gebhart/patrepeval huggingface dataset:
CD45 Phosphatase Inhibits STAT3 Transcription Factor Activity in Myeloid Cells and Promotes Tumor-Associated Macrophage Differentiation (2016)

Recruitment of monocytic myeloid-derived suppressor cells (MDSCs) and differentiation of tumor-associated macrophages (TAMs) are the major factors contributing to tumor progression and metastasis. We demonstrated that differentiation of TAMs in tumor site from monocytic precursors was controlled by downregulation of the activity of the transcription factor STAT3. Decreased STAT3 activity was caused by hypoxia and affected all myeloid cells but was not observed in tumor cells. Upregulation of CD45 tyrosine phosphatase activity in MDSCs exposed to hypoxia in tumor site was responsible for downregulation of STAT3. This effect was mediated by the disruption of CD45 protein dimerization regulated by sialic acid. Thus, STAT3 has a unique function in the tumor environment in controlling the differentiation of MDSC into TAM, and its regulatory pathway could be a potential target for therapy.
Multiple Vector Impedance Measurements During Biventricular Pacing: Feasibility and Possible Implications for Hemodynamic Monitoring (2009)

Variations in ICZ may be observed during different pacing modes and seem to correlate with hemodynamic and echocardiographic variables. Multiple vector ICZ measurement may be a feasible tool for hemodynamic assessment in patients treated with biventricular pacing.
T2ρ‐weighted contrast in MR images of the human brain (2004)

In this work, the feasibility of using T2rho weighting as an MR contrast mechanism is evaluated. Axial images of a human brain were acquired using a single-slice spin-lock T2rho-weighted pulse sequence and compared to analogous T2-weighted images of the same slice. The contrast between white matter and gray matter in T2rho-weighted images was approximately 40% greater than that from T2-weighted data. These preliminary data suggest that the novel contrast mechanism of T2rho can be used to yield high-contrast T2-like images.
Proteolysis of an active site peptide of lactate dehydrogenase by human immunodeficiency virus type 1 protease (1992)

The muscle and heart lactate dehydrogenase (LDHs) of rabbit and pig are specifically cleaved at a single position by HIV-1 protease, resulting in the conversion of 36-kDa subunits of the oligomeric enzymes into 21- and 15-kDa protein bands as analyzed by SDS-PAGE. While the proteolysis was observed at neutral pH, it became more pronounced at pH 6.0 and 5.0. The time courses of the cleavage of the 36-kDa subunits were commensurate with the time-dependent loss of both quaternary structure and enzymatic activity. These results demonstrated that deoligomerization of rabbit muscle LDH at acidic pH rendered its subunits more susceptible to proteolysis, suggesting that a partially denatured form of the enzyme was the actual substrate. Proteolytic cleavage of the rabbit muscle enzyme occurred at a decapeptide sequence, His-Gly-Trp-Ile-Leu*Gly-Glu-His-Gly-Asp (scissile bond denoted throughout by an asterisk), which constitutes a "strand-loop" element in the muscle and heart LDH structures and contains the active site histidyl residue His-193. The kinetic parameters Km, Vmax/KmEt, and Vmax/Et for rabbit muscle LDH and the synthetic decapeptide Ac-His-Gly-Trp-Ile-Leu*Gly-Glu-His-Gly-Asp-NH2 were nearly identical, suggesting that the decapeptide within the protein substrate is conformationally mobile, as would be expected for the peptide substrate in solution. Insertion of part of this decapeptide sequence into bacterial galactokinase likewise rendered this protein susceptible to proteolysis by HIV-1 protease, and site-directed mutagenesis of this peptide in galactokinase revealed that the Glu residue at the P2' was important to binding to HIV-1 protease. Crystallographic analysis of HIV-1 protease complexed with a tight-binding peptide analogue inhibitor derived from this decapeptide sequence revealed that the "strand-loop" structure of the protein substrate must adopt a beta-sheet structure upon binding to the protease. The Glu residue in the P2' position of the inhibitor likely forms hydrogen-bonding interactions with both the alpha-amide and gamma-carboxylic groups of Asp-30 in the substrate binding site.
Minimally Invasive Surgery for Pelviureteral Junction Obstruction in Adults: A Critical Review of the Options (2005)

No AccessJournal of UrologyUrological Survey: Urolithiasis, Endourology and Laparoscopy1 Sep 2005Minimally Invasive Surgery for Pelviureteral Junction Obstruction in Adults: A Critical Review of the Options Ralph V. ClaymanM.D. Ralph V. ClaymanRalph V. Clayman More articles by this author View All Author Informationhttps://doi.org/10.1097/S0022-5347(01)68464-7AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Minimally Invasive Surgery for Pelviureteral Junction Obstruction in Adults: A Critical Review of the Options." The Journal of Urology, 174(3), p. 953 © 2005 by American Urological Association, Inc.FiguresReferencesRelatedDetails Volume 174Issue 3September 2005Page: 953 Advertisement Copyright & Permissions© 2005 by American Urological Association, Inc.MetricsAuthor Information Ralph V. Clayman More articles by this author Expand All Advertisement PDF DownloadLoading ...
Fingerprint + Iris = IrisPrint (2015)

We consider the problem of generating a biometric image from two different traits. Specifically, we focus on generating an IrisPrint that inherits its structure from a fingerprint image and an iris image. To facilitate this, the continuous phase of the fingerprint image, characterizing its ridge flow, is first extracted. Next, a scheme is developed to extract “minutiae” from an iris image. Finally, an IrisPrint, that resembles a fingerprint, is created by mixing the ridge flow of the fingerprint with the iris minutiae. Preliminary experiments suggest that the new biometric image (i.e., IrisPrint) (a) can potentially be used for authentication by an existing fingerprint matcher, and (b) can potentially conceal and preserve the privacy of the original fingerprint and iris images.
Data-Driven Clamping Force Control for an Electric Parking Brake Without Speed Measurement (2018)

This paper addresses the control of the clamping force provided by an Electric Parking Brake (EPB). A simple on-off strategy is implemented: the device is actuated until the actual force reaches the target value maintaining the vehicle in a steady position. The effectiveness of the control is then highly depending on the quality of the clamping force estimation. The proposed estimator relies on the sole DC motor current and voltage signals and does not require the knowledge of any physical parameters nor the measurement of the DC motor angular displacement. Extensive eperimental tests show the robustness of the proposed strategy with respect to different operating and aging conditions.
A compact, high-speed, highly efficient hybrid silicon photodetector (2016)

We demonstrate a compact (30 μm × 4 μm) hybrid silicon photodetector with an internal responsivity of 1.18 A/W (95% internal quantum efficiency), a dark current of 10 nA, and an electrical bandwidth of 32 GHz.
Defining Research and Teaching Priorities that Could be Advanced Through a Near-Surface Geophysics Center (2022)

The National Science Foundation provided support to the American Geophysical Union (AGU) to engage its relevant community and help clarify the need for a Near-Surface Geophysics (NSG) Center and identify how it could advance key science questions, provide benefits for society, and develop the geophysical workforce of the future. This report synthesizes the broad input from the community. The listed authors represent the Steering Committee, led by Sarah Kruse and Xavier Comas, and AGU staff leads. They were responsible for most of the editing and connective writing. The major conclusions are: ● The capability and importance of NSG is expanding rapidly, and NSG is providing key science and knowledge to many specific scientific challenges in diverse disciplines–from ecology and anthropology to hydrology, oceanography, cryosphere science, soil and critical zone science, and more. ● This has been thanks to diverse new instruments and approaches, expanded monitoring, improved resolution, interoperable data sets, and new computing power and approaches, among other developments. ● As a result, advancing NSG is critical to addressing many societal challenges at local to global scales. Human society depends on and interacts with the NSG environment in deep and diverse ways at all scales. ● Despite these developments, integration of NSG approaches and awareness of these across related disciplines are not nearly robust enough for these needs. ● Major challenges include providing equipment and training around its use, developing and deploying new equipment and sensors, developing interoperable data, and developing computation techniques. ● In particular, educating both current researchers and developing an NSG-enabled workforce is a major challenge. ● Integrating education with societal and scientific challenges provides a great opportunity and means to expand inclusivity and diversity in the Earth sciences and to address climate justice and equity challenges. ● Thus there was a strong consensus for support of an NSG Center designed to address these challenges and needs and to foster convergent science, provide broad and hands-on educational training, and engage communities and the public meaningfully. ● We were not charged with envisioning the specific model for a Center—and indeed emphasized that the term “Center” was generic and did not necessarily imply that these efforts were envisioned to be in one location–but note that NSF is supporting important complementary facilities include the new EarthScope Consortium combining IRIS and UNAVCO, NCALM, and CTEMPS. ● In sum, we strongly encourage the NSF to take the next step in considering the best implementation model for a NSG Center that addresses these needs, enables these opportunities, and leverages and complements existing efforts.
Enhancement of the Immunoadjuvant Activity of Immunostimulatory DNA Sequence By Liposomal Delivery (2002)

Bacterial DNA and its synthetic immunostimulatory oligodeoxynucleotides’ analogs (ISS-ODN or CpG motifs) are potent stimulators of both innate immunity and specific adaptive immune responses (1–5). Bacterial DNA and ISSODNs directly activate monocytes/macrophages, dendritic cells, natural killer (NK) cells and B cells (6–10), induce the production of proinflammatory cytokines (e.g., IL-6, IL-12, IFNs, TNFa) (4,6,7,11,12), and upregulate the expression of MHC I, MHC II and co-stimulatory molecules (9,13). In animal studies, ISS-ODNs exhibit strong Th1 (2,14–18) and mucosal adjuvanticity to a wide range of antigens (2,3,14,19–26) or allergens (27–30). Furthermore, pretreatment with ISS-ODN, even without concomitant administration of the relevant antigens, can afford protection (for about 2 wk) against subsequent infection with intracellular pathogens (31–35), indicating activation of innate immunity.
Anatomical and Functional Results After Arthroscopic Hill-Sachs Remplissage (2012)

Arthroscopic Hill-Sachs remplissage, performed in combination with a Bankart repair, is a potential solution for patients with a large engaging humeral head bone defect but no substantial glenoid bone loss. The posterior capsulotenodesis heals predictably in the humeral defect. The slight restriction in external rotation (approximately 10°) does not significantly affect return to sports, including those involving overhead activities. The procedure, which may also be useful for revision of previous failed glenohumeral instability surgery, is not indicated for patients with glenoid bone deficiency.
Fungal GH25 muramidases: New family members with applications in animal nutrition and a crystal structure at 0.78Å resolution (2021)

Muramidases/lysozymes hydrolyse the peptidoglycan component of the bacterial cell wall. They are found in many of the glycoside hydrolase (GH) families. Family GH25 contains muramidases/lysozymes, known as CH type lysozymes, as they were initially discovered in the Chalaropsis species of fungus. The characterized enzymes from GH25 exhibit both β-1,4-N-acetyl- and β-1,4-N,6-O-diacetylmuramidase activities, cleaving the β-1,4-glycosidic bond between N-acetylmuramic acid (NAM) and N-acetylglucosamine (NAG) moieties in the carbohydrate backbone of bacterial peptidoglycan. Here, a set of fungal GH25 muramidases were identified from a sequence search, cloned and expressed and screened for their ability to digest bacterial peptidoglycan, to be used in a commercial application in chicken feed. The screen identified the enzyme from Acremonium alcalophilum JCM 736 as a suitable candidate for this purpose and its relevant biochemical and biophysical and properties are described. We report the crystal structure of the A. alcalophilum enzyme at atomic, 0.78 Å resolution, together with that of its homologue from Trichobolus zukalii at 1.4 Å, and compare these with the structures of homologues. GH25 enzymes offer a new solution in animal feed applications such as for processing bacterial debris in the animal gut.
Improvement in power quality using hybrid power filters based on robust extended Kalman filter (2018)

This paper presents a Hybrid Active Filter (HAF) used in the distribution network and is required for compensating reactive power in the load end and mitigate harmonics for the improvement of power quality. The compensation process used in this paper reduces number of sensors and also reduces the complication and depends on source current extraction. Initially for extraction of reference currents from harmonics surrounded line current, the Proportional-Integral (PI) or Fuzzy Logic Controller (FLC) is used, which controls the dc-link voltage of the inverter. The HAPF is designed with the use of Voltage Source Inverter (VSI). In this paper, an innovative approach called robust extended Kalman filter (RECKF) is implemented for reference current estimation/calculation using model predictive current (MPC). This RECKF-MPC essentially requires less number of voltage sensors and also overcome the problems associated with PI controllers like gain tuning. The new RECKF with MPC is compared with conventional PI and FLC and observed to be providing better performance to improve the power quality.
FUSION OF SELECTED MULTI-MODAL FEATURES FOR ACCURATE FACE RECOGNITION (2021)

Face recognition is a popular computer vision problem with many areas of application. Different lighting conditions and changing facial expressions are factors that make the face recognition problem difficult. The features extracted by different methods from the face image reflect the different characteristics of the face image. Face recognition process is applied by using these features. In this study, a multi-modal solution to the face recognition problem is presented by fusing the Local Binary Pattern and Felzenszwalb Histogram of Oriented Gradients features, which are frequently used in pattern and texture recognition. Face image is divided into regions and feature vectors are obtained from the regions through both methods. However, by applying feature selection methods to the obtained vectors, both the vector size is reduced and the performance is increased. As a result of the feature selection, the feature subsets selected for both methods are combined into a single feature vector containing spatial and spectral features. Selected features are classified using the Chi-square classifier. The success of the proposed method was measured in the FERET dataset, 89.45% verification success and 94.55% identification success were obtained.
Ero1-Mediated Reoxidation of Protein Disulfide Isomerase Accelerates the Folding of Cone Snail Toxins (2018)

Disulfide-rich peptides are highly abundant in nature and their study has provided fascinating insight into protein folding, structure and function. Venomous cone snails belong to a group of organisms that express one of the largest sets of disulfide-rich peptides (conotoxins) found in nature. The diversity of structural scaffolds found for conotoxins suggests that specialized molecular adaptations have evolved to ensure their efficient folding and secretion. We recently showed that canonical protein disulfide isomerase (PDI) and a conotoxin-specific PDI (csPDI) are ubiquitously expressed in the venom gland of cone snails and play a major role in conotoxin folding. Here, we identify cone snail endoplasmic reticulum oxidoreductin-1 (<i>Conus</i> Ero1) and investigate its role in the oxidative folding of conotoxins through reoxidation of cone snail PDI and csPDI. We show that <i>Conus</i> Ero1 preferentially reoxidizes PDI over csPDI, suggesting that the reoxidation of csPDI may rely on an Ero1-independent molecular pathway. Despite the preferential reoxidation of PDI over csPDI, the combinatorial effect of Ero1 and csPDI provides higher folding yields than Ero1 and PDI. We further demonstrate that the highest in vitro folding rates of two model conotoxins are achieved when all three enzymes are present, indicating that these enzymes may act synergistically. Our findings provide new insight into the generation of one of the most diverse classes of disulfide-rich peptides and may improve current in vitro approaches for the production of venom peptides for pharmacological studies.
7.2: Invited Paper: Quantification and Modulation of Stereopsis in Humans (2018)

Binocular vision in general and stereopsis in particular are fundamental to human vision and visual actions. It is widely thought that about 5% of the population have a lazy eye and lack stereo vision, so it is often supposed that most of the population (95%) have good stereo abilities. We show that this is not the case; 68% have good to excellent stereo (the haves) and 32% have moderate to poor stereo (the have‐nots). Why so many people lack good 3‐D stereo vision is unclear but it is likely to be neural and reversible. Interocular suppression and stereopsis are two important binocular functions. To date, it still remains unclear about the relationship between them. Here, we use the binocular phase combination paradigm and a comparable paradigm to provide a normative dataset for perceptual eye dominance and stereo acuity in 142 normal‐sighted human adults and analyze their correlation. We show that our eye dominance and stereopsis are not strongly correlated in the normalsighted subjects. These results thus support the idea that the binocular phase combination and stereopsis may be limited by different factors in normal‐sighted adults. At present there is no good way of reliably measuring stereopsis in the clinic other than the standard book tests designed for children. These are convenient but coarsely quantized in disparity with no measure of variance. This makes it difficult to be able to assess the significance of differences from visit to visit contingent on therapy. We report an iPod app that has been developed from laboratory studies of normal stereopsis, to measure stereo in the clinic that is not limited by these factors. The application enables measurements over the wide disparity range and not just at the finest disparities. In addition, it allows changes in stereopsis of the order of 1.9 to be statistically distinguished. Luminance plays a modulating role in the processes of several visual tasks, which in turn provides significant information for the understanding of visual processing. To study the relationship between luminance and stereopsis, we manipulated the mean luminance seen by both eyes or the interocular difference in mean luminance by using ND filters placed in front of both eyes or just one eye respectively. We found that disparity processing was little affected by a binocular change in luminance, but was greatly affected by a luminance mismatch between the two eyes. To investigate its origin we manipulated two factors, the temporal synchrony between the two eyes and the interocular contrast. Both factors are implicated in the loss of stereo performance when the mean luminance is different between the eyes, suggesting an underlying explanation in terms of temporal low‐pass filtering resulting in the combination of a luminance‐dependent temporal delay and a luminance‐dependent change in contrast gain. These results add to our knowledge of stereopsis and have therapeutic potential in re‐establishing stereopsis in patients with binocular disorders.
Inflammation-induced lactate leads to the rapid loss of hepatic tissue resident NK cells (2020)

Abstract The liver harbors two main innate lymphoid cell (ILC) populations, conventional NK (cNK) cells and tissue-resident NK (trNK) cells also called ILC1s. While the antiviral functions of cNK cells have been well established, trNK cell functions are only beginning to be uncovered. Using the MCMV model of infection, we found that in contrast to liver cNK cells, the trNK cell population initially undergoes a contraction phase prior to a recovery phase to homeostatic levels. The rapid contraction phase is due to apoptosis, while the recovery phase occurs via proliferation in situ. Liver trNK cell apoptosis is not mediated by fratricide, liver lymphocytes, or inflammatory cytokines. Instead, we found that liver trNK cell apoptosis is the consequence of an increased sensitivity to lactic acid. Interestingly, MCMV infection lead to an increase of lactate in the liver, which was supported by changes in lactate dehydrogenase expression. Mechanistic analysis indicates that trNK cell sensitivity to lactate is linked to impaired mitochondrial functions. These findings underscore the unique properties of the liver resident NK cell compartment.
Patterns of use and perceived value of social media for population health among population health stakeholders: a cross-sectional web-based survey (2021)

Our findings suggest that it may be important to select the specific care areas that would benefit most from using social media. The time investment needed by population health professionals should be fully addressed in planning to maximize the application and potential value of social media.
Eradication of Gram‐Positive and Gram‐Negative Bacteria by Photosensitizers Immobilized in Polystyrene (2012)

Immobilization of photosensitizers in polymers opens prospects for their continuous and reusable application. Methylene blue (MB) and Rose Bengal were immobilized in polystyrene by mixing solutions of the photosensitizers in chloroform with a polymer solution, followed by air evaporation of the solvent. This procedure yielded 15-140 μm polymer films with a porous surface structure. The method chosen for immobilization ensured 99% enclosure of the photosensitizer in the polymer. The antimicrobial activity of the immobilized photosensitizers was tested against Gram-positive and Gram-negative bacteria. It was found that both immobilized photosensitizers exhibited high antimicrobial properties, and caused by a 1.5-3 log10 reduction in the bacterial concentrations to their total eradication. The bactericidal effect of the immobilized photosensitizers depended on the cell concentration and on the illumination conditions. Scanning electron microscopy was used to prove that immobilized photosensitizers excited by white light caused irreversible damage to microbial cells. Photosensitizers immobilized on a solid phase can be applied for continuous disinfection of wastewater bacteria.