Miracle-dz/UniFAR-FTUs huggingface dataset:
Title An encoding scheme capturing generic priors andproperties of amino acids improves protein classification

Feature engineering aims at representing non-numeric data with numeric features that keep the essential information of the underlying problem, and it is a non-trivial process in building a predictive model. In bioinformatics, there is a profound scale of DNA and protein sequences available, but far from being fully utilized. Computational models can facilitate the analyses of large-scale data. However, most computational models require a numeric representation as input. Expert knowledge can help design features to cast the raw symbolic data effectively. But generally, the features vary from case to case and have to be redesigned for a problem. Automated feature engineering, i.e., an encoding scheme automating the construction of features, saves the redesigning process and allows the researchers to try different representations with minimal effort. This is more in line with the explosion of data and the goal of building an intelligent system. In this paper, we introduce an encoding scheme for protein sequences, which encodes the representative sequence dataset into a numeric matrix that can be fed into a downstream learning model. The method, Context-Free Encoding Scheme (CFreeEnS), was proposed for a dataset with labels for pairwise sequences. Here, we improve the method bymaking it applicable to a batch of protein sequences, requiring no sequence alignment beforehand. The improved method is applied to protein classification at the functional level, including identifying antimicrobial peptides, screening tumor homing peptides, and detecting hemolytic peptides and phage virion proteins. Compared with the traditional methods using task-specific designed features, CFreeEnS improves the predicting accuracy, with an increase ranging from 5.54% to 14.14%. The results indicate that the improved CFreeEnS, free from dependence on carefully designed features, is promising in capturing generic priors and essential properties of amino acids, thereby serving as an automated feature engineering method for protein sequences. INDEX TERMS Encoding scheme, feature engineering, information representation, machine learning.
Ju n 20 16 HODGE-THEORETIC MIRROR SYMMETRY FOR TORIC STACKS

Using the mirror theorem [15], we give a Landau–Ginzburg mirror description for the big equivariant quantum cohomology of toric Deligne–Mumford stacks. More precisely, we prove that the big equivariant quantum D-module of a toric Deligne–Mumford stack is isomorphic to the Saito structure associated to the mirror Landau–Ginzburg potential. We give a GKZ-style presentation of the quantum D-module, and a combinatorial description of quantum cohomology as a quantum Stanley–Reisner ring. We establish the convergence of the mirror isomorphism and of quantum cohomology in the big and equivariant setting.
Investigation of Malondialdehyde ( MDA ) , C-reactive protein ( CRP ) and Homocysteine in Sera of Patients with Angina Pectoris

Published 15/08/2019 Homocysteine thought to be free indicators for the disease like coronary artery. Oxidative stress and free radicals plays important roles in the progressing of Angina Pectoris. Previously, scientists has proven that Oxidative stress exists in patients with cardiovascular diseases (CVDs), and hyperhomocysteinemia, Aiding in inducing production of oxygen free radicals thus determining level of oxidative stress, could help health professionals to predict these kind of diseases. The purpose of our work was to explore whether blood serum homocysteine Hcy levels in patients with Angina Pectoris (AP) has any impact on rate of their lipid peroxidation. To see the probability effect of homocysteine (Hcy) in the oxidative stress activations of those patients. To find levels of the plasma homocysteine( Hcy), plasma malondialdehyde (MDA) and Creactive protein (CRP) were measured in 60 unstable Angina Pectoris patients, also 30 healthy volunteers has been examined. Hcy was measured by an enzymatic colorimetric method and MDA, an index of lipid peroxidation, by spectrophotometer. Serum Hcy levels seen to be bigger significantly patients with in angina pectoris (AP) in compare the control group (23.2±8.0 vs 10.76 ± 2.55 micromol/L; P <0.0001), Similarly, total MDA were significantly higher in angina pectoris (AP), patients than the controls (12.19 ± 0.68 vs 5.68 ± 0.45 nmol/L; P <0.0001). Our findings shows that tHcy and HsCRP increased levels could be related with the pathogenesis of angina pectoris (AP).
Recognizing Zombie Fans in Microblog Based on Bayesian Theory

As the Microblog experiences an explosive growth in popularity, it plays an increasingly important role in various fields of science and economics. Recently, a rampant spread of zombie fans impedes the development of Microblog. Zombie fans are malicious accounts artificially created in large quantities and manipulated by computer programs. They detract the reliability of the information in Microblog, as well as damage the Internet security. However, most of existing methods to recognize zombie fans are not effective enough and can hardly adjust to the rapid evolution of these artificial followers. Therefore, in this paper, seven zombie fan recognition models with different sample characteristics are established based on Bayesian Theory. Then, the model with best recognition capability is selected based on ROC Curve and AUC, with its performance tested by examples with Sina Microblog data. Finally, a MATLAB user interface is created. The numerical results indicate that the recognition model with combined sample characteristics of icon, following number, follower-following ratio and following-tweet ratio shows the best recognition performance, whose recall and precision reach 92.37% and 98.37% respectively under the threshold of 0.7.
Development of a Web Based Electronic Procurement System Muchiri

A well-functioning procurement system is an essential requirement for a developing country like Kenya. In order to promote development, proper management of scarce resources is vital. A system that ensures transparency, efficiency, cost effectiveness, easy to control and monitor can accelerate development to great heights. It will encourage fair competition and freedom of information amongst trading partners in a regional block. This can be achieved by using an electronic government procurement system realized as a web based internet portal. This paper explores the design methodology applicable to the design and implementation of an electronic Government Procurement System (e-GP). The paper further shows how Object Oriented technology can be applied to model the business artifacts of the system through the Unified Modeling Language (UML). The internet provides a lot of information through the web that makes better decisions to be made quickly.
cech biologicznych guza dla jednoczesnej chemioradioterapii nowotworów z ∏ oÊliwych

Jednoczesna chemioradioterapia znalaz∏a zastosowanie w leczeniu wielu typów nowotworów z∏oÊliwych. Obecnie coraz cz ́Êciej, oprócz uznanych klinicznych czynników rokowniczych, próbuje si ́ wykorzystywaç parametry biologiczne nowotworu dla oceny skutecznoÊci leczenia. Intensywnie badane czynniki zwiàzane sà z hipoksjà, tempem proliferacji komórek nowotworowych i procesem apoptozy. W przypadku hipoksji najcz ́Êciej stosowanymi metodami sà: bezpoÊredni pomiar st ́ ̋enia tlenu w tkance i immunohistochemiczne oznaczanie bia∏ek, ulegajàcych ekspresji w przypadku niedotlenienia komórek. Badania dotyczàce proliferacji komórek nowotworowych koncentrujà si ́ na analizie wartoÊci predykcyjnej indeksu wiàzania bromodeoksyurydyny, potencjalnego czasu podwojenia guza, a tak ̋e na oznaczaniu ekspresji bia∏ek zwiàzanych z cyklem komórkowym, takich jak Ki-67 i PCNA. Cz ́stym przedmiotem badaƒ jest tak ̋e bia∏ko P53, odpowiedzialne za regulacj ́ cyklu komórkowego i apoptozy. W przypadku apoptozy analizowane sà tak ̋e: indeks apoptotyczny oraz ekspresja takich bia∏ek kontrolujàcych ten proces, jak Bax i Bcl-2. WÊród innych parametrów biologicznych predykcyjnà wartoÊç posiadaç mo ̋e ekspresja enzymów: cyklooksygenazy-2, topoizomerazy II i endonukleazy HAP1. Najbardziej jednoznaczne wyniki dotyczà wartoÊci predykcyjnej poziomu hipoksji oraz indeksu apoptozy i wskazujà, ̋e wysoki poziom hipoksji i niski apoptozy wià ̋à si ́ z krótszymi prze ̋yciami chorych oraz brakiem odpowiedzi nowotworów po jednoczesnej chemioradioterapii.
THE PURDUE UNIVERSITY GRADUATE SCHOOL STATEMENT OF DISSERTATION APPROVAL

Bennett, Jackson B. M.S., Purdue University, August 2019. Attitude and Adoption: Understanding Climate Change through Predictive Modeling. Major Professor: Roshanak Nateghi. Climate change has emerged as one of the most critical issues of the 21st century. It stands to impact communities across the globe, forcing individuals and governments alike to adapt to a new environment. While it is critical for governments and organizations to make strides to change business as usual, individuals also have the ability to make an impact. The goal of this thesis is to study the beliefs that shape climate-related attitudes and the factors that drive the adoption of sustainable practices and technologies using a foundation in statistical learning. Previous research has studied the factors that influence both climate-related attitude and adoption, but comparatively little has been done to leverage recent advances in statistical learning and computing ability to advance our understanding of these topics. As increasingly large amounts of relevant data become available, it will be pivotal not only to use these emerging sources to derive novel insights on climate change, but to develop and improve statistical frameworks designed with climate change in mind. This thesis presents two novel applications of statistical learning to climate change, one of which includes a more general framework that can easily be extended beyond the field of climate change. Specifically, the work consists of two studies: (1) a robust integration of social media activity with climate survey data to relate climate-talk to climatethought and (2) the development and validation of a statistical learning model to predict renewable energy installations using social, environmental, and economic predictors. The analysis presented in this thesis supports decision makers by providing new insights on the factors that drive climate attitude and adoption.
Medicine Image Processing Prediction Based on Tree Structure Memory Cell Neural Network

The information on the rhythm, intensity and frequency of the human respiratory signal can largely reflect the pathological changes of the human respiratory organs. Therefore, monitoring the human respiratory condition has great medical significance. However, medical respiratory monitoring equipment is often bulky or expensive, and the contact detection method in which the sensor is directly in contact with the human body brings inconvenience and restraint to the patient. At the same time, some unintended activities of the human body may cause the sensor to fall off and move, making the detection result inaccurate or even failing. In view of the above problems, this paper takes human respiratory motion as the research object, and uses long-term and shortterm memory neural network, combined with image processing and signal processing technology, to study how to predict human respiratory image signals accurately and in real time without direct contact with human body. The experimental results show that the proposed real-time respiratory motion image processing algorithm based on long-term and short-term memory neural network has the advantages of real-time, high accuracy and predictive accuracy.
Activité physique, bilan énergétique et profil métabolique

Les benefices metaboliques d'une activite physique meme moderee mais pratiquee regulierement sont etayees par de nombreux arguments epidemiologiques et experimentaux. A l'inverse la generalisation d'un mode de vie sedentaire est associee a une augmentation de la prevalence de l'obesite, du diabete de type 2 et du risque cardio-vasculaire en general. Ces differentes donnees soulignent l'interet des actions visant a promouvoir la pratique reguliere d'une activite physique dans la vie de tous les jours et a lutter contre la sedentarite, destinees non seulement aux patients mais egalement a l'ensemble de la population.
Mining the Mind - Applying Quantitative Techniques to Understand Mental Models of Security

Mental models, informal representations of reality, provide an appealing explanation for the apparently non-rational security decisions of information technology users. Although users may be attempting to make secure decisions, the use of incomplete or incorrect information security mental models as a shortcut to decision making may lead to undesirable results. We describe mental models about viruses and hackers drawing on data from a survey of 609 adult IT users and link these to security behaviours and perceptions. We find that there are potentially just a small number of common security beliefs and suggest that accommodating mental models during security design may be more beneficial to long-term security than expecting users to change to accommodate security requirements.
Cross-lingual Structure Transfer for Relation and Event Extraction

The identification of complex semantic structures such as events and entity relations, already a challenging Information Extraction task, is doubly difficult from sources written in under-resourced and under-annotated languages. We investigate the suitability of cross-lingual structure transfer techniques for these tasks. We exploit relation- and event-relevant language-universal features, leveraging both symbolic (including part-of-speech and dependency path) and distributional (including type representation and contextualized representation) information. By representing all entity mentions, event triggers, and contexts into this complex and structured multilingual common space, using graph convolutional networks, we can train a relation or event extractor from source language annotations and apply it to the target language. Extensive experiments on cross-lingual relation and event transfer among English, Chinese, and Arabic demonstrate that our approach achieves performance comparable to state-of-the-art supervised models trained on up to 3,000 manually annotated mentions: up to 62.6% F-score for Relation Extraction, and 63.1% F-score for Event Argument Role Labeling. The event argument role labeling model transferred from English to Chinese achieves similar performance as the model trained from Chinese. We thus find that language-universal symbolic and distributional representations are complementary for cross-lingual structure transfer.
Irinotecan versus infusional 5-fluorouracil: a phase III study in metastatic colorectal cancer following failure on first-line 5-fluorouracil. V302 Study Group.

In a multicenter phase III trial, 267 patients with nonbulky metastatic colorectal cancer who had failed first-line 5-fluorouracil (5-FU) therapy were randomized to receive second-line treatment with either the new topoisomerase agent, irinotecan (Rhone-Poulenc Rorer, Antony, France), or a high-dose infusional 5-FU regimen. Patients treated with irinotecan survived significantly longer than those treated with infusional 5-FU. The 1-year survival rate was 45% for patients receiving irinotecan compared with 32% for patients receiving 5-FU. There also was a significant difference in median progression-free survival (4.2 months v 2.9 months; P = .03) favoring irinotecan. Irinotecan administered at a dose of 350 mg/m2 every 3 weeks was associated with manageable toxicities (the main toxicities were neutropenia and diarrhea). The incidence of these adverse events and of vomiting was higher with irinotecan than with the comparator regimens of infusional 5-FU. However, the incidence of grade 3-4 asthenia was the same in the two treatment arms and mucositis and cutaneous adverse events were more common with 5-FU. Overall, mean global quality of life scores were similar in the two arms of the study throughout the period of treatment and follow-up, demonstrating that the more effective disease control achieved by irinotecan at least maintains quality of life. Indeed, deterioration in quality of life (defined as >50% decrease from baseline score) occurred significantly later in irinotecan-treated patients. In light of these data, irinotecan should be considered the reference treatment for patients with 5-FU-refractory advanced colorectal cancer.
Social Skills Group for Adults Living with Intellectual Disabilities

This work presents the results obtained with a therapeutic social skills group for adults living with intellectual disabilities and psychiatric co-morbidities. The concept of social skill is used in cognitive behavioral therapy approaches. For the last four years in the community psychiatry unit within the department of psychiatry of mental development, we have organized social skills groups. These groups are meant for ambulatory patients with intellectual impairments and psychiatric co-morbidities in conjunction with a lack of social skills. Each patient is under individual cognitive behavioral therapy treatment, which makes it possible to precisely evaluate the issues and the patient's expectations. In addition to the individual sessions, the patients participate in a monthly semi-open selfaffirmation group. Each patient completes a variety of questionnaires and scales which serve as a baseline, as well as questionnaires at the end of each session to provide information about the dynamic of the group and its progression.
The Positive Deviance Approach to Improve Health Outcomes: Experience and Evidence from the Field—Preface

Positive deviance (PD) refers to a phenomenon that exists in many resource-poor communities that is the finding that a few individuals and families employ uncommon beneficial practices that allow them and their children to have better health as compared to their similarly impoverished neighbors. These PD behaviors are likely to be affordable acceptable and sustainable by the wider community because their peers are already practicing them. Programmers who use the PD approach for improving health outcomes work with communities to determine community norms regarding a specific desirable outcome (e.g. good child growth) to identify a few (usually four to six) individuals who have achieved the good outcome (i.e. not the "normal" or expected outcome) despite high risk to conduct a PD inquiry to learn from these PD individuals the behaviors that are likely to explain the good outcome and be feasible for their neighbors and to design behavior change interventions to enable adoption of these new PD behaviors. Most PD interventions thus far have targeted childhood malnutrition and have provided communal opportunities to observe and practice new behaviors until skills are mastered (e.g. hearth settings). (excerpt)
Apomycin relieves neuropathic pain by attenuating NRLP 3-medicated inflammasome activation via inhibiting NADPH induced ROS in microglia

Neuroinflammation in the peripheral and central nervous system plays an important role in the induction and maintenance of chronic pain. However, the potential mechanism of ROS production from inflammasome activation in microglia during neuroinflammation remains elusive. We performed spinal nerve ligation (SNL) model for chronic pain and implanted intrathecal catheter for intrathecal application of apomycin. Behavioral tests including von Frey hairs and paw withdrawal tests were constructed on postoperative days 1, 3, 5, 7, 14 and after apomycin delivery to assess mechanical threshold and heat hyperalgesia. ELISA of IL-1β production and real-time PCR assay of IL-1β, IL-6 and TNF-α in supernatant from microglia cells pretreatment of apomycin were performed. Besides, caspase-1 content in spinal lysis from different groups including sham-operated rats with vehicle injection, shamoperated rats with apomycin injection, SNL-injured rats with vehicle injection, SNL-injured rats with apomycin and 12 h after injection were detected by western blot analysis and also CD4 and CD8 mRNA expression were measured by Q-PCR assay. Here, we first found that apomycin significantly decreased the IL-1β production which was induced by NRLP3 activation in microglia cells, while the TLR4-ligation induced mRNA transcription of IL-1β, and other proinflammatory cytokines, such as IL-6 and TNF-α were not significantly inhibited by apomycin pretreatment. However, the activation of NF-κB and MAPK signaling pathway was only slightly decreased by apomycin. Furthermore, supplement of ROS in culture abolished the inhibition of IL-1β by apomycin. Our data suggest that apomycin ameliorates neuropathic pain by attenuating NRLP3 activation induced IL-1β production through inhibition of NADPH induced ROS in microglia, which outlines the novel application of apomycin in treatment of neuropathic pain and the novel potential signal pathway of apomycin.
Experimental evaluations on the shear behavior of fiber-reinforced 1 calcareous sands 2

* Corresponding author: Tel. : +86 28 8540 6701 E-mail: zhaotao@scu.edu. cn 9 10 Abstract: Fiber-reinforced calcareous sands manifest unique properties of increased shear strength 11 and particle breakage. These features are of practical importance for some offshore engineering 12 constructions because the strength improvement and efficient dense compaction of soils are both 13 important. This paper presents the experimental evaluations on the characteristics of shear strength 14 and particle breakage of fiber-reinforced calcareous sands by direct shear and ring shear tests with 15 different vertical loading stress, fiber content and fiber length. In the tests, the mixture of fiber and 16 sands can make the specimen a spatially interlocked and unitary coherent network, with efficient 17 stress transmission. In addition, the overall deformation of sand specimen would increase with the 18 fiber content due to low stiffness of fiber elements. Thus, in direct shear tests, the secant elastic 19 modulus decreased, while the shear strength increased with the fiber content. The contribution of 20 fiber elements to the shear strength of sand specimen came mainly from the friction and tension forces 21 exerted when they were deformed. These two types of force could mobilize the additional shear 22 resistance of sands, and thus increase the overall shear strength of the sample. In ring shear tests, the 23 breakage intensity of calcareous sands increased with the vertical loading stress, fiber content and 24 fiber length. At low fiber content and length, the inter-particle contacts and interlocking effects 25 influenced the shear strength and particle breakage significantly, while at higher fiber content, the 26 role of fiber friction and tension forces became dominant. 27