bluuebunny/crossref_metadata_2025 huggingface dataset:
The clinical utility of joined detection of cancer ratio, cancer ratio plus, Interferon gamma (IFN-ϒ) & Carcinoembryonic antigen (CEA) in differentiating lymphocytic pleural effusions
Authors: ElSharawy Dalia E. , Hagras Maha M. , Khedr Rasha A.
Published: May 2020

Background

The differentiation between malignant (MPE) and tuberculous (TPE) pleural effusions should be considered in any patient with an exudative lymphocytic pleural effusion. A rapid precise diagnosis is valuable as the treatment and prognosis are totally different. The histopathological proof may shorten the time to differential diagnosis. But it may be invasive and costly. The aim of this study is to validate the clinical reliability of joined detection of cancer ratio (serum LDH to pleural ADA), cancer ratio plus (cancer ratio to percentage of pleural fluid lymphocytic count), pleural interferon gamma (pIFN-ϒ), and pleural carcinoembryonic antigen (pCEA) values to differentiate between lymphocytic pleural effusions.

Results

Seventy-eight patients were included with mean age ± SD 53.09 ± 9.56 years old, 49 males and 29 females, diagnosed as 47 MPE, 24 TPE, and 7 others. Cancer ratio at cutoff value of ≥ 22 and cancer ration plus at cutoff value of ≥ 41 can discriminate MPE from any other cause with sensitivity (91.5%, 93.6%), specificity (87.5%, 91.7%), and diagnostic accuracy (90.1%, 92.9%) respectively. When the levels of pCEA and pIFN-ϒ were combined with cutoff value of cancer ratio, there were powerful diagnostic differentiating results.

Conclusions

Cancer ratio and cancer ratio plus offered valid, efficient, non-invasive, and easy measuring diagnostic tools. On diagnostic uncertainty, the add-on of pCEA in cases of suspected MPE, and pIFN-ϒ in cases of suspected TPE has a trustable diagnostic efficacy with no need for further investigations.
Visualizing highly cited scientific output of Indian physiotherapists: A bibliometric study
Authors: Subbarayalu Arun Vijay , Peter Manuelraj , Idhris Mohamed , Prabaharan Sivasankar , Sakthivel Muhil , Raman Vinoth , R.M. Palanivel , Ibrahim Ramzi Ola
Published: May 2020

Background: Physiotherapy research supports the advancement of evidence-based practice and the development of a highly skilled workforce. This study aims to visualize the highly cited scientific output of Indian physiotherapists from 1999 to 2018.

Methods: A descriptive study design was adopted to visualize the highly cited scientific output of Indian physiotherapists using the Web of Science (WoS) database from 1999 to 2018. A search was carried out using the following keywords "((TS=(physiotherapy) OR TS=("physical rehabilitation") OR TS=("physical therapy")) AND AD=(India))Indexes=SCI-EXPANDED, SSCI, A&HCI, CPCI-S, CPCI-SSH, ESCI, CCR-EXPANDED, IC Timespan=1999-2018”. Data collected were analyzed using Incites from WoS and VOSviewer software.

Results:  A total of 488 articles were published between 1999 and 2018, with a peak of 103 in 2016 with 2419 citations. A decline in publication count was observed after 2016. The journal International Journal of Physiotherapy published the highest number of articles (n=35). Manipal University (n=36) was found to be the most active institution for physiotherapy research in India, as determined by publishing the most articles. Indian physiotherapists published the highest number of research articles in collaboration with US authors (n=24).

Conclusion: There is an increasing trend in the scientific output of Indian physiotherapists over the past two decades; however, a decline is observed after 2016. It is recommended that research collaborations across the globe are increased and scientific output should be improved, leading to a higher number of citations. Future research should explore factors influencing the scientific production of Indian physiotherapists and devise appropriate strategies to attain further improvement.
Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive
Authors: Bernstein Matthew N. , Gladstein Ariella , Latt Khun Zaw , Clough Emily , Busby Ben , Dillman Allissa
Published: May 2020

The Sequence Read Archive (SRA) is a large public repository that stores raw next-generation sequencing data from thousands of diverse scientific investigations.  Despite its promise, reuse and re-analysis of SRA data has been challenged by the heterogeneity and poor quality of the metadata that describe its biological samples. Recently, the MetaSRA project standardized these metadata by annotating each sample with terms from biomedical ontologies. In this work, we present a pair of Jupyter notebook-based tools that utilize the MetaSRA for building structured datasets from the SRA in order to facilitate secondary analyses of the SRA’s human RNA-seq data. The first tool, called the Case-Control Finder, finds suitable case and control samples for a given disease or condition where the cases and controls are matched by tissue or cell type.  The second tool, called the Series Finder, finds ordered sets of samples for the purpose of addressing biological questions pertaining to changes over a numerical property such as time. These tools were the result of a three-day-long NCBI Codeathon in March 2019 held at the University of North Carolina at Chapel Hill.
Evaluation of antimicrobial, antioxidant and cytotoxic properties of bioactive compounds produced from endophytic fungi of Himalayan yew (Taxus wallichiana) in Nepal
Authors: Gauchan Dhurva Prasad , Kandel Pratistha , Tuladhar Astha , Acharya Ashesh , Kadel Upendra , Baral Aayush , Shahi Arjan Bir , García-Gil María Rosario
Published: May 2020

Background: Endophytic fungi are largely underexplored in the discovery of natural bioactive products though being rich sources of novel compounds with promising pharmaceutical potential. In this study, Taxus wallichiana, which has huge medicinal value, was investigated for its endophytic diversity and capability to produce bioactive secondary metabolites by analyzing antioxidant, antimicrobial and cytotoxic properties.

Methods: The endophytes were identified by ITS-PCR using genomic DNA samples. The secondary metabolites were extracted by solvent extraction method using ethyl acetate. The antioxidant activity was analyzed by Thin Layer Chromatography, Total Phenol Content (TPC), Total Flavonoid Content (TFC) and DPPH assay, and the antimicrobial activity was analyzed by agar-well diffusion method. Brine shrimp lethality assay was used to analyze the cytotoxicity of the fungal extracts.

Results: Out of 16 different Taxus trees sampled from different locations of Dhorpatan, 13 distinctive endophytic fungi were isolated and grouped into 9 different genera: Bjerkandera, Trichoderma, Preussia, Botrytis, Arthrinium, Alternaria, Cladosporium, Sporormiella and Daldinia. The ethyl acetate extracts isolated from three endophytic fungi: Alternaria alternata, Cladosporium cladosporioides and Alternaria brassicae showed significant TPC values of 204±6.144, 312.3±2.147 and 152.7±4.958µg GAE/mg of dry extract, respectively, and TFC values of 177.9±2.911, 644.1±4.202 and 96.38±3.851µg RE/mg of dry extract, respectively. Furthermore, these three extracts showed a dose dependent radical scavenging activity with IC50 concentration of 22.85, 22.15 and 23.001 µg/ml, respectively. The extracts of C. cladosporioides and A. brassicae also showed promising antimicrobial activity against Escherichia coli, Staphylococcus aureus and Bacillus subtilis with a minimum inhibitory concentration of 250μg/ml for all bacteria. Both the samples showed cytotoxic property against shrimp nauplii with LC50 of 104.2 and 125.9µg/ml, respectively.

Conclusions: The crude fungal extracts obtained from endophytes: A. alternata, C. cladosporioides and A. brassicae upon purification and further identification of the bioactive compounds can be a fascinating source for novel pharmaceutical agents.
Cechy dialektyczne "Szczytu dusznego" z 1528 r. (modlitewnik Olbrachta Gasztołda)
Authors: Osiewicz Marek
Published: May 2020

DIALECTAL FEATURES OF "SZCZYT DUSZNY" FROM 1528 (OLBRACHT GASZTOŁD’S PRAYER BOOK)

The aim of the article is to establish the dialectal provenance of Szczyt duszny (‘Spiritual shield’), a Polish translation of a collection of Latin prayers (Clipeus spiritualis) that was included in the handwritten prayer book of Olbracht Gasztołd from 1528. The analysis shows that the language of the text contains features of the Lesser Polish dialect. It should also be noted that the language of Szczyt duszny is very orderly, and does not contain flagrantly vernacular features of Lesser Poland (mazurzenie, forms such as tkory, szwytko, na nogak). These features are probably due to the copyist of the text and the purpose of the prayer book (the owner of the prayer book was the Great Lithuanian Chancellor).
Interactionist Interpretation of the Communicative Competence of a Bilingual Child with Dyslexia
Authors: Młyński Rafał
Published: May 2020

The aim of this study was to include child bilingualism and dyslexia in the framework of the theory of symbolic interactionism. The reason for the presented issue is the necessity to extend the research of bilingualism in Poland and its connotations, which are associated with the phenomenon of migration of members of societies. The test method used a case study. Bilingualism and dyslexia were referred to the communication competence of a bilingual boy, interpreted according to selected threads of the interactionist theory.
Z etymologii łemkowskich. Cz. V
Authors: Fałowski Adam , Hojsak Wiktoria
Published: May 2020

LEMKO ETYMOLOGIES: PART 5

The present paper is the fifth part in the Lemko etymologies series; analysed in it are words beginning with letters Л, М, Н, О: ластівниця, люштати, лябати, лябдати, лянкорити ся, маляґа, маранча, масеса, маскати, мджурити, медера, металец, микытаня, м(л)юзґра, молиґати, мocур, мотлочыти, муцикы, нарабяти, нарубы, нахыр, нездобачкы, непек, ніверити, нозгри/нозґрі, нютер, обатурити ся, обгартати, обтавкати, одкырхнути ся, одразити, одчезнути, озниця, окара, окрясти, осуга, отлак. Authors attempt to establish the origin of those words, taking into account data from etymological, historical, and dialectal dictionaries of Slavic languages and dialects, as well as from the neighbouring non-Slavic languages, thereby outlining a broad comparative background. They propose additions and corrections to previous etymological findings regarding some of the discussed words.
U źródeł polskiej terminologii logopedycznej. W kierunku badań anagnostycznych
Authors: Horyń Ewa , Olma Marceli , Michalik Mirosław
Published: May 2020

AT THE SOURCES OF POLISH LOGOPEDIC TERMINOLOGY: TOWARDS ANAGNOSTIC RESESARCH

The paper is a preliminary presentation of the concept of a research project Diachronic Aspects of Polish Logopedic Terminology, carried out by members of the Department of Polish Language of the Pedagogical University in Cracow. The multiauthored study briefly characterizes the beginnings of speech therapy as an independent scientific discipline, and the directions of its development in the past 50 years. It draws attention to the deficiencies and inconsistencies in the usage and understanding of specialist terms in contemporary logopedics, while setting as the primary goal of the enterprise an attempt to standardize Polish terminology related to speech disorders. The basis for this should be the etymology of the terms in question, as well as excerpts from medical and anatomical lexicons and source materials which employ the vocabulary that became the foundation of the logopedic jargon.
MODELOS PEDAGÓGICOS EXPLÍCITOS E A CONSTRUÇÃO DE UMA PEDAGOGIA PARA BEBÊS E CRIANÇAS BEM PEQUENAS BASEADA NO BRINCAR
Authors: De Oliveira Alessandra Giriboni
Published: May 2020

Resumo: Este artigo discute os modelos pedagógicos considerados explícitos a partir das cinco características de uma pedagogia de qualidade na creche enunciadas por Araújo (2014; ARAÚJO; MONTEIRO, 2017) representados pela Abordagem Pikler (2010; FALK, 2011) e seu conceito do brincar livre, pelos pressupostos de Goldschmied e Jackson (2006) no brincar heurístico acrescido de contribuições de Kishimoto (1993, 2008, 2010, 2011, 2013) e Rossetti-Ferreira (2004, 2006) relativas ao brincar dos bebês e à formação dos professores na creche como possibilidade de rede de significação na construção de uma pedagogia para bebês e crianças bem pequenas
Docência na creche: entre simplicidade e sofisticação sutil
Authors: Arenari Rachel , Corsino Patricia
Published: May 2020

A expansão das creches como primeira etapa da Educação Básica impõe a intensificação de investimentos em infraestrutura e também na formação de professores e gestores que irão desenvolver o trabalho educativo junto às crianças de 0a 3 anos. O que caracteriza a docência na creche? O que as pesquisas brasileiras têm pensando sobre as características desta docência? Nosso objetivo neste texto é pensar questões que interpelam a docência na creche. A partir de uma revisão bibliográfica de pesquisas brasileiras que fazem referências a características da docência na creche, chega a duas categorias ambivalentes: simplicidade e sofisticação sutil. As análises evidenciam que tais características levam necessariamente a assunção de uma pedagogia das relações e da participação. Mais que uma opção metodológica, este paradigma educacional é central para a significação e para o reconhecimento da docência na creche. Para fundamentar o argumento, o texto dialoga com os estudos de Oliveira-Formosinho, Falk e Bondioli.
Editorial
Authors: Nascimento Anelise Monteiro do , Salutto Nazareth , Barbosa Silvia Néli Falcão
Published: May 2020

A proposta de construção do Dossiê Bebês e Crianças: linguagem, cultura e política emerge dos encontros, percursos, diálogos, inquietações, sonhos, de três mulheres, professoras que atuam no campo da formação de professores da Educação Infantil.Passamos boa parte dos últimos vinte anos juntas e, no desdobrar de nossa própria formação, acompanhamos o fortalecimento e a construção da visibilidade da criança como sujeito de cultura, seja no plano político-legal, na ampliação da obrigatoriedade escolar a partir dos quatro anos de idade, seja no plano científico-acadêmico que impacta na produção de pesquisas e conhecimentos interdisciplinares.
“PRECISAMOS ESTAR PREPARADOS PARA BRINCAR MUITO!” Entrevista com Sonia Kramer
Authors: Nascimento Anelise Monteiro do , Salutto Nazareth , Barbosa Silvia Néli Falcão
Published: May 2020

Esta entrevista, realizada com a professora Sonia Kramer, discute o panorama da Educação Infantil no que diz respeito à sua história, políticas, pesquisas com crianças e desafios para os dias de hoje. A relação entre adultos e crianças é questionada diante da situação de pandemia que vivemos hoje no mundo e no Brasil e o desafio que se coloca diante da sociedade, de reconhecer a criança como pessoa que produz cultura, que brinca e que exige uma escuta aos seus modos de ser e estar no mundo, neste contexto e no pós pandemia.
Improvement of Seismic Images of Complex Tectonic Structure in Deep Water with Research-Level Processing Sequences
Authors: Miller John , Huene Roland von
Published: May 2020

In multichannel seismic reflection record sections, clear imaging is accomplished largely by processing. The data acquired across ocean trenches, where water is from 5 to 8 km deep, the sea floor is irregular, and the geology is complex, must be processed with procedures not commonly used on data from the adjacent continental shelf. We have experimented to develop better processing with data from the eastern Aleutian Trench. One record is used here to illustrate the improvement possible. It contains a complex faulted fold at the base of the slope, and processing is made difficult by the opposing dips of faults and by the changing vergence of folds (Figure 2.1). Careful velocity analysis and a special processing sequence are needed to image the velocity-sensitive areas of these data. In our experience, clear imaging of complex structures is assured only when each step in the processing sequence is accompanied by an appropriate level of velocity analysis. Here we show the difference in imaging a complex structure in the spectrum between first-level or production processing and research-level processing.
Volunteering and the Sustainable Development Goals: an opportunity to move beyond boundaries
Authors: Ellis Paine Angela , Allum Cliff , Beswick Danielle , Lough Benjamin J.
Published: May 2020

There is growing recognition of the role that volunteering can play in the implementation of the Sustainable Development Goals (SDGs). Evidence of its contribution, however, remains relatively weak, including for countries in the Global North such as the UK. This is compounded by limited collaboration between those concerned with volunteering and those concerned with development. The SDGs provide an opportunity to bring together research, policy and practice on volunteering and development, and on international and ‘domestic’ volunteering, enabling valuable interdisciplinary learning.
Wavelength widths of optical filters for optimum SINR in WDM-VLC systems
Authors: Mathias Luis Carlos , Castro e Souza Alvaro Ricieri , Abrão Taufik
Published: May 2020

Wavelength division multiplexing (WDM) permits the light spectrum to be divided into several parallel channels, allowing the capacity of visible light communication (VLC) systems to be increased. However, the spectral overlap due to the emission spread of differently colored LEDs generates crosstalk interference that can degrade the WDM-VLC. In this context, the adequate design of optical filters (OFs) can mitigate this problem by limiting the spectral capture of the signals from the adjacent WDM channels. Thus, a specific WDM-VLC model is developed to analyze the effects of the width of OFs on the signal-interference-plus-noise ratio (SINR). After confirming the quasi-concavity of the SINR, the optimal widths of the OFs are determined by SINR maximization using iterative search algorithms considering fixed and mobile WDM-VLC systems. Considering mobile receiver operation, it was confirmed that the maximum SINR points shift, implying the variation in optimal OF width according to the optical powers captured, which vary according to the distance and orientation of the LEDs and/or receivers. Finally, a statistical approach is presented that allows the design of non-adaptive OFs.
Ring-shaped microstructured chalcogenide optical fiber for octave-spanning flat-top mid-infrared supercontinuum generation
Authors: Huang Chunlei , Bi Wanjun , Zheng Biao , Zhang Cheng , Wang Jun , Zheng Shupei
Published: May 2020

Broadband flat-top mid-infrared supercontinuum (SC) generation in optical fibers is of great interest for many applications. Here, we designed a microstructured chalcogenide optical fiber composed of hexagonal rings. By optimizing the structure parameters, it is demonstrated that the fiber is characterized by an all-normal dispersion profile. Numerical simulation results show that the generated SC spectrum with intensity above

−

3

d
B

ranges from 3450 nm to 8015 nm corresponding to more than one octave when the fiber is pumped with 150 fs pulses at 5 µm. By solving the generalized nonlinear Schrödinger equation, we investigated the influence of pump pulse parameters including pump wavelength, peak power, and pulse duration on the spectral broadening. The results turn out that the optimal pump wavelength is around 5 µm for obtaining SC spectra with sufficient flatness. High peak power and short duration enhance the spectral flatness and bandwidth. We also investigated SC generation in the optimized fiber pumped at 3 µm. The generated SC at

−

6

d
B

level covers wavelength from 1970 to 4370 nm, corresponding to more than one octave.
Subterahertz refractive flat-top beam shaping via 3D printed aspheric lens combination
Authors: Price Brad D. , Lowry Seth N. , Hartley Ian D. , Reid Matt
Published: May 2020

The viability of 3D printed aspheric lenses for the purpose of frequency-scalable subterahertz Gaussian to flat-top beam shaping is evaluated. A cylindrical one-dimensional Fresnel–Kirchhoff diffraction equation was implemented in Matlab and used to design a pair of aspheric lenses with customized vertex radius of curvature and conic constant. The lenses were printed at maximum possible resolution in acrylonitrile butadiene styrene (

n
=
1.6

) and tested with a 102 GHz continuous-wave subterahertz source. The aspheric lens combination produced a flat-top profile from a low-quality incident Gaussian beam at the minimal cost of 3D printing substrate. The flat-top profile exhibited small (

<

14
%

root-mean-square deviation over a flat region) intensity fluctuations and is expected to prove useful in future terahertz applications that require a high degree of beam uniformity.
Metallic metamaterial terahertz sensors for simultaneous measurement of temperature and refractive index
Authors: Wang Gangqi , Lang Tingting , Hong Zhi
Published: May 2020

A new type of sensor based on metamaterials, consisting of an array of metal rings on a quartz substrate, is proposed to measure temperature and refractive index simultaneously. Simulations of the transmission spectrum show two dips, both of which vary with the refractive index and temperature of the environment. The sensitivities of the two dips to refractive index are 67.9 GHz/RIU and 142.76 GHz/RIU, respectively, and to temperature are 6.35 MHz/K and 7.14 MHz/K, respectively. These small, highly sensitive sensors have wide application prospects as physical, biological, and chemical sensors. They simultaneously measure temperature and refractive index in the terahertz band.
Towards Neuroscience in the Everyday World: Progress in wearable fNIRS instrumentation and applications
Authors: von Lühmann Alexander , Zimmermann Bernhard B. , Ortega-Martinez Antonio , Perkins Nathan , Yücel Meryem A. , Boas David A.
Published: May 2020

Wearables and machine learning have opened up a new field of research, the Neuroscience of the Everyday World. We present our recent contributions to fNIRS instrumentation (ninjaNirs and ninjaCap) and multimodal analysis (BLISSA2RD and GLM with tCCA)
A Modular, Fiberless, 3-D Aware, Flexible-circuit-based Wearable fNIRS System
Authors: Vanegas Morris , Dementyev Artem , Mireles Miguel , Carp Stefan , Fang Qianqian
Published: May 2020

We introduce, for the first time, a wearable, modular, and fiberless fNIRS system made of diamond-shaped flexible-circuit-based modules, capable of full-head coverage, acquisition of 3-D positions, utilizing inter-module channels, and high flexibility in connection re-configurations.
An fNIRS Approach to Two-person Neuroscience
Authors: Hirsch Joy
Published: May 2020

Near infrared spectroscopy enables neuroimaging of two simultaneously interacting individuals (hyperscanning) in natural conditions. Two-person paradigms interrogate inter and intra-brain neural systems associated with shared social signals during face processing, eye-to-eye contact, and spoken dialogue. Comments and questions should be directed to the OSA Conference Papers staff (tel: +1 202.416.6191, e-mail: cstech@osa.org).
Machine Learning Based Prediction of Motor Imagery and Motor Execution Tasks from Functional Near Infrared Spectroscopy Signals
Authors: Aslan Oğuzhan , Kurtoğlu Kurt Kağan , Yeşilalan Kutay , Erdoğan Sinem Burcu
Published: May 2020

This study explores the utility of fNIRS signals for BCI applications. Hemodynamic features extracted from fNIRS measurements during various motor execution and imagery tasks are used for tertiary classification with high accuracy and statistical significance.
Multi-set canonical correlation analysis in action-observation (mirror neuron) study
Authors: Dashtestani Hadis , Miguel Helga , Condy Emma , Millerhagen John , Gandjbakhche Amir
Published: May 2020

We used simultaneous functional near infrared spectroscopy along with electroencephalography to investigate mirror neuron network in human brain. We applied multi-set canonical correlation analysis in order to analyze the integrated, totally different in nature, datasets.
On the Effects of Pain on fNIRS Classification
Authors: Shamsi Foroogh , Najafizadeh Laleh
Published: May 2020

We present the first study of the effects of pain on the classification of fNIRS recordings, and evaluate the performance of a model trained on the pain-free data for classifying the data with the presence of pain.
Transcranial photobiomodulation enhances power of local slow-oscillations in the human brain as measured by broadband near-infrared spectroscopy
Authors: Ma Liangchieh , Wang Xinlong , Wu Anqi , Liu Hanli
Published: May 2020

We conducted broadband near-infrared spectroscopy to measure the effects of transcranial photobiomodulation (tPBM). Compared to sham, tPBM enhanced power of slow-oscillation for hemoglobin and oxidized cytochrome-c-oxidase. Frontal bilateral coherence of these two chromophores were desynchronized.
Cerebrovascular Reactivity Measured in Awake Mice Using Diffuse Correlation Spectroscopy
Authors: Brothers Rowan O. , Atlas Nir , Buckley Erin M.
Published: May 2020

We assess cerebrovascular reactivity in awake mice using intraperitoneal injection of acetazolamide combined with continuous monitoring of cerebral blood flow with a minimally invasive diffuse correlation spectroscopy.
Diffuse Optical Biomarkers of Elevated Intracranial Pressure in Hydrocephalus
Authors: Baker Wesley B. , Heye Pascal , Heye Kristina , Ko Tiffany S. , Lin Yuxi , Roberts Anna L. , Delso Nile , Hallowell Thomas , Andersen Kristen N. , Padawer-curry Jonah , Taraska Norah G. , White Brian R. , Yodh Arjun G. , Licht Daniel J. , Kilbaugh Todd J.
Published: May 2020

We performed diffuse optical neuromonitoring concurrently with invasive neuromonitoring across a wide range of increasing intracranial pressure (ICP) levels in a piglet model of hydrocephalus. Pilot comparisons of critical closing pressure to ICP are presented.
Effect of blood transfusion on cerebral blood flow and oxygen extraction measured by diffuse optical spectroscopies
Authors: Lee Seung Yup , Sathialingam Eashani , Cowdrick Kyle R. , Buckley Erin M.
Published: May 2020

We employ diffuse correlation spectroscopy and frequency-domain diffuse optical spectroscopy to demonstrate that blood transfusion decreases cerebral blood flow and oxygen extraction in pediatric sickle cell disease.
Using Diffuse Optics to Measure Cerebral Blood Flow and Oxygen Saturation during Hypothermic Circulatory Arrests
Authors: Zavriyev Alexander I. , Farzam Parisa , Kaya Kutlu , Nair Vidhya V. , Farzam Parya , Carp Stefan A. , Franceschini Maria Angela , Qu Jason Z.
Published: May 2020

Cerebral blood flow monitoring is crucial during hypothermic circulatory arrest for aortic arch surgery. This study uses diffuse optics to demonstrate simultaneous monitoring of cerebral blood flow and blood oxygen saturation during surgery.
High-Speed Computer-Generated Holography Using Convolutional Neural Networks
Authors: Eybposh M. Hossein , Caira Nicholas W. , Chakravarthula Praneeth , Atisa Mathew , Pégard Nicolas C.
Published: May 2020

We introduce a computer-generated holography algorithm based on deep learning with unsupervised training. Our method generates high fidelity holograms in a few milliseconds and outperforms alternate methods that require many iterations and longer computation.
The evolution of hemodynamics during stroke recovery: from early hours to subsequent weeks
Authors: Sunil Smrithi , Erdener Sefik Evren , Lee Blaire S. , Tang Jianbo , Kura Sreekanth , Postnov Dmitry , Cheng Xiaojun , Kılıç Kıvılcım , Boas David A.
Published: May 2020

By obtaining structural and functional information such as changes in tissue properties, cerebral blood flow, and hemodynamics through optical imaging, we aim to better interpret human MRI data and guide therapeutic interventions following stroke.
Estimation of Cortical Oxygen Metabolism in Awake Mice using Two-photon Imaging of Oxyphor 2P
Authors: Fomin-Thunemann Natalie , Mächler Philipp , Sætra Marte Julie , Thunemann Martin , Desjardins Michèle , Saisan Payam , Sencan Ikbal , Li Baoqiang , Vinogradov Sergei A. , Sakadžić Sava , Dale Anders M. , Einevoll Gaute T. , Devor Anna
Published: May 2020

With the recently improved oxygen sensor Oxyphor 2P, we performed two-photon phosphorescence lifetime imaging of partial pressure of oxygen gradients surrounding diving arterioles in awake mice and estimated oxygen metabolism using the Laplace method.
Tapered Fibers Technology for Multi-functional Neural Interfaces
Authors: Pisanello Ferruccio , Pisano Filippo , Pisanello Marco , Spagnolo Barbara , Sileo Leonardo , Balena Antonio , Bianco Marco , Maglie Emanuela , Lee Suk Joon , Lee Jaeeon , Mandelbaum Gil , Sabatini Bernardo , De Vittorio Massimo
Published: May 2020

We exploit mode-divison multiplexing and demultiplexing in tapered optical fibers to optically interface with the brain, enabling depth-resolution in sub-cortical structures with only one and minimally invasive waveguide.
Chronic 2-photon calcium imaging through transparent PEDOT:PSS microelectrode arrays in awake mice
Authors: Hossain Lorraine , Thunemann Martin , Devor Anna , Dayeh Shadi A.
Published: May 2020

We developed conformal, transparent PEDOT: PSS microelectrode devices suitable for chronic implantation for simultaneous calcium imaging and electrophysiological recordings in awake rodents.
Light Scattering Measurements Enable an Improved Reconstruction of Nerve Fiber Crossings
Authors: Menzel Miriam , Huwer Mike , Schlömer Philipp , Amunts Katrin , Axer Markus
Published: May 2020

We show that light scattering measurements of brain tissue reveal valuable information about the underlying tissue structure such as the crossing angle of the nerve fibers.
Optical Probing of Hippocampal Function in a Mouse Model of Demyelination/Remyelination
Authors: Das Aniruddha , Dana Hod
Published: May 2020

Nonlinear microscopy of calcium sensors was used to record hippocampal activity during induced demyelination and remyelination of axons for 100 days. Substantial changes to firing rates were identified during demyelination with partial recovery upon remyelination.
Electro-plasmonic nanoresonators for wireless voltage sensing and ultra-high bandwidth brain computer interfaces
Authors: Habib Ahsan , Zhu Xiangchao , Can Uryan I. , McLanahan Maverick L. , Zorlutuna Pinar , Yanik Ahmet A.
Published: May 2020

We introduce electro-plasmonic nanoresonators as a wireless nanoscale voltage probe that can remotely measure local electric-fields and electrophysiological signals with high temporal (sub-millisecond) and spatial (diffraction limited) resolutions in a label-free manner.
Study of Functional Network Topology Alterations after Injury via Embedding Methods
Authors: Salsabilian Shiva , Bibineyshvili Elena , Margolis David J. , Najafizadeh Laleh
Published: May 2020

We explore alterations in the functional network’s structure following mild traumatic brain injury (mTBI) by capturing network embedding features via Node2vec from calcium signals of excitatory neurons recorded through widefield imaging in Thy1-GCaMP6s reporter mice.
Future optical access network enabled by modularization and softwarization of access and transmission functions [Invited]
Authors: Kani Jun-ichi , Terada Jun , Hatano Tomoya , Kim Sang-Yuep , Asaka Kota , Yamada Takashi
Published: May 2020

This paper discusses the future direction of optical access networks and proposes a new optical access architecture that will support the evolution of optical access systems from a fiber-to-the-home infrastructure to a common optical access platform that connects various devices and systems to anywhere they want to reach. We describe two technologies for its implementation. One is “modularization,” which is expected to be realized before 2030, and the other is “full softwarization,” which is the longer-term goal of drastically increasing network flexibility. For each technology, we summarize related technical trends and discuss a reasonable system configuration focusing on the access nodes.
Progress in synthetic multiphoton contrast for in vivo microscopy of mucosal melanoma
Authors: Wilson Jesse W. , Mugdha Arya C.
Published: May 2020

We will discuss the use of deep learning to infer fluorescence and nonlinear contrast from the texture and morphology of reflectance confocal microscopy. Our goal is to synthesize H&E-like contrast from existing FDA-approved clinical instruments.
Segmenting Cutaneous Wounds from Tissue Sections and In Vivo Images using Deep Learning
Authors: Jones Jake D. , Quinn Kyle P.
Published: May 2020

Convolutional neural networks were used to accurately segment both H&E-stained tissue sections and in vivo autofluorescence images of skin wounds, which enabled automated, quantitative analysis of a variety of wound features.
Post-transplant Leukocyte Motion in Human Skin Microvasculature by Noninvasive Reflectance Confocal Video Microscopy
Authors: Saknite Inga , Zhao Zijun , Patrinely J. Randall , Byrne Michael , Jagasia Madan , Tkaczyk Eric R.
Published: May 2020

We explore the potential of reflectance confocal video microscopy of human skin microvasculature to noninvasively track immune cell activity following hematopoietic cell transplantation. In three patients, we tracked leukocyte-endothelial interactions over time.
Dynamic label-free in vivo imaging of tumor-immune microenvironment (TiME) and microvasculature features in skin cancers with reflectance confocal microscopy (RCM)
Authors: Sahu Aditi , Gill Melissa , Fox Christi , Cordova Miguel , Kose Kivanc , Santella Anthony , King Kimeil , Gonzalez Salvador , Dusza Stephen , Halpern Allan , Marghoob Ashfaq , Chen Chih-Shan Jason , Rajadhyaksha Milind
Published: May 2020

In vivo Reflectance confocal microscopy (RCM) of tumor-immune microenvironment (TiME) and microvasculature enables visualization and quantification of dynamic correlations between microvascular density, leukocyte-trafficking frequency, and spatio-temporal distribution of immune cell types for prognostic estimations.
Coherent optical scattering and interferometry microscopy for functional imaging of thrombus
Authors: Zheng Yujie , Lim Yean Jin , Montague Samantha J. , Gardiner Elizabeth E. , Lee Woei Ming
Published: May 2020

In this work, we propose a label-free COSI system to investigating morphological changes and platelet-platelet interactions within a thrombus during embolism events to interrogate prothrombotic events within a microfluidics channel under flow.
A High Throughput Device for Label-Free Real-Time Study of Cellular Secretion with iSCAT Microscopy
Authors: Gemeinhardt Andre , König Katharina , Dahmardeh Mahyar , Sandoghdar Vahid
Published: May 2020

We use interferometric scattering microscopy (iSCAT) to study in-situ secretion dynamics of living cells. The method allows us to optically detect single proteins in real-time without the need for labeling.
Microscopy with Ultraviolet Surface Excitation using Speckle Illumination Enables High-throughput and Slide-free Histological Imaging
Authors: Wong Ivy H. M. , Zhang Yan , Kang Lei , Li Xiufeng , Terence  , Wong T. W.
Published: May 2020

By implementing microscopy with ultraviolet surface excitation using speckle illumination, we have improved the spatial resolution by 1.5 times and preserved the long depth of focus, achieving sharp imaging of thick and rough specimens.
FRET Efficiency Measurement with a Low-Cost Frequency Domain Fluorescence Lifetime Imaging Microscope
Authors: Dumas John-Paul , Jiang James Y. , Gates Evan M. , Hoffman Brenton D. , Pierce Mark C. , Boustany Nada N.
Published: May 2020

We utilize a frequency-domain FLIM system operating at a single modulation frequency in combination with a FRET standards calibration curve to measure the FRET efficiency of the vinculin tension sensor, VinTS, at the focal adhesions of living cells.
Single-shot computational polarized light microscopy for imaging of pathological crystals
Authors: Bai Bijie , Wang Hongda , Liu Tairan , Rivenson Yair , FitzGerald John , Ozcan Aydogan
Published: May 2020

We present a single-shot polarized microscopy method that rapidly reconstructs the transmittance, retardance and slow-axis orientation images of birefringent objects. This quantitative method can help medical professionals identify pathological crystals with improved contrast and time-efficiency.
High-fidelity fluorescence image restoration using deep unsupervised learning
Authors: Li Xinyang , Zhao Zhifeng , Zhang Guoxun , Qiao Hui , Wang Haoqian , Dai Qinghai
Published: May 2020

Current deep learning methods for fluorescence image restoration necessitate numerous well-aligned image pairs for training. We develop an unsupervised learning framework for high-fidelity fluorescence image restoration without the laborious work of image annotation and registration.
Optical metabolic imaging of hypoxic exposure in breast cancer cells of varying metastatic potential
Authors: Rebello Lisa , Rajaram Narasimhan
Published: May 2020

Metabolic changes in breast cancer cells of varying metastatic potential on exposure to chronic and intermittent hypoxia are determined using optical redox ratio obtained via two-photon microscopy.
Fluorescent Imaging for In Situ Measurement of Drug Target Engagement and Cell Signaling Pathways
Authors: McMahon Nathan , Solanki Allison , Jones Jocelyn , Kwon Sunjong , Chang Young-Hwan , Chin Koei , Nederlof Michel , Gray Joe , Gibbs Summer L.
Published: May 2020

Successful targeted cancer treatment continues to elude modern medicine and its many therapeutic strategies. Herein, we propose a fluorescent imaging technique to measure drug localization and subsequent cell signaling perturbations on a single cell basis
Multiphoton Fluorescence Lifetime Imaging Microscopy Targeting Lymph Node Metastasis
Authors: James Jeemol , Kantere Despoina , Bagge Roger Olofsson , Enger Jonas , Wennberg Ann-Marie , Ericson Marica B.
Published: May 2020

Development of non-invasive techniques for early stage diagnostics of melanoma metastasis is great importance to improve survival rates. Multiphoton microscopy together with fluorescence lifetime imaging is here explored for finding metastasis in lymph node tissues.
Digital aberration correction in spatiotemporal optical coherence (STOC) imaging with coherent averaging
Authors: Borycki Dawid , Auksorius Egidijus , Węgrzyn Piotr , Wojtkowski Maciej
Published: May 2020

We apply coherent averaging and digital aberration correction to spatiotemporal optical coherence (STOC) imaging to achieve aberration-free, crosstalk-free volumetric imaging. We demonstrate results of ex vivo samples and human in vivo retinal and corneal imaging.
Quantitative Perfusion Measurements based on Doppler OCT and OCT Angiography
Authors: Schmetterer Leopold , Werkmeister Rene M. , Wong Damon Wing Kee , Tan Bingyao , Yao Xinwen , Chua Jacqueline , Garhofer Gerhard
Published: May 2020

Doppler OCT and OCT Angiography meet both opportunities and challenges in clinics. Selection of imaging modalities and quantification method can potentially affect the results and possibly diseases diagnostics.
Crosstalk-free in vivo imaging of a human retina with Fourier-domain full-field optical coherence tomography
Authors: Auksorius Egidijus , Borycki Dawid , Wojtkowski Maciej
Published: May 2020

We present a crosstalk-free Fourier-domain full-field optical coherence tomography system that uses a fast deformable membrane for spatial coherence reduction. It enables the visualization of the choroids and helps to better delineate the retinal layers.
Ex vivo Human Esophageal Tissue Imaging with Ultrahigh-resolution OCT Capsule
Authors: Park Hyeon-Cheol , Li Dawei , Tang Runyu , Leggett Cadman L. , Wang Kenneth K. , Li Xingde
Published: May 2020

We investigated the feasibility of ultrahigh-resolution OCT capsule imaging of ex vivo esophageal tissues at a 2.7 µm axial resolution. The results demonstrate the potential of the technology for screening early esophageal diseases.
Identifying Diabetes in Mice using Optical Coherence Tomography Angiography Images of the Ears and Deep Learning
Authors: Pfister Martin , Schuetzenberger Kornelia , Schaefer Jasmin , Stegmann Hannes , Groeschl Martin , Werkmeister René M.
Published: May 2020

Using optical coherence tomography angiography images from mouse ears, a convolutional neural network successfully recognized diabetes with an accuracy of 0.81 and an area under the curve of 0.90.
Translating Optical Coherence Tomography Technologies from Clinical Studies to Botany: Real Time Imaging of Long-Distance Signaling in Plants
Authors: Williams Joseph , Lin Wai Ching , Li Wei , Wang Shuangyu , Matcher Stephen J. , Chauvet Adrien A. P.
Published: May 2020

The time has now come to expand the use of optical coherence tomography and apply it in botany where the technology’s key advantages enable visualization of plant’s communication as it was never done before.
High-throughput lightsheet optical manipulation and measurement with optical coherence tomography
Authors: Lin Yuechuan , Leartprapun Nichaluk , Adie Steven G.
Published: May 2020

We demonstrated high-throughput lightsheet optical manipulation and measurement with optical coherence tomography. Radiation pressure from a lightsheet simultaneously accelerated micro-beads distributed along its long axis, spanning ~ 80 μm, with maximum force magnitude of 0.031 pN/mW.
Cellular resolution AO-OCT imaging of the retina with an extended field of view
Authors: Brunner Elisabeth , Shirazi M. Faizan , Laslandes Marie , Drexler Wolfgang , Pollreisz Andreas , Hitzenberger Christoph K. , Pircher Michael
Published: May 2020

Diffraction limited performance in an adaptive optics optical coherence tomography system is achieved by compensating for isoplanatic effects with a second deformable mirror within an area of ~4°×4° and for a 7 mm pupil diameter.
Novel Implementations of Optical Coherence Tomography for Clinical Applications in the Lower Gastrointestinal Tract
Authors: Jelly Evan T. , Kendall Wesley , Schmitz Robin , Knechtle Stuart J. , Sudan Debra L. , Joseph Abel , Roper Jatin , Kwun Jean , Wax Adam
Published: May 2020

Endoscopic delivery of a low-cost OCT system has the potential to promote new diagnostic assessment of the lower gastrointestinal tract. We review current technologies and applications to highlight the direction of OCT in this region.
Characterization of an integrated MOEMS scanning probe towards real-time Lissajous-based SS-OCT imaging for endoscopic applications
Authors: García-Ramírez¹ Fernando E. , Bargiel¹ Sylwester , Gaiffe¹ Olivier , Tanguy¹ Quentin A. A. , Struk Przemyslaw , Cote¹ Jean-Marc , Passilly¹ Nicolas , Lutz¹ Philippe , Gorecki¹ Christophe , Xie³ Huikai
Published: May 2020

The characterization of a MOEMS endoscopic OCT probe is presented. Its capacity to perform Lissajous scanning and OCT imaging confirms that the probe is able to produce 3D OCT images in real-time.
Detection of weakening in an enzymatic ex vivo model of corneal ectasia with phase-decorrelation OCT
Authors: Blackburn Brecken , Murray John , Ford Matthew R. , Jenkins Michael W. , Dupps William J. , Rollins Andrew M.
Published: May 2020

Corneal ectasias, such as keratoconus, are modeled ex vivo by the application of enzymes found to be upregulated in ectasia. Phase-decorrelation OCT is shown to non-invasively detect a small degree of enzymatically-induced weakening.
Depth-resolved micro-parallel plate rheometry using cross-correlation tracking with OCT
Authors: Oeler Kelsey J. , Blackmon Richard L. , Hill David B. , Oldenburg Amy L.
Published: May 2020

We present a micro-parallel plate rheometer amenable to OCT to track depth-resolved lateral displacement in fluids in real-time while under dynamic shear. Newtonian fluid experiments show direct proportionality between lateral velocity of particles and depth.
Machine Learning Methods for Barret’s and Dysplasia classification from In Vivo Optical Coherence Tomography Images of Human Esophagus
Authors: Photiou Christos , Plastiras George , Tearney Guillermo , Pitris Costas
Published: May 2020

Comparison of machine learning methods for classification of esophageal tissues from in vivo OCT images. A neural network approach provided the best discrimination between normal tissue, Barrett’s and dysplasia, using various features, with 87% accuracy.
Real-time colorectal cancer diagnosis using PR-OCT with deep learning
Authors: Zeng Yifeng , Xu Shiqi , Chapman William C. , Li Shuying , Alipour Zahra , Abdelal Heba , Chatterjee Deyali , Mutch Matthew , Zhu Quing
Published: May 2020

A pattern-recognition optical coherence tomography was designed to automate diagnosis of human colorectal tissue in real-time. An area under the ROC of 0.998 is achieved by our initial experience with 18 ex vivo human specimens.
Dual-band single-pixel telescope
Authors: Zhang Yiwei , Gibson Graham M. , Edgar Matthew P. , Hammond Giles , Padgett Miles J.
Published: May 2020

Single-pixel imaging systems can obtain images from a wide range of wavelengths at low-cost compared to those using conventional multi-pixel, focal-plane array sensors, especially at wavelengths outside the visible spectrum. The ability to sense short-wave infrared radiation with single-pixel techniques extends imaging capability to adverse weather conditions and environments, such as fog, haze, or night time. In this work, we demonstrate a dual-band single-pixel telescope for imaging at both visible (VIS) and short-wave infrared (SWIR) spectral regions simultaneously under some of these outdoor weather conditions. At 64 × 64 pixel-resolution, our system has achieved continuous VIS and SWIR imaging of various objects at a frame rate up to 2.4 Hz. Visual and contrast comparison between the reconstructed VIS and SWIR images emphasizes the significant contribution of infrared observation using the single-pixel technique. The single-pixel telescope provides an alternative cost-effective imaging solution for synchronized dual-waveband optical applications.
Image quality improvement of holographic 3-D images based on a wavefront recording plane method with a limiting diffraction region
Authors: Yanagihara Hidenari , Shimobaba Tomoyoshi , Kakue Takashi , Ito Tomoyoshi
Published: May 2020

This study aims to improve the image quality of holographic three-dimensional (3-D) images based on the wavefront recording plane (WRP) method. In this method, we place a WRP close to the 3-D objects to reduce the propagation distance of light from the objects to the WRP. The conventional WRP method has been implemented only under conditions that did not cause aliasing noise. This study proposes a WRP method with a limiting diffraction region from the WRP to the hologram such that we can perform the WRP method under any condition. As a result, we succeeded in improving the image quality of the 3-D images based on the WRP method.