gebhart/patrepeval huggingface dataset:
Delta One T Cells for Immunotherapy of Chronic Lymphocytic Leukemia: Clinical-Grade Expansion/Differentiation and Preclinical Proof of Concept (2016)

We provide a clinical-grade method and the preclinical proof of principle for application of a new cellular product, DOT cells, in adoptive immunotherapy of CLL. Clin Cancer Res; 22(23); 5795-804. ©2016 AACR.
Supplementary Legend from Mechanisms and Antitumor Activity of a Binary EGFR/DNA–Targeting Strategy Overcomes Resistance of Glioblastoma Stem Cells to Temozolomide (2023)

&lt;p&gt;Supplementary Legend&lt;/p&gt;
Data driven automatic aperture optimization for Kirchhoff migration (2005)

The migration aperture is a parameter often difficult to set in Kirchhoff PSDM. It may take a lot of tests to determine the best possible aperture for a given dataset. We propose here a method to avoid migration tests and to optimize the aperture with a spatially variable function of data. Our workflow consists first in migrating the data with an aperture class Kirchhoff PSDM algorithm. We obtain a migrated image for each aperture class which we can weight before stacking them. We have developed an algorithm which automatically picks coherent events on the different aperture classes and uses these picks to interpolate, for each depth point, weights for the different aperture classes. This automatic data driven aperture optimization algorithm has been successfully tested on real marine and land datasets. With almost no human interaction it was possible to improve the quality of the migrated images, in some cases in a very significant way.
Common virulence gene expression in adult first-time infected malaria patients and severe cases (2021)

Sequestration of <i>Plasmodium falciparum</i>(<i>P. falciparum</i>)-infected erythrocytes to host endothelium through the parasite-derived <i>P. falciparum</i> erythrocyte membrane protein 1 (<i>Pf</i>EMP1) adhesion proteins is central to the development of malaria pathogenesis. <i>Pf</i>EMP1 proteins have diversified and expanded to encompass many sequence variants, conferring each parasite a similar array of human endothelial receptor-binding phenotypes. Here, we analyzed RNA-seq profiles of parasites isolated from 32 <i>P. falciparum-</i>infected adult travellers returning to Germany. Patients were categorized into either malaria naive (n = 15) or pre-exposed (n = 17), and into severe (n = 8) or non-severe (n = 24) cases. For differential expression analysis, <i>Pf</i>EMP1-encoding <i>var</i> gene transcripts were de novo assembled from RNA-seq data and, in parallel, <i>var-</i>expressed sequence tags were analyzed and used to predict the encoded domain composition of the transcripts. Both approaches showed in concordance that severe malaria was associated with <i>Pf</i>EMP1 containing the endothelial protein C receptor (EPCR)-binding CIDRα1 domain, whereas CD36-binding <i>Pf</i>EMP1 was linked to non-severe malaria outcomes. First-time infected adults were more likely to develop severe symptoms and tended to be infected for a longer period. Thus, parasites with more pathogenic <i>Pf</i>EMP1 variants are more common in patients with a naive immune status, and/or adverse inflammatory host responses to first infections favor the growth of EPCR-binding parasites.
Electrocatalytic Reduction of Peroxodisulfate in 0.5 M NaOH at Copper Electrodes. A Combined Quartz Microbalance and Rotating Ring/Disc Electrode Investigation (1997)

From an electrochemical investigation by means of an electrochemical quartz microbalance, a rotating disc electrode, and a ring/disc electrode, two mechanisms for the reduction of S2O82- became apparent. Besides the well-known outer-sphere cathodic reduction, a catalytic mechanism of S2O82- reduction operates in a potential range between the surface oxide region (≈−0.5 V/SCE) and −1.0 V/SCE. It involves the chemical oxidation of the copper surface to a soluble Cu(I) species. The catalytic mechanism is concluded to result from the specific interaction between S2O82- and the Cu surface modified by the presence of subsurface oxygen.
Thermal analysis - techniques and applications (1992)

The book, which is based on a short course held by the Thermal Analysis Consultancy Service of the University of Leeds, aims to provide an overview of the principal thermal methods and their application in major areas of importance. The instrumental topics covered include: differential thermal analysis (DTA), differential scanning calorimetry (DSC) thermogravimetry (TG), simultaneous TG/DTA/DSC, thermomicroscopy, high temperature X-ray diffraction, evolved gas analysis, thermomechanical analysis, and dynamic mechanical analysis. The potential of the technique of controlled rate thermal analysis is also assessed. A review of the role of quality assurance in the thermal analysis laboratory is included. The book has 16 chapters, one of which assesses the application of thermal analysis methods to fossil fuels and minerals. A short review of sources of information in thermal analysis is given.
Electrical conductivity values used with the bidomain model of cardiac tissue (1997)

Electrical conductivities in the bidomain model of cardiac tissue are expressed as functions of four parameters. These expressions allow simulations to be performed using nominal, equal, and reciprocal anisotropy without introducing undesired effects, such as length constant variations. Relative values of the bidomain conductivities are estimated to be: sigma iL = 1, sigma iT = 0.1, sigma eL = 1, and sigma eT = 0.4.
Automated profiling of individual cell–cell interactions from high-throughput time-lapse imaging microscopy in nanowell grids (TIMING) (2015)

Supplementary data are available at Bioinformatics online.
La agricultura orgánica: Una alternativa para la economía campesina de la globalización (1997)

La agricultura mexicana enfrenta hoy dos retos dificiles que
pueden tener un efecto desestmcturador aun mayor sobre la ya
de por si deteriorada economia campesina de autosuficiencia.
Por un lado se observa un marcado declive de participacion de la actividad agricola en el Producto Interno Bruto del pais, el cual se explica por una caida de la inversion en el campo como resultado de la incertidumbre en el sistema de precios agricolas, falta de apoyo crediticio, de asistencia tecnica y la inseguridad no resuelta en la tenencia de la tierra, aun con las modificaciones al articulo 27 constitucional. El otro reto se refiere al avance del Tratado de Libre Comercio con Canada y Estados Unidos, que al intentar enfrentarnos con dos de los sistemas agricolas mas fuertes del mundo, evidencia nuestra falta de competitividad internacional, al menos en lo que se refiere a costos y precios de los productos basicos.
C3, C5, and factor B bind to chitosan without complement activation (2009)

Chitosan is a polycationic and biocompatible polysaccharide composed of glucosamine and N-acetyl glucosamine that is chemotactic for neutrophils and stimulates wound repair through mechanisms that remain unclear. It was previously shown that chitosan depletes complement proteins from plasma, suggesting that chitosan activates complement. Complement activation leads to cleavage of C5 to produce C5a, a neutrophil chemotactic factor. Here, we tested the hypothesis that chitosan generates C5a in human whole blood, citrated plasma, and serum. C5a fragment appeared in coagulating whole blood, and mixtures of chitosan-glycerol phosphate/whole blood, in parallel with platelet and thrombin activation. However, in plasma and serum, thrombin and chitosan-GP failed to generate C5a, although native C3, C5, and factor B adsorbed noncovalently to insoluble chitosan particles incubated in citrated plasma, serum, EDTA-serum and methylamine-treated plasma. By surface plasmon resonance, pure C3 adsorbed to chitosan. The profile of serum factors associating with chitosan was consistent with a model in which anionic blood proteins with a pI lower than the pK(0) 6.78 of chitosan (the upper limit of chitosan pK(a)) associate electrostatically with cationic chitosan particles. Zymosan, a yeast ghost particle, activated complement in serum and citrated plasma, but not in EDTA-serum or methylamine plasma, to generate fluid-phase C5a, while C3b formed covalent cross-links with zymosan-associated proteins and became rapidly cleaved to iC3b, with factor Bb stably associated. These data demonstrate that chitosan is a nonreactive biomaterial that does not directly activate complement, and provide a novel basis for predicting anionic serum protein-chitosan interactions.
WM 11.8 A NEW QPSK DEMODULATOR FOR DIGITAL DBS RECEIVERS (1992)

authors propose a new QPSK (quadrature phase shift keying) demodulator that is advantageous for use In consumer dlgital DBS (direct broadcast& satellite) receivers. This denadulator features a built-in high speed AFC (autxmatlc irequency control) circuit and a stable PLL (phase locked loop) circuit for carrier recovery. A conputer slmulation on QPSE performance at a symbol rate of 20 Wsydmls/s showed a htgh carrier recovery spced wlthh 0.5 seconds. with a low phase jitter below 2 deg.. under the very poor condition of 22.4 Mllz frequency offset and 2 dB C/n. The
A Review of the Impact of Reflection of Transient Signals on TEM Transmission Lines (2018)

This paper investigates the impact of reflection of transient signals on TEM transmission lines. Firstly, an overview is done to look at transient signal reflections and distortions as well as signal integrity problems and its effect on TEM transmission lines. Considerations are also given to transient signal structure and its characterization, signal integrity and problems associated with it were reviewed. Transmission line effects, cross talk, and impedance mismatch effects on the integrity of signals that move on the transmission lines are analyzed. With high speed digital signal transmission, even the shortest passive printed circuit board tracks suffer from transmission lines effects. It is a widespread belief that all electronic products have the same configuration; there are drivers that output signals to receivers through interconnect. As a transient signal travels down the transmission line two fields are associated with it, the first being magnetic field associated with the current and second being an electric field associated with the voltage. When such signal encounters discontinuity in the characteristic impedance of the TEM line, it reflects backward. The reflection back and forth within the transmission line will translate to standing waves or sustained resonance thereby introducing ISI, inter-symbol interference.
Repair of Spinal Dural Defects with Vicryl (Polyglactin 910) Mesh (1989)

This study examined and compared the effectiveness of woven vicryl (polyglactin 910) mesh and lyophilized cadaver dura (Lyodura) for the repair of spinal dural defects. A woven vicryl mesh was used to repair spinal dural defects in 16 mongrel dogs. As an internal control, all animals had a separate dural incision that was closed with 9-0 vicryl suture. Animals were killed, and results were evaluated at 4, 8, 12, and 24 weeks. The repair of dural defects was achieved in all animals, and there were no cases of pseudo-meningocele formation, cerebrospinal fluid leakage, or postoperative infection. The vicryl mesh served as a latticework for formation of a neodural membrane. Inflammatory or reactive response to vicryl mesh was minimal, and no adhesion to underlying neural structures was noted. The neodural membrane formed in the animals in which lyophilized dura was employed was usually thicker than those in which vicryl mesh was used and was associated with thick arachnoid-neural adhesions in two of eight animals. We believe vicryl mesh is a suitable dural substitute and offers promise for use in clinical situations.
Study of Manifold Geometry Using Multiscale Non-Negative Kernel Graphs (2023)

Modern machine learning systems are increasingly trained on large amounts of data embedded in high-dimensional spaces. Often this is done without analyzing the structure of the dataset. In this work, we propose a framework to study the geometric structure of the data. We make use of our recently introduced non-negative kernel (NNK) regression graphs to estimate the point density, intrinsic dimension, and linearity of the data manifold (curvature). We further generalize the graph construction and geometric estimation to multiple scales by iteratively merging neighborhoods in the input data. Our experiments demonstrate the effectiveness of our proposed approach over other baselines in estimating the local geometry of the data manifolds on synthetic and real datasets.
Characterizing the Influence of Preload Dosing on Percent Signal Recovery (PSR) and Cerebral Blood Volume (CBV) Measurements in a Patient Population with High-Grade Glioma Using Dynamic Susceptibility Contrast MRI (2017)

With DSC-MRI, contrast agent leakage effects in brain tumors can either be leveraged for percent signal recovery (PSR) measurements or be adequately resolved for accurate relative cerebral blood volume (rCBV) measurements. Leakage effects can be dimished by administration of a preload dose before imaging and/or specific postprocessing steps. This study compares the consistency of both PSR and rCBV measurements as a function of varying preload doses in a retrospective analysis of 14 subjects with high-grade gliomas. The scans consisted of 6 DSC-MRI scans during 6 sequential bolus injections (0.05 mmol/kg). Mean PSR was calculated for tumor and normal-appearing white matter regions of interest. DSC-MRI data were corrected for leakage effects before computing mean tumor rCBV. Statistical differences were seen across varying preloads for tumor PSR (<i>P</i> value = 4.57E-24). Tumor rCBV values did not exhibit statistically significant differences across preloads (<i>P</i> value = .14) and were found to be highly consistent for clinically relevant preloads (intraclass correlation coefficient = 0.93). For a 0.05 mmol/kg injection bolus and pulse sequence parameters used, the highest PSR contrast between normal-appearing white matter and tumor occurs when no preload is used. This suggests that studies using PSR as a biomarker should acquire DSC-MRI data without preload. The finding that leakage-corrected rCBV values do not depend on the presence or dose of preload contradicts that of previous studies with dissimilar acquisition protocols. This further confirms the sensitivity of rCBV to preload dosing schemes and pulse sequence parameters and highlights the importance of standardization efforts for achieving multisite rCBV consistency.
Life History of a Marine Dinoflagellate Pyrophacus steinii (Schiller) Wall et Dale (1999)

The life history of a marine dinoflagellate Pyrophacus steinii (Schiller)Wall et Dale was investigated using clonal cultures isolated from Tokyo Bay. The asexual reproduction is binary fission of the eleutheroschisis type. All processes of asexual and sexual cell division occur inside the theca of the mother cells. Sexual reproduction is anisogamous and heterothallic.Male gametes differ from female gametes and vegetative cells in size, shape and plate tabulation. The female gametes can not be differentiated from the vegetative cells. Cell fusion between the male and female gametes occurs within a few hours to several days after inoculation of the male gametes into a culture of a non-male clone. Zygotes are similar to the vegetative cells in shape except possessing two longitudinal flagella. One to two days after plasmogamy, the zygotes become non-motile, and their protoplasts contract. Within 1 to 3 days, following the condensation of protoplast, they transform to hypnozygotes (resting cysts). The specific features of the life cycle can be summerized as: i) the asexual reproduction is eleutheroschisis, ii) sexual fusion occurs after inoculation of the small round thecate cells, which are equivalent to male gametes, into a culture of a non-male clone, iii) male gametes are distinctive from vegetative cells in their smaller size, round shape, fewer plate number and pale chloroplasts, iv) female gametes can not be differentiated from the vegetative cells, v) the sexual life cycle is anisogamous and heterothallic.
MultiViewStereoNet: Fast Multi-View Stereo Depth Estimation using Incremental Viewpoint-Compensated Feature Extraction (2021)

We propose a novel learning-based method for multi-view stereo (MVS) depth estimation capable of recovering depth from images taken from known, but unconstrained, views. Existing MVS methods extract features from each image independently before projecting them onto a set of planes at candidate depths to compute matching costs. By projecting features after extraction, networks must learn rotation and scale invariant representations even though the relative poses of the cameras are known. In our approach, we compensate for viewpoint changes directly in the extraction layers, allowing the network to learn features that are projected by construction and reducing the need for rotation and scale invariance.Compensating for viewpoint changes naively, however, can be computationally expensive as the feature layers must either be applied multiple times (once per depth hypothesis), or replaced by 3D convolutions. We overcome this limitation in two ways. First, we only compute our matching cost volume at a coarse image scale before upsampling and refining the outputs. Second, we incrementally compute our projected features such that the bulk of the layers need only be executed a single time across all depth hypotheses. The combination of these two techniques allows our method to perform competitively with the state-of-the-art, while being significantly faster. We call our method MultiViewStereoNet and release our source code publicly for the benefit of the robotics community.
Tools and strategies for debugging distributed stream processing applications (2009)

Abstract Distributed data stream processing applications are often characterized by data flow graphs consisting of a large number of built‐in and user‐defined operators connected via streams. These flow graphs are typically deployed on a large set of nodes. The data processing is carried out on‐the‐fly, as tuples arrive at possibly very high rates, with minimum latency. It is well known that developing and debugging distributed, multi‐threaded, and asynchronous applications, such as stream processing applications, can be challenging. Thus, without domain‐specific debugging support, developers struggle when debugging distributed applications. In this paper, we describe tools and language support to support debugging distributed stream processing applications. Our key insight is to view debugging of stream processing applications from four different, but related, perspectives. First, debugging the semantics of the application involves verifying the operator‐level composition and inspecting the flows at the logical level. Second, debugging the user‐defined operators involves traditional source‐code debugging, but strongly tied to the stream‐level interactions. Third, debugging the deployment details of the application require understanding the runtime physical layout and configuration of the application. Fourth, debugging the performance of the application requires inspecting various performance metrics (such as communication rates, CPU utilization, etc.) associated with streams, operators, and nodes in the system. In light of this characterization, we developed several tools such as a debugger‐aware compiler and an associated stream debugger , composition and deployment visualizers , and performance visualizers , as well as language support, such as configuration knobs for logging and tracing, deployment configurations such as operator‐to‐process and process‐to‐node mappings, monitoring directives to inspect streams, and special sink adapters to intercept and dump streaming data to files and sockets, to name a few. We describe these tools in the context of Spade —a language for creating distributed stream processing applications, and System S —a distributed stream processing middleware under development at the IBM Watson Research Center. Published in 2009 by John Wiley &amp; Sons, Ltd.
The presenilin protein family member SPE-4 localizes to an ER/Golgi derived organelle and is required for proper cytoplasmic partitioning during Caenorhabditis elegans spermatogenesis (1998)

During Caenorhabditis elegans spermatogenesis, asymmetric partitioning of cellular components principally occurs via ER/Golgi-derived organelles, named fibrous body-membranous organelles. In C. elegans spe-4 mutants, morphogenesis of fibrous body-membranous organelle complexes is defective and spermatogenesis arrests at an unusual cellular stage with four haploid nuclei within a common cytoplasm. The spe-4 encoded integral membrane protein is a diverged member of the presenilin family implicated in early onset Alzheimer's disease. Specific antisera were used to show that SPE-4 resides within the fibrous body-membranous organelles membranes during wild-type spermatogenesis. Several spe-4 recessive mutants were examined for SPE-4 immunoreactivity and a deletion mutant lacks detectable SPE-4 while either of two missense mutants synthesize and localize immunoreactive SPE-4 within their fibrous body-membranous organelles. One of these missense mutations is located within a motif that is common to all presenilins. spe-4 mutants were also examined for other partitioning defects and tubulin was found to accumulate in unusual deposits close to the plasma membrane. These results suggest that wild-type SPE-4 is required for proper localization of macromolecules that are subject to asymmetric partitioning during spermatogenesis.
Urticaria: Current Opinions about Etiology, Diagnosis and Therapy (2007)

In the last few decades an increasing understanding of the pathomechanisms involved in urticaria has highlighted the heterogeneity of different subtypes. According to the new European Academy of Allergology and Clinical Immunology/Global Allergy and Asthma European Network/European Dermatology Forum (EAACI/GA(2)LEN/ EDF) guidelines, urticaria subtypes can be grouped into spontaneous urticaria, which includes acute urticaria and chronic urticaria, the physical urticarias, and other urticaria disorders, including, for example, contact urticaria. Clarity of nomenclature is required not only to choose the correct measures in diagnosis and management, but also to compare data from different studies. Urticaria has a profound impact on quality of life and performance. Effective treatment is thus required in all cases where avoidance of eliciting factors is not feasible. For symptomatic relief, non-sedating H1-antihistamines are the first choice in most subtypes of urticaria; however, double-blind controlled studies have shown that the dosages required may exceed those recommended for other diseases, e.g. allergic rhinitis. The current guidelines therefore suggest increasing the dosage up to four-fold, whereas alternative treatments should be reserved as add-on therapy for unresponsive patients.