gebhart/patrepeval huggingface dataset:
Medicinal Chemistry: From Targets to Therapies (2019)

ADVERTISEMENT RETURN TO ISSUEEditorialNEXTMedicinal Chemistry: From Targets to TherapiesBruce E. MaryanoffBruce E. MaryanoffMore by Bruce E. Maryanoffhttp://orcid.org/0000-0003-3590-2357 and Peter WipfPeter WipfMore by Peter Wipfhttp://orcid.org/0000-0001-7693-5863Cite this: ACS Med. Chem. Lett. 2019, 10, 7, 1014Publication Date (Web):July 11, 2019Publication History Published online11 July 2019Published inissue 11 July 2019https://pubs.acs.org/doi/10.1021/acsmedchemlett.9b00244https://doi.org/10.1021/acsmedchemlett.9b00244editorialACS PublicationsCopyright © 2019 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views2149Altmetric-Citations1LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (261 KB) Get e-Alertsclose Get e-Alerts
AUTOMATED WORKFLOW TO INDICATE RESERVOIR CONNECTIVITY THROUGH ASPHALTENE EQUILIBRIUM (2021)

The evaluation of downhole fluid analysis (DFA) measurements of asphaltene gradients provides the ability to determine the extent of asphaltene equilibrium and the operative reservoir fluid geodynamics (RFG) processes. Typically, equilibrium of reservoir fluids indicates reservoir connectivity, a primary concern in field development planning. Currently, the modeling of asphaltene gradients is done through the manual evaluation of the DFA optical density gradients. The optical density measurements are fit to an equation of state (EOS), such as the Flory-Huggins-Zuo EOS, and evidence for asphaltene equilibrium is concluded if the inferred asphaltene diameter corresponds to that of the Yen-Mullins model for asphaltene composition. In this work, we present an automated Bayesian algorithm that proposes multiple hypotheses for the state of asphaltene equilibrium. The proposed hypotheses honor DFA measurements; physical models for asphaltenes in equilibrium, such as the Yen-Mullins model; and prior domain knowledge of the reservoir, such as geological layers, faults, and flow units. The leading hypotheses are reported, and evidence for or against asphaltene equilibrium is concluded from inferred quantities. Our proposed method provides a faster way for domain experts to explore different reservoir realizations that honor the theory of asphaltenes gradients and previous knowledge about the reservoir. We verify our novel method on three case studies that are undergoing different RFG processes through comparison of the interpretation done by domain experts. While there are many reservoir complexities associated with each case study, we focus on whether the underlying RFG process corresponds to the asphaltenes in equilibrium. The first case study is a light oil reservoir in the Norwegian North Sea that is mostly in fluid equilibrium with exceptions at the flanks. The second case study is a black oil reservoir that has undergone a fault block migration after the reservoir fluids had a chance to achieve equilibrium. The last case study is a black oil reservoir in quasi-equilibrium due to biodegradation in the lower portion of the well.
Leveraging advances in mobile broadband technology to improve environmental sustainability (2017)

Advances in mobile access broadband technology have a high potential to improve environmental sustainability both directly by enabling novel network deployment concepts and indirectly by changing the way people live and work. In this paper, improvements of the network topology enabled by ubiquitous broadband access are investigated. It is shown that a joint deployment of macro- and publicly accessible residential picocells can reduce the total energy consumption by up to 70% in urban areas. In addition the high potential of indirect effects of improving telecommunication networks, such as enabling teleworking and replacing business travel through video conferencing, is demonstrated and compared with the direct effects. Copyright 2008 Holger Claussen, Lester T. W. Ho, and Florian Pivit. No part of this article may be reproduced by any means without the written consent of the publisher.
Tracking Tensor Subspaces with Informative Random Sampling for Real-Time MR Imaging (2016)

Magnetic resonance imaging (MRI) nowadays serves as an important modality for diagnostic and therapeutic guidance in clinics. However, the {\it slow acquisition} process, the dynamic deformation of organs, as well as the need for {\it real-time} reconstruction, pose major challenges toward obtaining artifact-free images. To cope with these challenges, the present paper advocates a novel subspace learning framework that permeates benefits from parallel factor (PARAFAC) decomposition of tensors (multiway data) to low-rank modeling of temporal sequence of images. Treating images as multiway data arrays, the novel method preserves spatial structures and unravels the latent correlations across various dimensions by means of the tensor subspace. Leveraging the spatio-temporal correlation of images, Tykhonov regularization is adopted as a rank surrogate for a least-squares optimization program. Alteranating majorization minimization is adopted to develop online algorithms that recursively procure the reconstruction upon arrival of a new undersampled $k$-space frame. The developed algorithms are {\it provably convergent} and highly {\it parallelizable} with lightweight FFT tasks per iteration. To further accelerate the acquisition process, randomized subsampling policies are devised that leverage intermediate estimates of the tensor subspace, offered by the online scheme, to {\it randomly} acquire {\it informative} $k$-space samples. In a nutshell, the novel approach enables tracking motion dynamics under low acquisition rates `on the fly.' GPU-based tests with real {\it in vivo} MRI datasets of cardiac cine images corroborate the merits of the novel approach relative to state-of-the-art alternatives.
Immunogram to decipher PD1/L1 ICI resistance: a proof of concept in advanced Non-small cell lung cancer patients of the PIONeeR Project (2019)

International audience
Comprehension Based Question Answering using Bloom’s Taxonomy (2021)

Current pre-trained language models have lots of knowledge, but a more limited ability to use that knowledge. Bloom's Taxonomy helps educators teach children how to use knowledge by categorizing comprehension skills, so we use it to analyze and improve the comprehension skills of large pre-trained language models. Our experiments focus on zero-shot question answering, using the taxonomy to provide proximal context that helps the model answer questions by being relevant to those questions. We show targeting context in this manner improves performance across 4 popular common sense question answer datasets.
Targeting of a platinum-bound sunitinib analog to renal proximal tubular cells (2012)

Multikinase inhibitors like sunitinib can be of benefit in the treatment of fibrotic diseases, provided that their safety can be improved by strategies as presented in this paper, and sustained renal levels can be achieved.
Abstract 2984: Optical-resolution Photoacoustic Microscopy: a Novel Imaging Modality Capable of Noninvasively Measuring Brain Oxygen Metabolism at the Microvascular Level during Focal Ischemia (2012)

Studying oxygen metabolism during brain ischemia has been limited by imaging modalities that have either low resolution but good tissue penetration, or high resolution requiring invasive preparations (open-skull windows). Here, we report a study of cerebrovascular oxygen metabolism in mouse focal ischemia using a novel minimally invasive, high-resolution technique known as optical-resolution photoacoustic microscopy (OR-PAM). Using OR-PAM, we serially imaged cortical vessels through the intact skull of Swiss Webster mice (n=3) before, during, and up to 72 hrs after a 1-hr intraluminal transient middle cerebral artery occlusion (MCAO). Vessels were imaged at 2 different wavelengths (532 &amp; 563 nm) to quantify oxy-, deoxy-hemoglobin and oxygen saturation (sO 2 , Fig , A-C). Oxygen extraction fraction (OEF) was calculated from venous sO 2 values (assuming a constant arterial sO 2 of 95%). Seventy-two hrs after ischemia, animals were sacrificed and whole brains were stained with TTC to delineate infarct at the cortical surface (D). Arterioles were easily distinguished from venules in baseline images (A, mean arterial sO 2 , 87%; mean venous sO 2 , 76%). During MCAO, mean arteriolar sO 2 values did not change; however, venular sO 2 decreased precipitously (B, E), greater in regions that went on to infarct (45±2%) compared to surrounding regions (52±2%, p&lt;0.001). Three and 7 hrs after reperfusion, venous sO 2 slowly recovered but not back to baseline levels. Twenty-four (C) and 72 hrs after reperfusion, venous sO 2 in regions of infarction increased above baseline (83%), approaching arterial sO 2 values of 90%, while venous sO2 in peri-infarct regions (71%) returned near baseline levels of 76% (E). OEF increased from 18% to 55% in regions of eventual infarction, during MCAO; following reperfusion, OEF progressively dropped below baseline levels (12%). In surrounding surviving tissue, OEF returned close to baseline levels (24%) following reperfusion (F). OR-PAM is capable of measuring oxygen metabolism at high resolution during focal ischemia. Consistent with previous PET studies in human stroke, we found OEF increased during acute ischemia; however, OEF remained elevated (above baseline values) after reperfusion, suggesting that injured tissue may have increased oxygen metabolism. OEF gradually decreased below baseline values in infarcted tissue, but returned to near-baseline values in viable peri-infarct regions.
MODELLING DECISION MAKING USING IMMEDIATE PROBABILITIES (1996)

Abstract In this paper we provide a model of how a decision maker incorporates payoffs, event probabilities, and his level of optimism to select an alternative. We present a new decision making method that combines decision making under uncertainty with decision making under risk. We introduce a new concept of immediate probabilities for use by decision makers in selecting alternatives. We discuss the role of the decision maker's level of optimism in transforming probabilities into immediate probabilities to be used for a decision. We show how the Ordered Weighted Averaging (OWA) operators play a central role in this modification. We also provide a procedure to learn OWA structures and the decision maker's level of confidence from previous decisions and we show how this information can be used for new decisions. INDEX TERMS: Uncertaintydecision makingriskordered weighted averagingprobabilityimmediate probability Additional informationNotes on contributorsKURT J. ENGEMANN Kurt J. Engemann (Ph.D., New York University, Operations Research) is Chairman and Professor of Management Science and Systems at the Hagan School of Business at lona College. Dr. Engemann's main areas of teaching interest are computer based decision modeling, simulation, data analysis, optimization, and information systems. He actively consults, presents executive seminars, and speaks at professional conferences. His research includes publications in modeling decision making and risk management.
Exchange Rates’ Change by Using Economic Data with Artificial Intelligence and Forecasting the Crisis (2019)

Artificial neural networks have recently been widely used in the field of finance as well as in every field. Exchange rates and gold prices are vital for banks, stock exchanges and businesses. Therefore, it is important for such organizations to make accurate estimates of foreign exchange and gold exchange rates. There are many studies that can affect and predict gold prices and exchange rates in the literature review. In this study, it is aimed that the fluctuation in foreign exchange and gold exchange rate can be estimated by using artificial intelligence methods and the forecast results can be used in predicting crisis. In the study, monthly data between 2006 and 2018 were used for USDTRY exchange rate estimation. External factors that may affect the USDTRY exchange rate are added as an independent variable. BIST100 index data, US inflation data, inflation data for Turkey, Turkey American interest data and interest data were used as external factors. Monthly data between 2000 and 2018 were used to estimate gold prices. External factors that may affect gold prices are added as an independent variable. BIST100 index data, silver data, USDTRY exchange rate data and US inflation data were used as external factors. Annual data between the years 2000 and 2018 are used for the forecasting of the crisis. External factors that can trigger the crisis are added as arguments. USDTRY data rate, inflation data for Turkey, and Turkey import data rate data are used as external factors.
A Case against Spiral Ligament Atrophy as a Cause of Ménière’s Disease (2002)

The etiology of Ménière's disease and endolymphatic hydrops has been very difficult to determine. In order to develop rational therapies for patients with Ménière's disease the etiology needs to be established. In the current study an examination was made of the spiral ligament in temporal bones from individuals with Ménière's and endolymphatic hydrops and normal control temporal bones. No evidence of atrophy in either the length or width or the fibrocyte cell density was seen in the temporal bones with Ménière's disease. The role of the spiral ligament in the development of endolymphatic hydrops is still unclear.
The Centrality of Chemistry (2015)

ADVERTISEMENT RETURN TO ISSUEEditorialNEXTThe Centrality of ChemistryCarolyn R. BertozziView Author Information Department of Chemistry, HHMI/UC Berkeley Stanford University (*effective April 1, 2015)E-mail: [email protected]Cite this: ACS Cent. Sci. 2015, 1, 1, 1–2Publication Date (Web):March 23, 2015Publication History Published online23 March 2015Published inissue 25 March 2015https://doi.org/10.1021/acscentsci.5b00090Copyright © 2022 American Chemical Society. This publication is licensed under these Terms of Use. Request reuse permissions This publication is Open Access under the license indicated. Learn MoreArticle Views7592Altmetric-Citations6LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (748 KB) Get e-AlertscloseSUBJECTS:Biology,Chemical engineering and industrial chemistry,Quality management Get e-Alerts
Contouring control of machine tool feed drive systems: a task coordinate frame approach (2001)

We show that contouring performance can be viewed as a regulation problem in a moving task coordinate frame that is attached to the desired contour. By transforming the machine tool feed drive dynamics to this task coordinate frame, a control law is designed to assign different dynamics to the tangential and normal directions. The transformation also illustrated the effect of contour curvature and feed rate in the control action as well as the system dynamics in the task coordinate frame. The resulting control law consists of a linear time-varying proportional-plus-derivative (PD) position error feedback control law and a linear time invariant trajectory feedforward control law. Experimental results of the proposed control law on the motion axes of a machining center, Matsuura MC510V, showed significant improvement of the contouring accuracy compared to the existing servo controller as well as the successful decoupling between the tangential dynamics and the normal (contouring) dynamics for feedrate up to 6 m/min (4 in/s).
Multiple biopsy probe sampling enabled minimally invasive electrical impedance tomography (2008)

Biopsies are a reliable method for examining tissues and organs inside the body, in particular for detection of tumors. However, a single biopsy produces only limited information on the site from which it is taken. Therefore, tumor detection now employs multiple biopsy samplings to examine larger volumes of tissue. Nevertheless, even with multiple biopsies, the information remains discrete, while the costs of biopsy increase. Here we propose and evaluate the feasibility of using minimally invasive medical imaging as a means to overcome the limitations of discrete biopsy sampling. The minimally invasive medical imaging technique employs the biopsy probe as electrodes for measurements of electrical impedance tomography relevant data during each biopsy sampling. The data from multiple samplings are combined and used to produce an EIT image of the tissue. Two- and three-dimensional mathematical simulations confirm that the minimally invasive medical imaging technique can produce electrical impedance tomography images of the tissues between the biopsy probe insertion sites. We show that these images can detect tumors that would be missed with multiple biopsy samplings only, and that the technique may facilitate the detection of tumors with fewer biopsies, thereby reducing the cost of cancer detection.
A pyroelectric infrared biometric system for real-time walker recognition by use of a maximum likelihood principal components estimation (MLPCE) method (2007)

This paper presents a novel biometric system for real-time walker recognition using a pyroelectric infrared sensor, a Fresnel lens array and signal processing based on the linear regression of sensor signal spectra. In the model training stage, the maximum likelihood principal components estimation (MLPCE) method is utilized to obtain the regression vector for each registered human subject. Receiver operating characteristic (ROC) curves are also investigated to select a suitable threshold for maximizing subject recognition rate. The experimental results demonstrate the effectiveness of the proposed pyroelectric sensor system in recognizing registered subjects and rejecting unknown subjects.
Thermal Characteristics of Mirror-Based Optical Redistribution for Co-Packaged Optics (2023)

Because traffic toward and inside datacenters is increasing, the power consumption of electrical wiring in ethernet switches for datacenter should be addressed. Co-packaged optics (CPO) is a promising solution, where optical components are integrated into the same package substrate as electrical elements. We have proposed one of the CPO modules, where micro-mirror- based optical redistribution is adopted for low-loss and broadband optical coupling. CPO is required to operate at high temperatures; however, this redistribution uses materials with different coefficients of thermal expansion; thus, there is concern about its operation. In this study, the thermo-optical characteristics in the C-band were analyzed by the finite element method for thermal deformation and physical optical propagation analysis. The coupling efficiency of more than 85% was obtained at 1550 nm in the specified temperature range of 15-85°C, and the difference in the average coupling loss between 20°C and 85°C was 0.49 dB in the calculation. The temperature-dependent transmittance was experimentally demonstrated using fabricated optical redistribution, and the average loss difference in C-band was 0.80 dB at 25°C, 55°C, and 85°C.
Genome Sequences of Eight Shiga Toxin-Producing Escherichia coli Strains Isolated from a Produce-Growing Region in California (2018)

Produce contaminated with Shiga toxin-producing Escherichia coli (STEC) is a continuing source of foodborne illness in the United States. This report documents the complete genome sequences of eight STEC strains isolated from livestock and water samples taken from a major agricultural region for leafy greens in California.
Neoadjuvant carboplatin and paclitaxel (CP) chemotherapy (NACT) in patients (pts) with advancedstage (AS) epithelial ovarian cancer (EOC) compared with upfront surgical cytoreduction (USC) followed by CP. (2010)

e15511 Background: To determine if AS EOC pts evaluated by gynecologic oncologists at one institution and believed not to be surgically cytoreducible (SC) to ≤ 1 cm diameter of residual disease (RD) had a significantly different PFS and OS with NACT (CP) followed by cytoreductive surgery compared to (AS) EOC pts believed to be SC to ≤ 1 cm RD with USC followed by CP. Methods: 221 USC pts (stage IIIC-169, IV-52) and 95 NACT pts (stage III-40, IV-55) treated between 1996 and 2009 were retrospectively reviewed. NACT pts received a median of 6 cycles of C (AUC 6) and P (175 mg/M2) prior to surgery. All NACT pts had imaging findings compatible with AS nonoptimally SC EOC and pathology consistent with EOC. Kaplan-Meier curves were performed for survival analyses. A student T-test was used to compare clinical variables. Results: The PFS and OS for Stage IIIC NACT pts (median 32.5 mos. and 47.5 mos. respectively) was not statistically different than USC pts (median 19.5 and 45.7 mos. respectively; p = 0.099 and 0.918 respectively). The PFS and OS for stage IV NACT pts (median 15.6 and 25.8 mos. respectively) was not statistically different than USC pts (median 13.0 and 48.5 mos.) (p = 0.841and 0.701 respectively). Pts who had no RD at the completion of their initial surgery (NACT 72.8%, USC 43.8%) had statistically improved OS and PFS compared to those with residual tumor. Stage IIIC NACT pts had significantly less postoperative hospital days (5.9 vs. 8.5), blood loss (487 vs. 909 cc) and transfusions (0.6 vs. 1.4) than USC pts. Stage IV NACT pts+ had significantly less hospital days (7.3 vs. 9.8) and blood loss at surgery (413 vs 689) than USC pts. Conclusions: NACT is an appropriate option for AS EOC pts who appear to be non-optimally SC with upfront surgery. No significant financial relationships to disclose.