ahmedabdelwahed/Medical_papers_title_and_abstract_NLP_dataset huggingface dataset:
Spatial Statistics for Segmenting Histological Structures in H&E Stained Tissue Images

Segmenting a broad class of histological structures in transmitted light and/or fluorescence-based images is a prerequisite for determining the pathological basis of cancer, elucidating spatial interactions between histological structures in tumor microenvironments (e.g., tumor infiltrating lymphocytes), facilitating precision medicine studies with deep molecular profiling, and providing an exploratory tool for pathologists. This paper focuses on segmenting histological structures in hematoxylin-and eosin-stained images of breast tissues, e.g., invasive carcinoma, carcinoma in situ, atypical and normal ducts, adipose tissue, and lymphocytes. We propose two graph-theoretic segmentation methods based on local spatial color and nuclei neighborhood statistics. For benchmarking, we curated a data set of 232 high-power field breast tissue images together with expertly annotated ground truth. To accurately model the preference for histological structures (ducts, vessels, tumor nets, adipose, etc.) over the remaining connective tissue and non-tissue areas in ground truth annotations, we propose a new region-based score for evaluating segmentation algorithms. We demonstrate the improvement of our proposed methods over the state-of-the-art algorithms in both region-and boundary-based performance measures.
A Novel Quasi-Newton Method for Composite Convex Minimization

A fast parallelable Jacobi iteration type optimization method for non-smooth convex composite optimization is presented. Traditional gradient-based techniques cannot solve the problem. Smooth approximate functions are attempted to be used as a replacement of those non-smooth terms without compromising the accuracy. Recently, proximal mapping concept has been introduced into this field. Techniques which utilize proximal average based proximal gradient have been used to solve the problem. The state-of-art methods only utilize first-order information of the smooth approximate function. We integrate both first and second-order techniques to use both first and second-order information to boost the convergence speed. A convergence rate with a lower bound of O(1/k(2)) is achieved by the proposed method and a super-linear convergence is enjoyed when there is proper second-order information. In experiments, the proposed method converges significantly better than the state of art methods which enjoy O(1/k) convergence. (C) 2021 Elsevier Ltd. All rights reserved.
A stop-and-start adaptive cellular genetic algorithm for mobility management of GSM-LTE cellular network users

The optimisation of the user tracking process is one of the most challenging tasks in today's advanced cellular networks. In this paper, we propose a new low-complexity adaptive cellular genetic algorithm to solve this problem. The proposed approach uses a torus-like structured population of candidate solutions and regulates interactions inside it by using a bi-dimensional neighbourhood. It also automatically adapts the algorithm's parameters and regenerates the algorithm's population using two algorithmically light operators. In order to draw reliable conclusions and perform an encompassing assessment, extensive experiments have been conducted on 25 differently-sized realistic networks. The proposed approach has been compared against 26 state-of-the-art algorithms previously designed to solve the mobility management problem, and a thorough statistical analysis of results has been performed. The obtained results have shown that our proposal is more efficient and algorithmically less complex than most of the state-of-the-art solvers. (C) 2018 Elsevier Ltd. All rights reserved.
Molecular characterization of SUT Gene Family in Solanaceae with emphasis on expression analysis of pepper genes during development and stresses

Sucrose, an essential carbohydrate, is transported from source to sink organs in the phloem and is involved in a variety of physiological and metabolic processes in plants. Sucrose transporter proteins (SUTs) may play significant parts in the phloem loading and unloading of sucrose. In our study, the SUT gene family was identified in four Solanaceae species (Capsicum annuum, Solanum lycopersicum, S. melongena, and S. tuberosum) and other 14 plant species ranged from lower and high plants. The comprehensive analysis was performed by integration of chromosomal distribution, gene structure, conserved motifs, evolutionary relationship and expression profiles during pepper growth under stresses. Chromosome mapping revealed that SUT genes in Solanaceae were distributed on chromosomes 4, 10 and 11. Gene structure analysis showed that the subgroup 1 members have the same number of introns and exons. All the SUTs had 12 transmembrane structural domains exception from CaSUT2 and SmSUT2, indicating that a structure variation might occurred among the Solanaceae SUT proteins. We also found a total of 20 conserved motifs, with over half of them shared by all SUT proteins, and the SUT proteins from the same subgroup shared common motifs. Phylogenetic analysis divided a total of 72 SUT genes in the plant species tested into three groups, and subgroup 1 might have diverged from a single common ancestor prior to the mono-dicot split. Finally, expression levels of CaSUTs were induced significantly under heat, cold, and salt treatments, indicating diverse functions of the CaSUTs to adapt to adverse environments.
Temporal scaling of human scalp-recorded potentials

Much of human behavior is governed by common processes that unfold over varying timescales. Standard event-related potential analysis assumes fixed-duration responses relative to experimental events. However, recent single-unit recordings in animals have revealed neural activity scales to span different durations during behaviors demanding flexible timing. Here, we employed a general linear modeling approach using a combination of fixed-duration and variable-duration regressors to unmix fixed-time and scaled-time components in human magneto-/electroencephalography (M/EEG) data. We use this to reveal consistent temporal scaling of human scalp-recorded potentials across four independent electroencephalogram (EEG) datasets, including interval perception, production, prediction, and value-based decision making. Between-trial variation in the temporally scaled response predicts between-trial variation in subject reaction times, demonstrating the relevance of this temporally scaled signal for temporal variation in behavior. Our results provide a general approach for studying flexibly timed behavior in the human brain.
Wavefront Marching Methods: A Unified Algorithm to Solve Eikonal and Static Hamilton-Jacobi Equations

This paper presents a unified propagation method for dealing with both the classic Eikonal equation, where the motion direction does not affect the propagation, and the more general static Hamilton-Jacobi equations, where it does. While classic Fast Marching Method (FMM) techniques achieve the solution to the Eikonal equation with a O(M log M) (or O(M) assuming some modifications), solving the more general static Hamilton-Jacobi equation requires a higher complexity. The proposed framework maintains the O(M log M) complexity for both problems, while achieving higher accuracy than available state-of-the-art. The key idea behind the proposed method is the creation of 'mini wave-fronts', where the solution is interpolated to minimize the discretization error. Experimental results show how our algorithm can outperform the state-of-the-art both in precision and computational cost.
Percutaneous biopsy of musculoskeletal tumors and the potential for needle tract seeding: technical considerations, current controversies, and outcomes

Multidisciplinary communication and planning between the musculoskeletal radiologist and orthopedic oncologist are essential for proper biopsy planning when a primary musculoskeletal malignancy is suspected. Image-guided percutaneous biopsy allows for real-time visualization of the biopsy needle and surrounding structures, combining high diagnostic accuracy with safety and cost-effectiveness. However, determining a surgically optimal biopsy trajectory for a mass can be technically challenging due to critical surrounding anatomy or challenging needle approach angles. Inappropriately placed biopsies can have serious repercussions on patient function and oncological survival. The potential for needle tract seeding and local recurrence after biopsy of sarcoma has been central to the debate regarding the need for excision of the biopsy tract. This multidisciplinary review highlights current controversies in the field, including the issue of core needle biopsy tracts and their excision, technical considerations and advances in image-guidance in the setting of challenging biopsies, advances in histopathological diagnostics with implications for targeted therapy in sarcoma, as well as surgical and oncological outcomes after needle tract biopsy.
Neutrophil Extracellular Traps (NET) and SARS-CoV-2

NETosis is a type of neutrophil extinction that outcome in the liberation of extracellular chromatin and protein accumulation, which contains antiviral proteins, produced by an external pathogen. Neutrophils can show bipolar action in special circumstances. This event, along with other circumstances, involves COVID-19. Neutrophil extracellular traps (NETs) are involved in the pathogenesis of COVID-19 by creating a pro-inflammatory and pre-coagulation state that leads to numerous organ losses. This form of host defense, which is promoted by neutrophils, is closely related to the known cytokine storm in severe COVID-19 patients. Hence, these two elements reveal possibly the treatment of the target for SARS-CoV-2 infections intense.
SARS-CoV-2 removal by mix matrix membrane: A novel application of artificial neural network based simulation in MATLAB for evaluating wastewater reuse risks

The COVID-19 outbreak led to the discovery of SARS-CoV-2 in sewage; thus, wastewater treatment plants (WWTPs) could have the virus in their effluent. However, whether SARS-CoV-2 is eradicated by sewage treatment is virtually unknown. Specifically, the objectives of this study include (i) determining whether a mixed matrixed membrane (MMM) is able to remove SARS-CoV-2 (polycarbonate (PC)-hydrous manganese oxide (HMO) and PC-silver nanoparticles (Ag-NP)), (ii) comparing filtration performance among different secondary treatment processes, and (iii) evaluating whether artificial neural networks (ANNs) can be employed as performance indicators to reduce SARS-CoV-2 in the treatment of sewage. At Shariati Hospital in Mashhad, Iran, secondary treatment effluent during the outbreak of COVID-19 was collected from a WWTP. There were two PC-Ag-NP and PC-HMO processes at the WWTP targeted. RT-qPCR was employed to detect the presence of SARS-CoV-2 in sewage fractions. For the purposes of determining SARS-CoV-2 prevalence rates in the treated effluent, 10 L of effluent specimens were collected in middle-risk and low-risk treatment MMMs. For PC-HMO, the log reduction value (LRV) for SARS-CoV-2 was 1.3-1 log10 for moderate risk and 0.96-1 log10 for low risk, whereas for PC-Ag-NP, the LRV was 0.99-1.3 log10 for moderate risk and 0.94-0.98 log10 for low risk. MMMs demonstrated the most robust absorption performance during the sampling period, with the least significant LRV recorded in PC-Ag-NP and PC-HMO at 0.94 log10 and 0.96 log10, respectively.
Lithium Enolate with a Lithium-Alkyne Interaction in the Enantioselective Construction of Quaternary Carbon Centers: Concise Synthesis of (+)-Goniomitine

We report a method for direct enantioselective alkylation of 3-alkynoic and 2,3-alkendioic acids that form quaternary stereogenic centers, and application of this method to the total enantioselective synthesis of a complex alkaloid (+)-goniomitine. The methods were effective in the alkylation of both 3-alkynoic acids, 2,3-alkendioic acids substrates with a broad range of heterocyclic and functionalized alkyl group substituents. Accompanying crystallographic studies provide mechanistic insight into the structure of well-defined chiral aggregates, highlighting cation-π interactions between lithium and alkyne groups.
Image Restoration and Reconstruction using Targeted Plug-and-Play Priors

Leveraging current state-of-the-art denoisers to tackle other inverse problems in imaging is a challenging task, which has recently been the topic of significant research effort. In this paper, we present several contributions to this research front, based on two fundamental building blocks: 1) the recently proposed plug-and-play framework, which allows combining iterative algorithms for imaging inverse problems with state-of-the-art image denoisers, used in black-box fashion; and 2) patch-based denoisers, using Gaussian mixture models (GMM). We exploit the adaptability of GMM to learn class-adapted denoisers, which opens the door to embedding a patch classification step in the algorithmic loop, yielding simultaneous restoration and semantic segmentation. We apply the proposed approach to several standard imaging inverse problems (deblurring, compressive sensing reconstruction, and super-resolution), obtaining results that are competitive with the state of the art.
Sustainable Heritage Management: Exploring Dimensions of Pull and Push Factors

While determining sustainable heritage development, it is important to consider how heritage satisfies human needs. The purpose of this study is to explore the pull and push factors in heritage tourism. This study generated 38 initial items of pull factor and 18 initial items of push factor toward heritage tourism to assess the significance of items influencing people's decision to visit heritage sites. The study obtained 332 valid questionnaires to implement exploratory factor analysis to capture the pull and push factors. Four pull factors with 15 items and 2 push factors with 9 items were extracted. The pull factors consisted of heritage architecture, art activity, wide nature, and regional attraction, while the push factors comprised recreational benefits and long-term values. The study suggests that the heritage's outdoor environment should be planned through wide landscaping and natural elements, while art activities can be promoted to enhance attractiveness.
Psychosocial Support Programme Improves Adherence and Health Systems Experiences for Adolescents on Antiretroviral Therapy in Mpumalanga Province, South Africa

(1) Background: Psychosocial support (PSS) plays a significant role in persistent adherence to and retention in antiretroviral therapy (ART) for adolescents living with the human immunodeficiency virus (ALHIV). This paper qualitatively explores the experiences of ALHIV on ART, who participated in a PSS programme in five public primary healthcare facilities in Mpumalanga Province in South Africa during the COVID-19 pandemic. (2) Methods: Data were collected through 24 focus group discussions with 173 ALHIV on ART and subjected to inductive thematic analysis. Informed consent was obtained before all data collection. (3) Results: The PSS programme facilitated the process of full HIV disclosure to these adolescents with the support of parents/guardians while motivating adherence through peer support groups and health education for improved treatment literacy. Participants reported positive health systems experiences, improved healthcare provider-client relations, and prompt access to health services. (4) Conclusions: The PSS programme successfully kept ALHIV engaged in ART care despite the health service disruptions encountered during the COVID-19 pandemic. We recommend rigorous evaluation of the effects of the PSS intervention on adherence to and retention in ART among ALHIV in HIV-endemic settings.
Fatal low-dose methotrexate toxicity: A case report and literature review

Methotrexate (MTX) is a chemotherapeutic agent that acts primarily by inhibiting the folic acid cycle. In addition to its application for treating malignancies, MTX is also used to treat chronic inflammatory diseases including psoriasis. Adverse effects have been reported even at low doses (up to 25 mg/week), and there is risk of toxicity in the form of myelosuppression, hepatotoxicity, or pulmonary fibrosis. Here, we report a case of a 67-year-old male with a past medical history of end stage renal disease on peritoneal dialysis and moderate-to-severe psoriasis with psoriatic arthritis presented with abdominal pain, diarrhea, rash, mucositis, and mucocutaneous ulcers and erosions. The patient was taking methotrexate 10 mg weekly without folic acid supplementation and was found to be pancytopenic. Despite treatment, the patient developed multiorgan failure and passed away after 16 days of hospitalization. Myelosuppression is considered the most serious side effect with the highest risk of mortality. Risk factors for toxicity include renal insufficiency, advanced age, lack of folate supplementation, drug interactions, and medication errors. Importantly, serum levels of MTX do not correlate with toxicity; therefore, folinic acid rescue therapy should be started as soon as MTX toxicity is suspected. MTX toxicity is rare with low dose, proper dose scheduling, and adherence to the recommended guidelines. It is imperative that physicians considering therapy with low dose MTX for dermatologic indications take into consideration a patient's risk factors for toxicity and monitor appropriately.
Convolver Design and Convolve-Accumulate Unit Design for Low-Power Edge Computing

Convolution operations have a significant influence on the overall performance of a convolutional neural network, especially in edge-computing hardware design. In this paper, we propose a low-power signed convolver hardware architecture that is well suited for low-power edge computing. The basic idea of the proposed convolver design is to combine all multipliers' final additions and their corresponding adder tree to form a partial product matrix (PPM) and then to use the reduction tree algorithm to reduce this PPM. As a result, compared with the state-of-the-art approach, our convolver design not only saves a lot of carry propagation adders but also saves one clock cycle per convolution operation. Moreover, the proposed convolver design can be adapted for different dataflows (including input stationary dataflow, weight stationary dataflow, and output stationary dataflow). According to dataflows, two types of convolve-accumulate units are proposed to perform the accumulation of convolution results. The results show that, compared with the state-of-the-art approach, the proposed convolver design can save 15.6% power consumption. Furthermore, compared with the state-of-the-art approach, on average, the proposed convolve-accumulate units can reduce 15.7% power consumption.
Minimally invasive posterior cervical foraminotomy versus anterior cervical discectomy and fusion for cervical radiculopathy: a meta-analysis

With the recent development of minimally invasive techniques, minimally invasive posterior cervical foraminotomy (MIS-PCF) has become increasingly popular as a minimally invasive method to treat cervical radiculopathy. However, there are still controversies about whether MIS-PCF is superior to anterior cervical discectomy and fusion (ACDF). The purpose of this study is to evaluate the therapeutic effects of MIS-PCF and ACDF on unilateral cervical radiculopathy without myelopathy. We searched PubMed, Embase, the Cochrane Library, and Scopus comprehensively using the terms related to MIS-PCF. Two reviewers independently evaluated the potential studies, and extracted and analyzed the data of operation time, hospital stay, neck disability index (NDI) score, visual analog scale for neck pain (VAS-neck) and arm pain (VAS-arm) scores, reoperation rate, and complications. Seven studies with 1175 patients were included. The study population was 53.5% male, with a mean age of 48.9. MIS-PCF presented a significantly shorter postoperative hospitalization time compared to ACDF, while the operation time, complication/reoperation rate, and VAS-arm, VAS-neck, and NDI scores were comparable between the two cohorts. In North America, the average cost of MIS-PCF is lower than ACDF. Thus, we suggest that MIS-PCF is an alternative to ACDF for selected patients.
Management of perioperative pain after TKA

Postoperative pain is the prime obstacle to recovery of motion and return to activity after total knee arthroplasty (TKA). Combating pain is a key point in enhanced recovery after surgery (ERAS) protocols. Outcome depends on the efficacy of pain relief, making it a major issue. The pain originates locally in the knee and also remotely via neural pathways. Regression can be slow, over several months. Pain may sometimes be definitive, to a varying degree. Pain should be managed at each step of ERAS, from the preoperative period to the last follow-up consultation, and most especially during the perioperative phase. Pain needs to be anticipated and limited for as long as necessary. The impact of analgesics should be enhanced by means of potentiators. Some are administered by general route, sometimes preoperatively; others are applied locally, directly in the surgical site by local injection, or close to the nerves, to reduce painful stimuli. The two main principles of pain management are preventive analgesia and multimodal analgesia associating various molecules and routes.
A nondestructive dendrochronological study on japanese wooden shinto art sculptures using micro-focus X-ray Computed Tomography (CT) Reviewing two methods for scanning objects of different sizes

This paper discusses a dendrochronological approach to studying works of art associated with Shintoism, an indigenous religion of Japan. Chronological studies of Shinto artwork are, by comparison, lagging behind the studies on artwork associated with the other primary religion of Japan, Buddhism. This author believes that a scientific approach, such as dendrochronology, could play an effective part in narrowing this gap. In this experiment, we conducted a series of nondestructive imaging of wooden Shinto sculptures, utilizing a micro-focus X-ray Computed Tomography (CT) system, and performed tree-ring width measurements using digital image measurement software to obtain dendrochronological information. In terms of scanning operations, one of two methods was used according to the size of the object under review. The larger object, a statue of a guardian lion-dog (Komainu), was dendrochronologically dated to 1581, and the smaller deity statues were dated 1178. The dendrochronological data gained through this experiment will be an extremely valuable resource for future studies on Shinto artwork in Japan. (C) 2016 Elsevier GmbH. All rights reserved.
Hierarchical approach to optimization of parallel matrix multiplication on large-scale platforms

Many state-of-the-art parallel algorithms, which are widely used in scientific applications executed on high-end computing systems, were designed in the twentieth century with relatively small-scale parallelism in mind. Indeed, while in 1990s a system with few hundred cores was considered a powerful supercomputer, modern top supercomputers have millions of cores. In this paper, we present a hierarchical approach to optimization of message-passing parallel algorithms for execution on large-scale distributed-memory systems. The idea is to reduce the communication cost by introducing hierarchy and hence more parallelism in the communication scheme. We apply this approach to SUMMA, the state-of-the-art parallel algorithm for matrix-matrix multiplication, and demonstrate both theoretically and experimentally that the modified Hierarchical SUMMA significantly improves the communication cost and the overall performance on large-scale platforms.