gebhart/patrepeval huggingface dataset:
Tables S1-S5; Figures S1-S5 from Development of MGD007, a gpA33 x CD3-Bispecific DART Protein for T-Cell Immunotherapy of Metastatic Colorectal Cancer (2023)

&lt;p&gt;Supplementary Table 1: Sixteen-locus STR analysis of tumor tissue and banked CSLC lines Supplementary Table 2: CSLC derivation and characteristics Supplementary Table 3: Immunohistochemical Analysis of Colorectal Cancer Tumor Specimens Supplementary Table 4: Equilibrium Dissociation Constants (KD) for Binding of MGD007 to Human CD3 or gpA33 Supplementary Table 5: MGD007 Pharmacokinetic Parameters Derived from Two-compartment Analysis in Cynomolgus Monkeys Supplementary Figure 1: In vitro CSLC differentiation in MatrigelTM 3D cultures Supplementary Figure 2: RECA47 mAb binding restricted to intestinal epithelium Supplementary Figure 3: MGD007 Flow Cytometry Analyses on Tumor Cell Lines Supplementary Figure 4: Expanded Treg population exhibits suppressive T-cell properties Supplementary Figure 5: Cytokine Levels in Monkeys Following Treatment with MGD007&lt;/p&gt;
ATRT-23. THE DUAL mTORC1/2 INHIBITOR SAPANISERTIB DISRUPTS THE NRF2-MEDIATED STRESS RESPONSE AND COMBINES SYNERGISTICALLY WITH THE BH3 MIMETIC OBATOCLAX TO EXTEND AT/RT SURVIVAL (2020)

Abstract Atypical teratoid/rhabdoid tumors are aggressive infantile tumors highly resistant to intensive therapies. We aim to identify and target critical factors driving this therapy resistance to improve AT/RT survival. Analysis of publically available RNASeq on 32 AT/RT identified elevated expression of NRF2 (median expression 40.78, normal brain 18.81). NRF2 is a master regulator of cell’s stress response whose expression is correlated with therapy resistance and poor survival. NRF2 activation is sensitive to mTOR activity and is a biomarker predicting response to the dual mTORC1/2 inhibitor, Sapanisertib (TAK228, INK128). We performed RNASeq on 4 human-derived AT/RT cell models after Sapanisertib treatment. Pathway analysis reveals disruption of the NRF2-mediated stress response (-log p value 0.39, Z-score 1.0). As a result, Sapanisertib decreases ROS scavengers like glutathione (Metabolite analysis UHPLC-MS, t-test p&amp;lt;0.05) and induces a pro-death phenotype (decreased MCL-1 expression, western blot; gene-expression analysis, RNASeq). The brain-penetrant BH3 mimetic Obatoclax increases ROS generation and induces apoptosis (MUSE oxidative stress and ANNEXIN V assays, t-test p&amp;lt;0.05). These complementary mechanisms of action synergize to induce high rates of cell death (MUSE ANNEXIN V assay, ANOVA p&amp;lt;0.05, C-PARP western blot, Compusyn Synergy analysis CI&amp;lt;1.0) and slow cell growth (MUSE Cell viability, ANOVA p&amp;lt;0.05). Once-weekly treatments of Sapanisertib combined with Obatoclax in orthotopic mouse models of AT/RT are well tolerated, slow tumor growth (bioluminescence imaging) and significantly extend median survival from 35 to 55 days (Log-rank p&amp;lt;0.05). These findings support a new clinical trial aimed at improving AT/RT survival.
Artificial intelligence and digital health in global eye health: opportunities and challenges (2023)

Global eye health is defined as the degree to which vision, ocular health, and function are maximised worldwide, thereby optimising overall wellbeing and quality of life. Improving eye health is a global priority as a key to unlocking human potential by reducing the morbidity burden of disease, increasing productivity, and supporting access to education. Although extraordinary progress fuelled by global eye health initiatives has been made over the last decade, there remain substantial challenges impeding further progress. The accelerated development of digital health and artificial intelligence (AI) applications provides an opportunity to transform eye health, from facilitating and increasing access to eye care to supporting clinical decision making with an objective, data-driven approach. Here, we explore the opportunities and challenges presented by digital health and AI in global eye health and describe how these technologies could be leveraged to improve global eye health. AI, telehealth, and emerging technologies have great potential, but require specific work to overcome barriers to implementation. We suggest that a global digital eye health task force could facilitate coordination of funding, infrastructural development, and democratisation of AI and digital health to drive progress forwards in this domain.
“My Way of Telling a Story”: Persona based Grounded Story Generation (2019)

Visual storytelling is the task of generating stories based on a sequence of images. Inspired by the recent works in neural generation focusing on controlling the form of text, this paper explores the idea of generating these stories in different personas. However, one of the main challenges of performing this task is the lack of a dataset of visual stories in different personas. Having said that, there are independent datasets for both visual storytelling and annotated sentences for various persona. In this paper we describe an approach to overcome this by getting labelled persona data from a different task and leveraging those annotations to perform persona based story generation. We inspect various ways of incorporating personality in both the encoder and the decoder representations to steer the generation in the target direction. To this end, we propose five models which are incremental extensions to the baseline model to perform the task at hand. In our experiments we use five different personas to guide the generation process. We find that the models based on our hypotheses perform better at capturing words while generating stories in the target persona.
Bone Graft Incorporation in Radiographically Successful Human Intervertebral Body Fusion Cages (2001)

Autogenous bone graft was incorporated in these radiographically successful human intervertebral body fusion cages. A few debris particles were observed, but there was no histologic evidence of particle-induced bone resorption or inflammation.
Bile: miRNA pattern and protein-based biomarkers may predict acute cellular rejection after liver transplantation (2016)

Analysis of secretome and miRNA in bile could improve our understanding of the local inflammatory process during rejection.
Element‐specific detectors for highpressure liquid chromatography (HPLC): acomputerized, automated HPLC‐graphitefurnace atomic absorption system (1987)

A/D, 8-bit, ADC0800 Counter, 4-bit, 74LS 160 Decoder, to
Securing Split Manufactured ICs with Wire Lifting Obfuscated Built-In Self-Authentication (2017)

Hardware Trojan insertion and intellectual property (IP) theft are two major concerns when dealing with untrusted foundries. Most existing mitigation techniques are limited in protecting against both vulnerabilities. Split manufacturing is designed to stop IP piracy and IC cloning, but it fails at preventing untargeted hardware Trojan insertion and incurs significant overheads when high level of security is demanded. Built-in self-authentication (BISA) is a low cost technique for preventing and detecting hardware Trojan insertion, but is vulnerable to IP piracy, IC cloning or redesign attacks, especially on original circuitry. In this paper, we propose an obfuscated built-in self-authentication (OBISA) technique that combines and optimizes both technique so that they complement and improve security against both vulnerabilities. Performance of the proposed OBISA technique is presented with experimental implementation on same benchmark circuits as used in the existing wire lifting technique. The security performance is evaluated with the most popular split manufacturing security metrics.
Fourier-domain beamforming: the path to compressed ultrasound imaging (2014)

Sonography techniques use multiple transducer elements for tissue visualization. Signals received at each element are sampled before digital beamforming. The sampling rates required to perform high-resolution digital beamforming are significantly higher than the Nyquist rate of the signal and result in considerable amount of data that must be stored and processed. A recently developed technique, compressed beamforming, based on the finite rate of innovation model, compressed sensing (CS), and Xampling ideas, allows a reduction in the number of samples needed to reconstruct an image comprised of strong reflectors. A drawback of this method is its inability to treat speckle, which is of significant importance in medical imaging. Here, we build on previous work and extend it to a general concept of beamforming in frequency. This allows exploitation of the low bandwidth of the ultrasound signal and bypassing of the oversampling dictated by digital implementation of beamforming in time. By using beamforming in frequency, the same image quality is obtained from far fewer samples. We next present a CS technique that allows for further rate reduction, using only a portion of the beamformed signal's bandwidth. We demonstrate our methods on in vivo cardiac data and show that reductions up to 1/28 of the standard beamforming rates are possible. Finally, we present an implementation on an ultrasound machine using sub-Nyquist sampling and processing. Our results prove that the concept of sub-Nyquist processing is feasible for medical ultrasound, leading to the potential of considerable reduction in future ultrasound machines' size, power consumption, and cost.
High-performance photodetectors based on two-dimensional perovskite crystals with alternating interlayer cations (2023)

Organic-inorganic halide perovskite, as a low-cost, solution-processable material with remarkable optoelectronic properties, is ideal candidate to fabricate high-performance photodetectors and is expected to significantly reduce device costs. Compared to the common Dion-Jacobson and Ruddlesden-Popper two-dimensional (2D) layered hybrid perovskite compounds, the perovskites with alternating cations in the interlayer (ACI) phase show higher crystal symmetry and narrower optical bandgaps, which exhibit great potential for excellent photodetection performance. Herein, we report a high-performance photodetector based on the 2D bilayered hybrid lead halide perovskite single crystal with the ACI phase (GAMA2Pb2I7; GA = C(NH2)3 and MA = CH3NH3). The single-crystal photodetector exhibits high photoresponsivity of 1.56, 2.54, and 2.60 A/W for incident light wavelengths of 405, 532, and 635 nm under 9.82 nW, respectively, together with the correspondingly high detectivity values of 1.86 × 1012, 3.04 × 1012, and 3.11 × 1012 Jones under the same operating conditions. Meanwhile, a high-resolution imaging sensor is built based on the GAMA2Pb2I7 single-crystal photodetector, confirming the high stability and photosensitivity of the imaging system. These results show that the 2D hybrid lead halide perovskites with alternating interlayer cations are promising for high-performance visible light photodetectors and imaging systems.
Forward Collision Warning Requirements Project. Task 4 Final Report (2005)

Drivers’ last-second braking and last-second steering judgments have been studied extensively by the Crash Avoidance Metrics Partnership (CAMP) Forward Collision Warning (FCW) Requirements project. This previous work was conducted under closed-course conditions using a realistic surrogate target lead vehicle. In the current research, a subset of these tests involving more than 4000 individual test runs has been replicated in the National Advanced Driving Simulator (NADS) facility for comparison purposes. The major conclusions from this research are as follows: (1) Scenarios need to pay careful attention to ensure initial headway conditions prior to the critical approach event correspond to those that are typically experienced in real world driving. More generally, scenarios should have real-world validation. (2) Scenarios should emphasize high lead vehicle decelerations. The 0.39-g deceleration levels gave the best results and have been used in previous CAMP surprise trial research. (3) Scenarios should emphasize cases where the relative speed differential is high, particularly when the lead vehicle is stationary. (4) Scenarios should emphasize last-second hard braking or hard steering over last-second “normal” maneuvers. (5) Crash rates should not be used as a metric, and instead, attention should be focused on the interpretation of last-second maneuver onset behavior.
Phosphorothioate Antisense Oligonucleotides Bind P-Body Proteins and Mediate P-Body Assembly (2019)

Antisense oligonucleotides (ASOs) regulate gene expression by binding to complementary target RNA, and ASOs can be designed to take advantage of a growing array of post RNA binding molecular mechanisms. Intracellular trafficking of ASOs influences their efficacy. We have identified a number of membrane-less structures in the nucleus, nucleolus, and cytoplasm where phosphorothioate-modified ASOs (PS-ASOs) accumulate and have shown that PS-ASOs can induce the formation of new nuclear structures such as PS-bodies and paraspeckle-like structures. In this study, we report that PS-ASOs can localize to cytoplasmic processing bodies (P-bodies) and increase the number of P-bodies in cells. The antisense activity of PS-ASOs was not affected by the absence of essential P-body assembly proteins DDX6 and LSm14A. Moreover, the effects of PS-ASOs on P-body assembly were independent of their antisense activities. The phosphorothioate modification stabilizes the association between ASOs and cellular proteins and is essential for the P-body localization of ASOs. Since PS-ASOs bind to major P-body components, PS-ASOs may serve as scaffolds for P-body formation. Taken together, these results indicate that interactions of PS-ASO with proteins, rather than antisense activities, are essential for the dynamic interplay between PS-ASOs and P-bodies.
Intermolecular Charge Transfer between Heterocyclic Oligomers. Effects of Heteroatom and Molecular Packing on Hopping Transport in Organic Semiconductors (2005)

For electron or hole transfer between neighboring conducting polymer strands or oligomers, the intrinsic charge-transfer rate is dictated by the charge-resonance integral and by the reorganization energy due to geometric relaxation. To explain conduction anisotropy and other solid-state effects, a multivariate, systematic analysis of bandwidth as a function of intermolecular orientations is undertaken for a series of oligoheterocycles, using first-principles methods. While cofacial oligomers show the greatest bandwidths at a given intermolecular C-C contact distance, for a fixed center-to-center intermolecular distance, tilted pi-stacking increases pi-overlap (particularly for LUMO orbitals) and decreases electrostatic repulsion, yielding optimum tilt angles for packing of approximately 40-60 degrees at small intermolecular separations. The calculations also reveal that bandwidths and intrinsic mobilities of holes and electrons in conjugated oligoheterocycles can be quite comparable.
High Speed Motion Control Method of Industrial Robot Based on Dynamic Torque Compensation and Two-Degrees-of-Freedom Control System (2003)

This paper proposes a realization of motion control based on dynamic torque compensation and two-degrees-of-freedom speed control system. In order to suppress the dynamic torque of robot manipulator quickly, this paper constructs the feedforward torque compensation method based on inverse dynamics calculation on each joint control system.Moreover, the proposed joint control system is constructed by the robust control system based on the state feedback, PI speed controller and feedforward controller.The proposed method can suppress the influence of inertia variation and torsional vibration of joint system quickly and completely.The simulation results and experimental results show that the proposed system well regulates the motion of multi-joint robot and suppresses the torsional vibration.
MODELING THE CUMULATIVE DISTRIBUTION FUNCTION OF SPIKES IN NEURAL NETWORKS (2004)

Important components of neural networks are input synapses, action potential generators and output synapses. Rather than modeling a whole neuron in terms of a few ionic channels or as having Hodgkin–Huxley, Morris–Lecar or FitzHugh–Nagumo dynamics, we describe a neuron's action potential generator (APG). An APG may be at the hillock region at the base of an axon or another specific region of a cell. We model it using bifurcation theory based on observations by A. F. Hodgkin about membrane excitability. The result is a simplified model that leads us to view a neural network as comprising input and output synapses (electrical or chemical) that network APGs. These centers of activity are coupled by transfer functions from input synapses to an APG and from an APG to output synapses. The transfer functions account for time delays and signal attenuation that result from input and output structures. While this falls far short of a complete biophysical model of specific neurons in a network, it is consistent with empirical data, it is easily formulated, it is analytically tractable, and computer simulations based on it are straightforward. One outcome is a precise description of the cumulative distribution function (CDF) of action potentials. Since records of cell firing amount to collections of CDFs, the model is for a variable that is accessible to experimental observation. This methodology is applied here to describe bursting neural circuits and embedded loop networks similar to those occurring in basal ganglia.
Tuning a Spin Bath through the Quantum-Classical Transition (2012)

We study decoherence of a single nitrogen-vacancy (NV) center induced by the 13C nuclear spin bath of diamond. By comparing Hahn-Echo experiments on single and double-quantum transitions of the NV triplet ground state we demonstrate that this bath can be tuned into two different regimes. At low magnetic fields, the nuclei behave as a quantum bath which causes decoherence by entangling with the NV central spin. At high magnetic fields, the bath behaves as a source of classical magnetic field noise, which creates decoherence by imprinting a random phase on the NV central spin.
Repetition blindness between words: Nature of the orthographic and phonological representations involved. (1994)

Repetition Blindness (RB) is the failure to recall the 2nd instance of a rapidly presented word. Five experiments investigated the orthographic and phonological representations involved in RB. Exps 1 and 2 found that the RB effect between orthographic neighbors is modulated by the relative frequency of the words, but not their absolute frequency. Exp 3 showed that the reduced RB effect between neighbors as compared with identical words is due to the reduced orthographic overlap, not to a lack of morphological or semantic overlap. Exps 4 and 5 showed that the RB effect occurs between phonologically related items, and that phonological and frequency properties of the target's orthographic neighbors affect the size of the effect. It is concluded that orthographic RB and phonological RB are sensitive to the target's neighborhood organization and arise from similar mechanisms, but at different stages of processing.
Data Supplement from HSV-sr39TK Positron Emission Tomography and Suicide Gene Elimination of Human Hematopoietic Stem Cells and Their Progeny in Humanized Mice (2023)

&lt;p&gt;Supplementary Video 1. This is a 3D reconstruction of a 250uCi 18F-FHBG PET/CT scan of an ESO/TK mouse 3h after conscious uptake. Notable areas of uptake are the long bones of the arms and legs, sternum, spine, and thymus.&lt;/p&gt;
Comparison of total immunoglobulin A levels in different samples in Leghorn and broiler chickens (2016)

To standardize an ELISA protocol to quantify total immunoglobulin A (IgA) from different biological samples. Two independent experiments were conducted. In Experiment 1, total IgA levels were quantified from the lachrymal fluid, tracheal swab, and cloacal swab at various time points from Days 30 to 89 in white Leghorn chickens. Experiment 2 was conducted to evaluate the effect of 50 or 500 ppb of aflatoxin B1 (AFB1) on total IgA quantified in samples from the lachrymal fluid, tracheal swab, gut content and cloacal swab in broiler chickens at 21 days of age. Lachrymal fluid contained the highest level of IgA; however, the sampling procedure was time consuming and stressful to the bird, and the sample volume depends largely on the size of the chicken. Cloacal swabs also contained a high concentration of IgA; this sampling procedure was faster than lachrymal fluid sampling and was not affected by the age of the bird. Tracheal sampling was more difficult than cloacal sampling; the age of the bird limited the sampling, and the IgA concentration was the lowest detected at all sampling ages. 500 ppb of AFB1 significantly reduced total IgA concentration in the gut content compared with control or 50 ppb of AFB1 treated groups. Interestingly, a significant reduction in total IgA was also observed in those chickens that received 50 ppb of AFB1 in gut rinse when compared with cloacal swabs. The results of this study suggest that cloacal swab is an easy and reliable way to evaluate mucosal IgA concentration in both Leghorn and broiler chickens.
100-Gb/s Fiber–Wireless System in 100-GHz Band Using 64-QAM OFDM Signal Transmission (2021)

We demonstrate a seamless fiber–wireless system in the W-band using optical self-heterodyne method for up-conversion of an optical signal to a millimeter-wave signal at 100 GHz. We transmit a high-spectral efficiency 64-quadrature amplitude modulation orthogonal frequency division-multiplexing signal over the system and achieve a transmission capacity of approximately 100 Gb/s over a single channel. We evaluate the performance of the system with and without using a power amplifier at the antenna site and confirm that the nonlinear distortion of the amplifier significantly degrades the signal performance. The proposed system is promising for high-capacity, low-latency, and low-power consumption mobile transport and access networks in beyond 5G era.
Multimodal optical spectrometers for remote chemical detection (2005)

We have developed a class of aperture coding schemes for Remote Raman Spectrometers (RRS) that remove the traditional trade-off between throughput and spectral resolution. As a result, the size of the remote interrogation region can be driven by operational, rather than optical considerations. We present theoretical arguments on the performance of these codes and present data from where we have utilized these codes in other spectroscopy efforts.
The Relationship of Retinal Vessel Caliber With Erectile Dysfunction in Patients With Type 2 Diabetes (2013)

Narrower retinal arteriolar and wider venular diameter are independently associated with an increased risk of self-reported ED. These results suggest a microvascular component in the pathogenesis of this condition.