an order of magnitude faster than DFT)of formation energies and convex hulls,which researchers can use to probe other complex systems.

关键词： CASm DFTB DFT Formation energy Convex hull

An Overview of mODIS Radiometric Calibration and Characterization

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Advances in Atmospheric Sciences 2006年第1期23卷 69-79页

作者： Xiaoxiong XIONG William barnes Earth Sciences Directorate NASA/Goddard Space Flight Center Greenbelt MD 20771 USA University of maryland Baltimore County Baltimore MD 21250 USA

The moderate Resolution Imaging Spectroradiometer （mODIS） is one of the key instruments for NASA＇s Earth Observing System （EOS）, currently operating on both the Terra and Aqua satellites. The mODIS is a major advance over the previous generation of sensors in terms of its spectral, spatial, and temporal resolutions. It has 36 spectral bands： 20 reflective solar bands （RSB） with center wavelengths from 0.41 to 2.1 μm and 16 thermal emissive bands （TEB） with center wavelengths from 3.7 to 14.4 μm, making observations at three spatial resolutions： 250 m （bands 1-2）, 500 m （bands 3-7）, and lkm （bands 8-36）. mODIS is a cross-track scanning radiometer with a wide field-of-view, providing a complete global coverage of the Earth in less than 2 days. Both Terra and Aqua mODIS went through extensive pre-launch calibration and characterization at various levels. In orbit, the calibration and characterization tasks are performed using its on-board calibrators （OBCs） that include a solar diffuser （SD） and a solar diffuser stability monitor （SDSm）, a v-grooved flat panel blackbody （BB）, and a spectro-radiometric calibration assembly （SRCA）. In this paper, we present an overview of mODIS calibration and characterization activities, methodologies, and lessons learned from pre-launch characterization and in-orbit operation. Key issues discussed in this paper include in-orbit efforts of monitoring the noise characteristics of the detectors, tracking the solar diffuser and optics degradations, and updating the sensor＇s response versus scan angle. The experiences and lessons learned through mODIS have played and will continue to play major roles in the design and characterization of future sensors.

关键词： EOS remote sensing Terra Aqua mODIS sensor calibration radiometry

Regulation of the SQUAmOSA PROmOTER-BINDING PROTEIN-LIKE genes/microRNA 156 module by the Homeodomain Proteins PENNYWISE and POUND-FOOLISH in Arabidopsis

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molecular Plant 2011年第6期4卷 1123-1132页

作者： Shruti Lal Leo bryan Pacis Harley m.S. Smith Genetics Genomics and Bioinformatics Graduate Program University of California Riverside CA 92521 USA Center for Plant Cell Biology Institute of Integrative Genome Biology Department of Botany and Plant Sciences University of California Riverside CA 92521 USA

The morphology of inflorescences is regulated in part by the temporal and spatial events that regulate flower specification. In Arabidopsis, an endogenous flowering time pathway mediated by a subset of SQUAmOSA PROmOTER- BINDING PROTEIN-LIKE （SPL） transcription factors, including SPL3, SPL4, and SPL5, function to specify flowers by activating floral meristem identity genes. During shoot development, SPL3, SPL4, and SPL5 are post-transcriptionally regulated by microRNA156 （miR156）. The photoperiod regulated florigenic signal, FLOWERING LOCUS T （FT）, promotes floral induction, in part by activating SPL3, SPL4, and SPL5. In turn, these SPLs function in parallel with FT to specify flower meristems. Two related BELLl-like homeobox genes PENNYWISE （PNY） and POUND-FOOLISH （PNF） expressed in the shoot apical meristem are absolutely required for the specification of floral meristems. Genetic studies show that the floral specification function of FT depends upon PNYand PNF; however, the interplay between these homeodomain proteins and SPLs is not known. In this manuscript, we show that the photoperiodic floral induction of SPL3, SPL4, and SPL5 is dependent upon PNY and PNE Further, PNY and PNF also control SPL3, SPL4, and SPL5 expression by negatively regulating miR156. Lastly, ectopic expres- sion of SPL4 partially rescues the pny pnf non-flower-producing phenotype, while overexpression of SPL3 or SPL5 in pny pnf plants was unable to restore flower specification. These results suggest that：（1） SPL3, SPL4, and SPL5 function is dependent upon PNY and PNF, or （2） expression of multiple SPLs is required for floral specification in pny pnf plants.

关键词： Development meristem homeodomain flowering microRNA.

Towards personalised public warnings: harnessing technological advancements to promote better individual decision-making in the face of disasters

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International Journal of Digital Earth 2017年第12期10卷 1231-1252页

作者： Yinghui Cao bryan J.Boruff Ilona m.mcNeill School of Earth and Environment The University of Western AustraliaCrawleyWAAustralia melbourne School of Psychological Sciences The University of MelbourneParkvilleVICAustralia

Official warnings are essential for informing the public of impending hazards and promoting their responses before a disaster ***,research has identified that traditional public warnings,such as generic text messages based on large geographic regions,often fail to promote appropriate responses by at-risk ***,there has been an increased focus on using map-based approaches for communicating public ***,a systematic framework to guide the design of effective mapping instruments for this purpose is *** researchers sought to fill this gap by merging the scholarly understanding of factors influencing warning effectiveness with the contemporary spatial capacities of the emergency management *** current paper presents the conceptual framework resulting from this merger,which can be used to direct the design and implementation of map-based warnings that offer personalised risk visualisation and provide personalised decision support to motivate appropriate *** example is then provided to illustrate how this framework can be applied for the development of personalised bushfire warnings in an Australian *** by webGIS technologies,the proposed framework shows a potentially ground-breaking approach to improve public warning communication by fostering more efficient and effective risk personalisation and response related decision-making by individuals.

关键词： Public warning risk communication map GIS wildfire

A survey of the state-of-the-art in patch-based synthesis

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Computational Visual media 2017年第1期3卷 3-20页

作者： Connelly barnes Fang-Lue Zhang University of Virginia TNList Tsinghua University

This paper surveys the state-of-the-art of research in patch-based synthesis. Patch-based methods synthesize output images by copying small regions from exemplar imagery. This line of research originated from an area called "texture synthesis", which focused on creating regular or semi-regular textures from small exemplars. However, more recently, much research has focused on synthesis of larger and more diverse imagery, such as photos, photo collections, videos, and light fields. Additionally, recent research has focused on customizing the synthesis process for particular problem domains, such as synthesizing artistic or decorative brushes, synthesis of rich materials, and synthesis for 3D fabrication. This report investigates recent papers that follow these themes, with a particular emphasis on papers published since 2009,when the last survey in this area was published. This survey can serve as a tutorial for readers who are not yet familiar with these topics, as well as provide comparisons between these papers, and highlight some open problems in this area.

关键词： texture patch image synthesis texture synthesis

Characterization and evolutionary dynamics of complex regions in eukaryotic genomes

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Science China(Life Sciences) 2019年第4期62卷 467-488页

作者： José Ranz bryan Clifton Department of Ecology and Evolutionary Biology University of California Irvine

Complex regions in eukaryotic genomes are typically characterized by duplications of chromosomal stretches that often include one or more genes repeated in a tandem array or in relatively close proximity. Nevertheless, the repetitive nature of these regions,together with the often high sequence identity among repeats, have made complex regions particularly recalcitrant to proper molecular characterization, often being misassembled or completely absent in genome assemblies. This limitation has prevented accurate functional and evolutionary analyses of these regions. This is becoming increasingly relevant as evidence continues to support a central role for complex genomic regions in explaining human disease, developmental innovations, and ecological adaptations across phyla. With the advent of long-read sequencing technologies and suitable assemblers, the development of algorithms that can accommodate sample heterozygosity, and the adoption of a pangenomic-like view of these regions, accurate reconstructions of complex regions are now within reach. These reconstructions will finally allow for accurate functional and evolutionary studies of complex genomic regions, underlying the generation of genotype-phenotype maps of unprecedented resolution.

关键词： complex genomic regions sequencing technologies genome assembly structural variation tandem gene duplicates,evolutionary novelty

Digital capture of fingerprints in a disaster victim identification setting:a review and case study

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Forensic Sciences Research 2019年第4期4卷 293-302页

作者： bryan T.Johnson John A.J.m.Riemen Federal Bureau of Investigation QuanticoVAUSA Dutch National Police ZoetermeerThe Netherlands

Identification of victims following a mass fatality is conducted by collecting and analysing a series of scientific identifiers and contextual information of each ***,there has been a paradigm shift demanding that this complex identification process be accelerated to meet the needs of the surviving families,politicians and even the *** fingerprint identification is a fast and efficient means of victim identification,and through the use of new advances in technology,the digital capture of fingerprints in a disaster victim identification(DVI)setting will play a strong *** paper provides an overview of current technology and explains how this technology can adapt to current DVI *** malaysian Airlines Flight 17(mH17)incident is a recent example of a DVI event that utilized new digital fingerprint capture technology and further demonstrates why such technology is warranted in future mass fatality operations.

关键词： Forensic sciences disaster victim identification postmortem fingerprints digital fingerprint capture INTERPOL DVI ridgeology

Perceptions and emotions in postoperative recovery of patients with perianal diseases

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World Journal of Psychiatry 2025年第1期15卷 179-184页

作者： bryan Adrian Priego-Parra Jose maria Remes-Troche Digestive Physiology and Gastrointestinal motility Lab Instituto de Investigaciones Médico-BiológicasUniversidad VeracruzanaVeracruz 91700Mexico

This article examines the complex relationship between disease perception,negative emotions,and their impact on postoperative recovery in patients with perianal *** conditions not only cause physical discomfort,but also carry a significant emotional burden,often exacerbated by social ***-logical factors,including stress,anxiety,and depression,activate neuroendocrine pathways,such as the hypothalamic–pituitary–adrenal axis,disrupting the gut microbiota and leading to *** disruption can delay wound healing,prolong hospital stay,and intensify *** on the findings of Hou et al,our article highlights the critical role of illness perception and negative emotions in shaping recovery *** advocates for a holistic approach that integrates psychological support and gut microbiota modulation,to enhance healing and improve overall patient outcomes.

关键词： Perianal disease Illness perception Gut microbiota Post-surgical outcomes microbiota