jimnoneill/paper-to-field-training huggingface dataset:
Supplementary Data from Long Noncoding RNA VESTAR Regulates Lymphangiogenesis and Lymph Node Metastasis of Esophageal Squamous Cell Carcinoma by Enhancing VEGFC mRNA Stability

&lt;p&gt;It contains supplementary materials and methods, supplementary table S1-S3, supplementary figure S1-S11, and uncut images of western blotting&lt;/p&gt;

Topic: Cancer-related molecular mechanisms research
Subfield: Cancer Research
Field: Biochemistry, Genetics and Molecular Biology
Domain: Life Sciences
Communication enabled web applications The evolution of computer telephony integration

Computer Telephony Integration (CTI) allows a computer application to access features from a telephone device or telephony network. Traditional CTI applications are commonly proprietary-based, platform dependent and usually designed and implemented by telephony experts. Whereas the Web started with simple static pages, new models, like the Service Oriented Architecture allow application designers to build complex applications using pre-built, high-level functional services. Next generation CTI should follow this model. Like SOA for the Web, high-level communication services can be built on communication building blocks, enabling complex communication applications to be built. In addition, it should be easy to create Web-based and rich Internet applications that integrate these new communication services. In this paper, we present a web application mashup that uses a high-level communication service and also present experiences from our prototype implementation.

Topic: Service-Oriented Architecture and Web Services
Subfield: Information Systems
Field: Computer Science
Domain: Physical Sciences
Gentiana lutea subsp. lutea information

We provide the data on the accessions of Gentiana lutea subsp. lutea utilised in the germination study reported in the paper entitled "Predicting the Consequences of Global Warming on Gentiana lutea Germination at the Edge of its Distributional and Ecological Range" actually under review in PeerJ Journal. (information updated of 03 January 2020)

Topic: Phytochemistry and Biological Activities
Subfield: Plant Science
Field: Agricultural and Biological Sciences
Domain: Life Sciences
2674. Microbiome and Cumulative Antibiotic Use as Predictors of Stenotrophomonas maltophilia Infection in Patients with Acute Myeloid Leukemia Receiving Remission-Induction Chemotherapy

Abstract Background S. maltophilia infections are increasingly common in patients with acute myeloid leukemia (AML) and associated with high mortality. S. maltophilia is a frequent colonizer in AML patients but relatively little is known about factors that drive S. maltophilia infection. We sought to evaluate the utility of cumulative antibiotic use and the microbiome as predictors of S. maltophilia infection in AML patients receiving remission induction chemotherapy (RIC). Methods We performed a subanalysis of a prospective, observational cohort study between September 2013 and August 2015 of adult patients with AML receiving RIC. In this study, fecal and oral microbiome samples collected every 96 hours from the start of RIC until neutrophil recovery were assessed for the relative abundance of S. maltophilia via 16s rRNA quantitation. The primary outcome, microbiologically proven S. maltophilia infection, was analyzed using a time-varying Cox proportional hazards model accounting for S. maltophilia relative abundance and cumulative antibiotic exposure. Patients were censored at neutrophil recovery or death. Results 90 patient were included; of whom, 8 (9%) developed S. maltophilia infection (pneumonia, n = 6; skin/soft-tissue infection, n = 2). 4/8 (50%) patients were bacteremic. 7/8 (88%) patients with S. maltophilia infection had detectable oral 16s oral reads mapping to S. maltophilia vs 22/82 (27%) without infection (P &lt; 0.01). An oral S. maltophilia relative abundance of 36% predicted infection (sensitivity: 96%, specificity 93%, likelihood ratio +: 17.08). No association of S. maltophilia infection with the fecal relative abundance was seen. Cumulative meropenem exposure was associated with increased infection risk (hazard ratio [HR] 1.17, 95% CI 1.01 – 1.35, P = 0.03), while levofloxacin was associated with decreased infection risk (HR 0.83, 95% CI 0.66 – 1.04, P = 0.10). Conclusion The oral microbiome may play an important role in S. maltophilia pathogenesis in AML patients. Cumulative antibiotic exposure likely modifies S. maltophilia infection risk. These data suggest that real-time molecular monitoring of the oral cavity for S. maltophilia in AML patients could identify patients at high risk for S. maltophilia infection and improve targeted therapy. Disclosures Samuel L. Aitken, PharmD, Melinta Therapeutoics: Grant/Research Support, Research Grant; Merck, Sharpe, and Dohme: Advisory Board; Shionogi: Advisory Board.

Topic: Infections and bacterial resistance
Subfield: Endocrinology
Field: Biochemistry, Genetics and Molecular Biology
Domain: Life Sciences
Multi channel wave transfer in sparsely connected systems

Wave transport in finite systems connected through multiple channels is strongly influenced by inter channel correlations. Such correlations are induced by scattering and restrictions in the complex medium in which the waves propagate. Examples can be found in electron conduction in mesoscopic systems with multiple leads and in electromagnetic wave transfer in multi-antenna wireless communication. The influence of the correlations on the overall wave transport can be uncovered by analyzing the eigenvalue distributions of the transfer matrix between the ingoing and outgoing channels. A model system is studied experimentally in the microwave region where the correlation between sets of transmitting and receiving antennas are induced by connecting complex cavities through a limited number of leads. The eigenvalue distribution of this correlated multi channel system is described using random matrix theory.

Topic: Random lasers and scattering media
Subfield: Acoustics and Ultrasonics
Field: Physics and Astronomy
Domain: Physical Sciences
Efficacy of Systematic Desensitization Therapy on Academic Boredom among Adolescents in Edo State Secondary Schools

Abstract An individual experiences boredom when an activity is neither entertaining nor conducive. Academic boredom and its negative influences include dissatisfaction and low arousal in school activities, depression, high school dropout, lack of academic goal orientation, abusive behaviours as well as poor academic performances among students. The study sought to investigate the efficacy of Systematic desensitization on academic boredom among students in Edo State Secondary Schools. The research used quasi experimental design adopting the pretest-posttest non-equivalent control group experiment. The population for the study consisted of One thousand, five hundred and eighty-two (I,582) SS2 students from Seven (7) public schools in Oredo Local Government Area of Edo State. The sample for the study was made up of two intact classes comprising of 91 (Ninety-one) SS2 students. The instruments used for the study is Boredom Proneness Scale (BPS), developed by Farmer and Sunberg, adapted from Obisanya with a test retest reliability co-efficient of 0.792. The findings of this study showed that Systematic desensitization was effective in reducing academic boredom. It was also more effective than the control group (non-attention). It is therefore recommended that reciprocal inhibition can be used to desensitize the students by counsellors. In the classroom, the teacher should note individual differences, engage students in classroom activities, use real life situations and also make learning interesting.

Topic: Mind wandering and attention
Subfield: Cognitive Neuroscience
Field: Neuroscience
Domain: Life Sciences
Detection of viral genomes in the liver by in situ hybridization using 35S-, bromodeoxyuridine-, and biotin-labeled probes.

Methods employing 35S-, biotin-, and bromodeoxyuridine (BrdUrd)-labeled DNA probes were compared for the detection of hepatitis B virus (HBV) and cytomegalovirus (CMV) in the liver. The results demonstrate that: 1) HBV can be detected reliably only by the use of radiolabeled probes, whereas methods employing nonradioactive probes obviously are not sensitive enough for this virus. The use of 35S-labeled probes shortens the exposure times considerably in comparison to tritiated probes. 2) Biotin-labeled probes are of limited value for in situ hybridization on liver tissues because the presence of endogenous avidin-binding activity often leads to false positive results. 3) Brd-Urd-labeled probes are a useful alternative to biotinylated probes for the detection of CMV. In comparison with biotinylated probes, BrdUrd-labeled probes produce a specific signal of similar staining intensity in the absence of background staining in the liver.

Topic: Cytomegalovirus and herpesvirus research
Subfield: Epidemiology
Field: Medicine
Domain: Health Sciences
Microstructures and Magnetism of Silicon co-implanted with Manganese and Carbon ions

Dilute magnetic semiconductors based on transition metal doped silicon have attracted intense interest in recent years due to their compatibility with current silicon technology. Here we present transmission electron microscopy, secondary ion mass spectrometry and ferromagnetic resonance studies of silicon implanted with 1×1016 ions/cm2 of Mn ions and silicon co-implanted with both 1×1016 ions/cm2 of Mn ions and 2×1016 ions/cm2 of carbon ions at a substrate temperature of 350 °C. Afterward, the samples were annealed at temperatures between 800 and 1000°C. The SIMS results show a marked difference between the two specimens while the TEM results show similar features in terms of Mn precipitation and particle evolution. The carbon implanted specimens show additional features that appear to be amorphous silicon pockets within the crystalline implant region. Only one specimen (Mn only implant, unannealed) showed any ferromagnetic properties.

Topic: ZnO doping and properties
Subfield: Materials Chemistry
Field: Materials Science
Domain: Physical Sciences
Fertility options for muslim people: acceptability &amp; awareness among clients and health service providers

Objective: The available options for infertile Muslim couples are 1: remaining childlesspermanently 2: Polygynous marriage, 3: Divorce; 4: Fostering an orphan legally, or 5: Newreproductive technologies. In nearly 20 nations of the Muslim Middle East and Muslimpeople in non-Islamic countries, marriage is highly valued and they can not live happilywithout children. Authors have made an important point regarding deficient counselingconcerning awareness, acceptability and offering of these options. To test the above fertilityoptions awareness & acceptability among infertile couples & consultants.Materials& Methods: 120 Muslim couples & 20 consultants were surveyed over a 6-monthsperiod were surveyed for their knowledge of fertility options awareness, acceptability andoffering. It was hypothesized that less than 50% of the subjects had an adequate understanding of the available options.Results: 33% (n= 80) of subjects (for clients) had a score of 5 or more which was consideredas having an adequate understanding of the available options, while less than 20 % of doctors (n = 4) offering other options during counseling. .The hypothesis was accepted, givingreason for concern about the effectiveness of consumer education at all levels of fertilitymanagement.Conclusions: In Muslim communities, fertility awareness is generally very poor among clients and consultants. The authors believe that there are many positive implications forpromoting patient education about fertility awareness.

Topic: Reproductive Health and Technologies
Subfield: Reproductive Medicine
Field: Medicine
Domain: Health Sciences
VV-Net: Voxel VAE Net with Group Convolutions for Point Cloud Segmentation

We present a novel algorithm for point cloud segmentation. Our approach transforms unstructured point clouds into regular voxel grids, and further uses a kernel-based interpolated variational autoencoder (VAE) architecture to encode the local geometry within each voxel. Traditionally, the voxel representation only comprises Boolean occupancy information which fails to capture the sparsely distributed points within voxels in a compact manner. In order to handle sparse distributions of points, we further employ radial basis functions (RBF) to compute a local, continuous representation within each voxel. Our approach results in a good volumetric representation that effectively tackles noisy point cloud datasets and is more robust for learning. Moreover, we further introduce group equivariant CNN to 3D, by defining the convolution operator on a symmetry group acting on $\mathbb{Z}^3$ and its isomorphic sets. This improves the expressive capacity without increasing parameters, leading to more robust segmentation results. We highlight the performance on standard benchmarks and show that our approach outperforms state-of-the-art segmentation algorithms on the ShapeNet and S3DIS datasets.

Topic: 3D Shape Modeling and Analysis
Subfield: Computational Mechanics
Field: Engineering
Domain: Physical Sciences
Discovery and characterization of novel Cre-type tyrosine site-specific recombinases for advanced genome engineering

Abstract Tyrosine-type site-specific recombinases (Y-SSRs) are versatile tools for genome engineering due to their ability to mediate excision, integration, inversion and exchange of genomic DNA with single nucleotide precision. The ever-increasing need for sophisticated genome engineering is driving efforts to identify novel SSR systems with intrinsic properties more suitable for particular applications. In this work, we develop a systematic computational workflow for annotation of putative Y-SSR systems and apply this pipeline to identify and characterize eight new naturally occurring Cre-type SSR systems. We test their activity in bacterial and mammalian cells and establish selectivity profiles for the new and already established Cre-type SSRs with regard to their ability to mutually recombine their target sites. These data form the basis for sophisticated genome engineering experiments using combinations of Y-SSRs in research fields including advanced genomics and synthetic biology. Finally, we identify putative pseudo-sites and potential off-targets for Y-SSRs in the human and mouse genome. Together with established methods for altering the DNA-binding specificity of this class of enzymes, this work should facilitate the use of Y-SSRs for future genome surgery applications.

Topic: CRISPR and Genetic Engineering
Subfield: Molecular Biology
Field: Biochemistry, Genetics and Molecular Biology
Domain: Life Sciences
Stellate Plasmonic Exosomes for Penetrative Targeting Tumor NIR-II Thermo-Radiotherapy

Multifunctional gold (Au)-based nanomaterials with high atomic number (symbol Z) and strong absorbance in the second near-infrared window (NIR-II) property are emerging as promising candidates for tumor thermo-radiotherapy. The main limitations of applying Au-based nanomaterials to biomedical studies include the absence of active tumor-targeting ability, penetrating efficiency, and stability. In this study, we present a novel type of tumor cell-derived stellate plasmonic exosomes (TDSP-Exos) for penetrative targeted tumor NIR-II thermo-radiotherapy and photoacoustic imaging. The TDSP-Exos are abundantly and easily produced by the incubation of tumor cells with gold nanostars, based on which gold nanostars promote the exocytosis of exosomes from tumor cells. Compared with bare gold nanostars, the TDSP-Exos exhibit pronounced accumulation in deep tumor tissues and perform well in both PA imaging and NIR-II thermo-radiotherapy against the tumor. Moreover, the TDSP-Exos improve tumor hypoxia to enhanced radiotherapy by NIR-II photothermal therapy. This work indicates that the tumor cell-derived exosomes have the potential to function as a universal carrier of photothermal agents for targeted tumor NIR-II thermo-radiotherapy.

Topic: Extracellular vesicles in disease
Subfield: Molecular Biology
Field: Biochemistry, Genetics and Molecular Biology
Domain: Life Sciences
Infantile Features: Effect on Visual Scanning and Recognition Memory of Adult and Infant Faces

Perception and attention play an important role in Visual Scanning (VS) of faces. Research suggests that VS of faces develops in infancy and continues into adulthood. VS has been shown to change throughout development and is thought to transition from processing images featurally to configurally. Further research has shown preference, higher ratings of cuteness, and prolonged looking time at faces with High Infantile characteristics (large head, eyes, and forehead, and a small nose and mouth) versus Low Infantile characteristics. In this research the effect of face shape on VS, assessed via Fixation Count (FC) and Response Latency (RL) on a Delayed Match to Sample task (DMTS) was tested using an adult population. Infant and Adult faces that were in High Infantile vs. Low Infantile face-shape categories were used to assess the effect. I hypothesized that due to the role of feature scanning and processing and subsequent recognition memory in adults, when viewing stimuli that are not as familiar, (infant faces), differences would be more noticeable, resulting in slower RLs and higher Fixation Counts (FC). I also hypothesized that preference for infantile face shape would result in slower RLs when participants were given Low Infantile stimuli versus High Infantile stimuli as the Sample Stimulus to be matched. While no significant differences regarding the hypotheses of the study were found, a significant trials effect regarding RL was found as well as a significant decrease in FC to eyes and mouths over trials.

Topic: Face Recognition and Perception
Subfield: Cognitive Neuroscience
Field: Neuroscience
Domain: Life Sciences
Intrinsic Viscosity and Reducing Sugar Profiles of Degraded Glucomannan using Cellulase

Abstract High viscosity of glucomannan has been limit its applications. Hence, the long polysaccharide glucomannan which consists of β-linked glucoses and mannoses needs to be degraded to broaden its utilizations. Enzymatic degradation is known as a safe method for food material treatment. Specifically targeting at 1,4-β-D-glycosidic linkages, cellulase has potential as a cleavage for glucomannan. This work aimed to study performance of cellulase in degrading glucomannan. The change in intrinsic viscosity and reducing sugar during degradation was observed. Degradation of 1% glucomannan by 20 ppm cellulase for 300 min decreased the viscosity from 12,420 to 353 cps. This degradation was also confirmed by the increase of reducing sugar amount from 1,238.57 to 8,510.00 µg/ml. This work showed the success of glucomannan degradation by cellulase.

Topic: Polysaccharides Composition and Applications
Subfield: Food Science
Field: Agricultural and Biological Sciences
Domain: Life Sciences
ChemInform Abstract: Heterocyclic Systems Containing Bridgehead Nitrogen Atom: Synthesis and Bioactivity of 2,3‐Dihydro‐4H‐[1,3]thiazino[3′,2′:2,3]‐as‐triazino[5,6‐b]indole (IV) and Quinoxalino[2′,3′:4,5]thiazolo[3,2‐b]indolo[2,3‐e]‐as‐triazine (VI) and Their Isomeric Systems (VII)/(VIII).

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.

Topic: Synthesis and Characterization of Heterocyclic Compounds
Subfield: Organic Chemistry
Field: Chemistry
Domain: Physical Sciences
Utility of blood tests in screening for metabolic disorders in kidney stone disease

Objectives To determine the clinical utility of blood tests as a screening tool for metabolic abnormalities in patients with kidney stone disease. Subjects and Methods Clinical and biochemical data from 709 patients attending the Oxford University Hospitals NHS Foundation Trust for assessment and treatment of kidney stones were prospectively collected between April 2011 and February 2017. Data were analysed to determine the utility of serum calcium, parathyroid hormone (PTH), urate, chloride, bicarbonate, potassium and phosphate assays in screening for primary hyperparathyroidism, normocalcaemic hyperparathyroidism, hyperuricosuria, distal renal tubular acidosis (dRTA) and hypercalciuria. Results An elevated serum calcium level was detected in 2.3% of patients. Further investigations prompted by this finding resulted in a diagnosis of primary hyperparathyroidism in 0.2% of men and 4.6% of women for whom serum calcium was recorded. An elevated serum PTH level in the absence of hypercalcaemia was detected in 15.1% of patients. Of these patients, 74.6% were vitamin D‐insufficient; no patients were diagnosed with normocalcaemic hyperparathyroidism. Hyperuricosuria was present in 21.6% of patients and hypercalciuria in 47.1%. Hyperuricaemia was not associated with hyperuricosuria, nor was hypophosphataemia associated with hypercalciuria. No patient was highlighted as being at risk of dRTA using serum chloride and bicarbonate as screening tests. Conclusion This study indicates that individuals presenting with renal calculi should undergo metabolic screening with a serum calcium measurement alone. Use of additional blood tests to screen for metabolic disorders is not cost‐effective and may provide false reassurance that metabolic abnormalities are not present. A full metabolic assessment with 24‐h urine collection should be undertaken in recurrent stone formers and in those at high risk of future stone disease to identify potentially treatable metabolic abnormalities.

Topic: Kidney Stones and Urolithiasis Treatments
Subfield: Pulmonary and Respiratory Medicine
Field: Medicine
Domain: Health Sciences
To belong or not to belong: the Roma, state violence and the new Europe in the House of Lords

Issues of national sovereignty and membership in the body politic are central to many current political and legal debates surrounding ‘New Britain’ and Europe. Traditional understandings of citizenship and belonging are grounded in the ideal of a territorially limited and defined nation state. In this article, I explore a series of judicial and political decisions surrounding the fate of Roma or Gypsies, both as claimants to refugee status in Britain, or as subjects of domestic legal controls. I argue that these decisions construct this nomadic Other as a fundamental danger and challenge to the coherence of the legally protected body politic of the nation state ‘Britain’. I argue that the deconstructive excess found in the construction of the Roma as dangerous nomads, without allegiance to a fixed and geographically delimited nation state, might contain the kernel for a possible re-imagining of the basis of our understandings of citizenship and belonging.

Topic: Romani and Gypsy Studies
Subfield: General Health Professions
Field: Health Professions
Domain: Health Sciences
Microsphaeropsis cytisinus Artand & Mehrabi-Koushki & Tabein & Hyde & Jayawardena 2022

Microsphaeropsis cytisinus (Tennakoon, Camporesi & K.D.Hyde) M.Mehrabi-Koushki, K.D.Hyde & Jayaward., comb. nov. Neomicrosphaeropsis cytisinus Tennakoon, Camporesi & K.D.Hyde, Fungal Diversity 80: 39 (Hyde et al. 2016). MYCOBANK. — MB 841489. DESCRIPTION See Hyde et al. (2016). NOTES Neomicrosphaeropsis cytisinus was originally described from a dead stem of Cytisus scoparius L. (Fabaceae) a saprobic fungus in Italy (Hyde et al. 2016). According to the phylogenetic analyses in the present study (Fig. 1) and SNP analysis, this species is transferred to Microsphaeropsis. Nucleotide comparison of M. cytisinus (Tennakoon, Camporesi & K.D.Hyde) M.Mehrabi-Koushki, K.D.Hyde & Jayaward., comb. nov. with Neomicrosphaeropsis species showed a difference of 0.6% (3/521 bp) in the LSU region and 3% (13/431 bp) in the ITS.

Topic: Plant Pathogens and Fungal Diseases
Subfield: Cell Biology
Field: Biochemistry, Genetics and Molecular Biology
Domain: Life Sciences