gebhart/patrepeval huggingface dataset:
Label-free optical imaging technologies for rapid translation and use during intraoperative surgical and tumor margin assessment (2017)

The biannual International Conference on Biophotonics was recently held on April 30 to May 1, 2017, in Fremantle, Western Australia. This continuing conference series brought together key opinion leaders in biophotonics to present their latest results and, importantly, to participate in discussions on the future of the field and what opportunities exist when we collectively work together for using biophotonics for biological discovery and medical applications. One session in this conference, entitled "Tumor Margin Identification: Critiquing Technologies," challenged invited speakers and attendees to review and critique representative label-free optical imaging technologies and their application for intraoperative assessment and guidance in surgical oncology. We are pleased to share a summary in this outlook paper, with the intent to motivate more research inquiry and investigations, to challenge these and other optical imaging modalities to evaluate and improve performance, to spur translation and adoption, and ultimately, to improve the care and outcomes of patients.
The Renpenning syndrome–associated protein PQBP1 facilitates the nuclear import of splicing factor TXNL4A through the karyopherin β2 receptor (2020)

Renpenning syndrome belongs to a group of X-linked intellectual disability disorders. The Renpenning syndrome-associated protein PQBP1 (polyglutamine-binding protein 1) is intrinsically disordered, associates with several splicing factors, and is involved in pre-mRNA splicing. PQBP1 uses its C-terminal YxxPxxVL motif for binding to the splicing factor TXNL4A (thioredoxin like 4A), but the biological function of this interaction has yet to be elucidated. In this study, using recombinant protein expression, <i>in vitro</i> binding assays, and immunofluorescence microscopy in HeLa cells, we found that a recently reported X-linked intellectual disability-associated missense mutation, resulting in the PQBP1-P244L variant, disrupts the interaction with TXNL4A. We further show that this interaction is critical for the subcellular location of TXNL4A. In combination with other PQBP1 variants lacking a functional nuclear localization signal required for recognition by the nuclear import receptor karyopherin β2, we demonstrate that PQBP1 facilitates the nuclear import of TXNL4A via a piggyback mechanism. These findings expand our understanding of the molecular basis of the PQBP1-TXNL4A interaction and of the etiology and pathogenesis of Renpenning syndrome and related disorders.
Alternative copolymerization of aziridines and carbon monoxide by γ‐ray irradiation (1966)

Abstract The copolymerization of carbon monoxide and aziridines such as ethylenimine and propylenimine was carried out by γ‐ray irradiation. Aziridines and carbon monoxide were allowed to copolymerize under γ‐ray irradiation from a Co 60 source and gave a crystalline solid copolymer. The yield of the copolymer increased with reaction temperature. The composition of copolymers obtained did not depend on the feed ratio of monomers and was found to be almost equimolar. The copolymer of ethylenimine and carbon monoxide melted at about 322–335°C. with decomposition and has an infrared spectrum identical with that of poly‐β‐alanine obtained by the hydrogen‐migration polymerization of acrylamide. The hydrolyzed product of the ethylenimine–carbon monoxide copolymer was confirmed to be β‐alanine by paper chromatography. These results lead to the conclusion that the copolymerization of aziridines and carbon monoxide took place alternatively by γ‐ray irradiation, and produced crystalline poly‐β‐alanines.
A New Image Adaptive Filter Using Local Homogeneity (2008)

Image filtering is an important problem in image processing. Many algorithms such as adaptive filter, total variation method in this field are efficient and practical. In this paper, the local homogeneity method is employed which result in the homogeneity image (H-image). The high and low values of the H-image correspond to possible region boundaries and region interiors respectively. Finally, an adaptive filter method is proposed which combines the image homogeneity and local discontinuities. Comparative experiments indicate that our algorithm yields favorable smoothing results.
Changes in Superstructure of Hot-Drawn Nylon 6 Fibers during Drawing. (1993)

,Vd=10/min,
Micromachined silicon cantilevers and tips for bidirectional force microscopy (2002)

A monocrystalline silicon lever with an integrated silicon tip for a force/friction microscope was realized. Theoretical studies have been carried out to find the shape and dimensioning according to the mechanical system requirements. The layout dimension and the etching parameters have to be optimized as a function of the feedback obtained from the measurements with these structures in the AFM (atomic force microscope). Moreover, sharp tips with a high aspect ratio could be demonstrated. The method described can also be used to fabricate high aspect ratio cantilevers with an integrated tip, which is even easier than fabricating the tip on a square cross section.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Internet of Things security and privacy-preserving method through nodes differentiation, concrete cluster centers, multi-signature, and blockchain (2018)

Now, the security and privacy-preserving of Internet of Things are receiving more attention. This article proposes a new method of Internet of Things security and privacy preserving by combining differentiated nodes, precision clustering, RSA, multi-signature, and blockchain. To calculate the node rank value in Internet of Things, the number of nodes’ links is taken as the weight of nodes based on PageRank. This method increases the node rank values’ difference between nodes. Accurate clustering determines the initial central nodes of k-means based on the differentiated node rank values, which effectively differentiates the active and inactive nodes in Internet of Things and achieve different levels of protection. To ensure data’s reusability, we adopt the multi-signature. And considering node’s incoming nodes have certain decision on whether data can be transmitted, we filter out two nodes with the highest node rank value from active node’s incoming nodes to do 2/3 multi-signature which saves resources. We encrypt and sign the transmitted data with RSA, helping receivers to verify data. Data are transmitted safely through the blockchain. Successful validation indicates successful transmission. Experiments show that the proposed method can effectively distinguish between active and inactive nodes, which increases the difficulty of attackers’ attack and effectively protects the security and privacy of Internet of Things nodes and data.
Dependence of timing resolution on crystal size for TOF PET (2007)

Recently, with the prospect of great improvement in image quality, the development of time of flight technology has become an exciting topic for positron emission tomography. The excitement was further accelerated by the introduction of various fast and high light output scintillators as well as new photo-sensors. However, the development of improved time of flight detectors is not only about the selection of crystals and photo-sensors, but also about how detectors are assembled to optimize their performance. For example, depending on crystal block structure, photo-sensor layout, and coupling methods, a detector’s timing resolution can be drastically different. Since the effect of block structure for timing resolution is complex and less understood it is essential to first dissect the block structure and understand the impact of its basic components on timing resolution. In this paper, we will present the dependence of timing resolution on varying the dimensions of the scintillator crystals that are the main component of a block detector.
Non-radioactive detection of oligonucleotide probes by photochemical amplification of dioxetanes. (1995)

We describe a new method of non-radioactive labelling and detection of oligonucleotide probes. The approach is based on a simple chemical principle. Oligonucleotides labelled with methylene blue (a photosensitizer) are hybridized on a membrane to immobilized DNA target sequences. After hybridization and stringency washing 2(-)[3-(hydroxyphenyl)methoxymethylene] adamantane is added to the membrane and the membrane is irradiated with a tungsten lamp light source through a cut-off filter. Thermally stable dioxetanes are amplified during irradiation at the positions of the labelled probe. These amplified dioxetanes are detected using chemically triggered chemiluminescent decay. Signals are recorded on commercial X-ray film. Detection is possible immediately after the last washing step and a hard copy of the blot is obtained within 1 h. Dependent on the level of the target sequences, the sensitivity of the method allows detection of 0.3 pg single-stranded M13mp18(+) plasmid DNA in dot blots and 75 pg in Southern blots. Additional immunological reaction steps and washing steps with blocking reagents and buffers are avoided. Furthermore, expensive reagents and equipment for physical detection are not necessary. The method might be particularly useful for fast routine analysis in forensic and medical applications. The synthesis of the olefin, conditions of hybridization and the protocol of detection are described in detail.
Mesh Composition on Models with Arbitrary Boundary Topology (2008)

This paper presents a new approach for the mesh composition on models with arbitrary boundary topology. After cutting the needed parts from existing mesh models and putting them into the right pose, an implicit surface is adopted to smoothly interpolate the boundaries of models under composition. An interface is developed to control the shape of the implicit transient surface by using sketches to specify the expected silhouettes. After that, a localized Marching Cubes algorithm is investigated to tessellate the implicit transient surface so that the mesh surface of composed model is generated. Different from existing approaches in which the models under composition are required to have pairwise merging boundaries, the framework developed based on our techniques have the new function to fuse models with arbitrary boundary topology.
The spectrum of prevention: developing a comprehensive approach to injury prevention: Figure 1 (1999)

The spectrum of prevention is a tool which can help practitioners and policy leaders move beyond a primarily educational approach to achieve broad community goals through injury prevention strategies that include policy development. This framework has been endorsed and applied in a variety of disciplines, however it has not been formally evaluated, a process that could clarify the scope of its effectiveness.
Dual targeting of folate receptor-expressing glioma tumor-associated macrophages and epithelial cells in the brain using a carbon nanosphere–cationic folate nanoconjugate (2019)

Glioblastoma multiforme (GBM), the highly invasive form of glioma, exhibits the highest mortality in patients with brain malignancies. Increasing glioma patients' survivability is challenging, as targeting only tumor-associated malignant cells would not reduce the overall aggressiveness of the tumor mass. This is due to the inadequacy in countering pro-proliferative, invasive and metastatic factors released by tumor-mass associated macrophages (TAMs). Hence, strategically, dual targeting both tumor cells and TAMs is necessary for effective glioma treatment and increased survivability. Conventional FR-targeting systems can easily target cancer cells that overtly express folate receptors (FRs). However, FRs are expressed only moderately in both glioma cells and in TAMs. Hence, it is more challenging to coordinate dual targeting of glioma cells and TAMs with lower levels of FR expression. A recently developed carbon nanosphere (CSP) with effective blood-brain barrier (BBB) penetrability was modified with a new folic acid-cationic lipid conjugate (F8) as a targeting ligand. The uniqueness of the cationic lipid-folate conjugate is that it stably associates with the negatively charged CSP surface at about >22 mol% surface concentration, a concentration at least 5-fold higher than what is achieved for conventional FR-targeting delivery systems. This enabled dual uptake of the CSP on TAMs and tumor cells <i>via</i> FRs. A doxorubicin-associated FR-targeting formulation (CFD), in an orthotopic glioma model and in a glioma subcutaneous model, induced the maximum anticancer effect with enhanced average mice survivability twice that of untreated mice and without any systemic liver toxicity. Additionally, we observed a significant decrease of TAM-released pro-aggressive factors, TGF-β, STAT3, invasion and migration related sICAM-1, and other cytokines indicating anti-TAM activity of the CFD. Taken together, we principally devised, to the best of our knowledge, the first FR-targeting nano-delivery system for targeting brain-associated TAMs and tumor cells as an efficient glioma therapeutic.
Expression of functionally active α4β1 integrin by thymic epithelial cells (1996)

We have investigated the expression and function of the VLA-4 heterodimer alpha 4 beta 1, a member of the beta 1 integrin subfamily, on human thymic epithelial cells (TEC) derived from cortical epithelium. The expression of the alpha 4 integrin chain was studied in four different cloned TEC lines derived from either fetal or post-natal human thymus by both flow cytometry and immunoprecipitation techniques with anti-alpha 4 MoAbs. All different cell lines assayed expressed significant levels of alpha 4, as revealed by their reactivity with MoAbs specific for distinct alpha 4 epitopes. The alpha 4 subunit expressed by TEC was associated to beta 1 but not to beta 1 chain, and displayed the characteristic 80/ 70 kD pattern of proteolytic cleavage. The VLA-4 integrin in these cells was constitutively active in terms of adhesiveness to both fibronectin and vascular cell adhesion molecule-1 (VCAM-1). In addition, this heterodimer localized to punctate regions of the cell in the area of contact with the substratum, named point contacts assessed by staining with the anti-beta 1 activation epitope 15/7 MoAb. According to the cortical origin of the TEC lines expressing VLA-4, human thymus sections stained with different anti-alpha 4 antibodies revealed the presence of cortical, and in smaller numbers medullary epithelial cells bearing alpha 4 integrin. The expression of alpha 4 in the thymus was also found in both adult and fetal rats, in which epithelial cells were also specifically stained. Altogether, our data show that VLA-4 is an additional component of the integrin repertoire of TEC, and suggest that it could have an important role in thymus epithelial cell-thymocyte interactions.
QoS for storage subsystems using IEEE-1394 (2009)

IEEE-1394 is widely adopted in various commercial products for computing, communication, and entertainment. Although many services with Quality-of-Service (QoS) supports are now available in systems over IEEE-1394, little work is done for QoS-based resource allocation. In this article, we aim at the design of a bandwidth reservation mechanism and its policy for isochronous requests, such as those from cameras. We then address the QoS support issue for asynchronous requests, such as those from disks, and an analytic framework for probability-based QoS guarantees. This work is concluded by the proposing of a topology configuration algorithm for IEEE-1394 devices. The capability of the proposed methodology and the analytic framework are evaluated by a series of experiments over a Linux-based system prototype.
The endothelin system and endothelin receptor antagonists (2011)

Endothelin receptor blockade is associated with a significant attenuation of proteinuria and these effects are mediated in part via inhibition of inflammatory and oxidative stress related pathways as well profibrotic pathways. The addition of ET(A) receptor blockade to currently established therapies such as angiotensin-converting enzyme inhibitors or angiotensin receptor blockers may result in additional or synergistic renoprotection and vasculoprotection in hypertension and, in particular, in the context of diabetes.
Addressing the terawatt challenge: scalability in the supply of chemical elements for renewable energy (2012)

The energy infrastructure for fossil fuels is well-established, accounting for approximately 87% of the 16 TW of power consumed globally. For renewable and sustainable energy conversion technologies to play a relevant role at the terrestrial scale, they must be able to scale to the TW level of deployment. This would place a significant demand on the current and future supply of raw materials (chemical elements) used by those technologies. Oftentimes, the average crustal abundance of a chemical element is cited as a measure of its scalability, however another important metric for scalability is the existence (of lack thereof) of mineable ores with a high concentration of the targeted element. This paper aims to provide an overview of the availability of all elements. This is accomplished via a compilation of data for global primary production rates for each element, as a measure of availability at the present time. This work also addresses the potential future availability based on current and possible future primary sources.
Cross-View Attention Network for Breast Cancer Screening from Multi-View Mammograms (2020)

In this paper, we address the problem of breast caner detection from multi-view mammograms. We present a novel cross-view attention module (CvAM) which implicitly learns to focus on the cancer-related local abnormal regions and highlighting salient features by exploring cross-view information among four views of a screening mammography exam, e.g. asymmetries between left and right breasts and lesion correspondence between two views of the same breast. More specifically, the proposed CvAM calculates spatial attention maps based on the same view of different breasts to enhance bilateral asymmetric regions, and channel attention maps based on two different views of the same breast to enhance the feature channels corresponding to the same lesion in a single breast. CvAMs can be easily integrated into standard convolutional neural networks (CNN) architectures such as ResNet to form a multi-view classification model. Experiments are conducted on DDSM dataset, and results show that CvAMs can not only provide better classification accuracy over non-attention and single-view attention models, but also demonstrate better abnormality localization power using CNN visualization tools.
Preparation of human tau exon-2- and -10-specific monoclonal antibodies for the recognition of brain tau proteins in various mammals (2015)

The aggregations of tau protein in brain tissue have been described in a large number of neurodegenerative diseases; however, due to the lack of tau isoform- or exon-specific antibodies, the exact situations under which various brain tau isoforms can be found and their exact contributions during disease progression remain unknown. Therefore, in this study, we prepared tau exon-specific monoclonal antibodies (mAbs) that recognize different mammalian tau isoforms. Briefly, 3 Balb/c mice were separately immunized (3 mice per antigen) with the recombinant GST-fusion proteins, GST-tE2 and GST-tE10. Two hybridoma cell lines, 4A8 and 3E12, secreting antibodies against human tau exon-2 and -10 were established using the hybridoma technique. The sensitivity and specificity of the prepared mAbs were evaluated using indirect ELISA and western blot analysis. The ability of the prepared mAbs, 4A8 and 3E12, to recognize endogenous tau protein in the brain tissues of various mammals was estimated by immunoprecipitation. Based on the results of various verification methods, we found that the prepared mAbs, 4A8 and 3E12, not only specifically reacted with the individual recombinant GST tau exon fusion proteins, but also correctly recognized the recombinant human tau isoforms containing respective exon sequences, as shown by western blot analysis. Furthermore, western blot analysis and immunoprecipitation assays verified that the mAbs, 4A8 and 3E12, recognized endogenous tau proteins in human brain tissue, as well as tau proteins in a series of mammalian tissues, including goat, bovine, rabbit, hamster and mouse. Thus, in the present study, using the hybridoma technique, we successfully prepared the mAbs, 4A8 against tau exon-2 and 3E12 against tau exon-10, which provide useful tools for determining potential alternations of tau isoforms in neurodegenerative diseases.
Diffusion-limited aggregation as a deterministic growth process (1985)

A set of deterministic continuum equations is proposed to represent diffusion-limited aggregation. A solution using a Green's-function method gives growth very similar to discrete simulations. The growth equations have no external noise. The relationship to viscous fingering and other growth processes is explored.
Subgenomic Negative-Strand RNA Function during Mouse Hepatitis Virus Infection (2000)

Mouse hepatitis virus (MHV)-infected cells contain full-length and subgenomic-length positive- and negative-strand RNAs. The origin and function of the subgenomic negative-strand RNAs is controversial. In this report we demonstrate that the synthesis and molar ratios of subgenomic negative strands are similar in alternative host cells, suggesting that these RNAs function as important mediators of positive-strand synthesis. Using kinetic labeling experiments, we show that the full-length and subgenomic-length replicative form RNAs rapidly accumulate and then saturate with label, suggesting that the subgenomic-length negative strands are the principal mediators of positive-strand synthesis. Using cycloheximide, which preferentially inhibits negative-strand and to a lesser extent positive-strand synthesis, we demonstrate that cycloheximide treatment equally inhibits full-length and subgenomic-length negative-strand synthesis. Importantly, following treatment, previously transcribed negative strands remain in transcriptionally active complexes even in the absence of new negative-strand synthesis. These findings indicate that the subgenomic-length negative strands are the principal templates of positive-strand synthesis during MHV infection.
Receptor for the Pain Modulatory Neuropeptides FF and AF Is an Orphan G Protein-coupled Receptor (2000)

Opiate tolerance and dependence are major clinical and social problems. The anti-opiate neuropeptides FF and AF (NPFF and NPAF) have been implicated in pain modulation as well as in opioid tolerance and may play a critical role in this process, although their mechanism of action has remained unknown. Here we describe a cDNA encoding a novel neuropeptide Y-like human orphan G protein-coupled receptor (GPCR), referred to as HLWAR77 for which NPAF and NPFF have high affinity. Cells transiently or stably expressing HLWAR77 bind and respond in a concentration-dependent manner to NPAF and NPFF and are also weakly activated by FMRF-amide (Phe-Met-Arg-Phe-amide) and a variety of related peptides. The high affinity and potency of human NPFF and human NPAF for HLWAR77 strongly suggest that these are the cognate ligands for this receptor. Expression of HLWAR77 was demonstrated in brain regions associated with opiate activity, consistent with the pain-modulating activity of these peptides, whereas the expression in adipose tissue suggests other physiological and pathophysiological activities for FMRF-amide neuropeptides. The discovery that the anti-opiate neuropeptides are the endogenous ligands for HLWAR77 will aid in defining the physiological role(s) of these ligands and facilitate the identification of receptor agonists and antagonists.