SIRIS-Lab/unlabelled-sti-corpus huggingface dataset:
ViVaMBC: estimating viral sequence variation in complex populations from illumina deep-sequencing data using model-based clustering

Deep-sequencing allows for an in-depth characterization of sequence variation in complex populations. However, technology associated errors may impede a powerful assessment of low-frequency mutations. Fortunately, base calls are complemented with quality scores which are derived from a quadruplet of intensities, one channel for each nucleotide type for Illumina sequencing. The highest intensity of the four channels determines the base that is called. Mismatch bases can often be corrected by the second best base, i.e. the base with the second highest intensity in the quadruplet. A virus variant model-based clustering method, ViVaMBC, is presented that explores quality scores and second best base calls for identifying and quantifying viral variants. ViVaMBC is optimized to call variants at the codon level (nucleotide triplets) which enables immediate biological interpretation of the variants with respect to their antiviral drug responses.Using mixtures of HCV plasmids we show that our method accurately estimates frequencies down to 0.5%. The estimates are unbiased when average coverages of 25,000 are reached. A comparison with the SNP-callers V-Phaser2, ShoRAH, and LoFreq shows that ViVaMBC has a superb sensitivity and specificity for variants with frequencies above 0.4%. Unlike the competitors, ViVaMBC reports a higher number of false-positive findings with frequencies below 0.4% which might partially originate from picking up artificial variants introduced by errors in the sample and library preparation step.ViVaMBC is the first method to call viral variants directly at the codon level. The strength of the approach lies in modeling the error probabilities based on the quality scores. Although the use of second best base calls appeared very promising in our data exploration phase, their utility was limited. They provided a slight increase in sensitivity, which however does not warrant the additional computational cost of running the offline base caller. Apparently a lot of information is already contained in the quality scores enabling the model based clustering procedure to adjust the majority of the sequencing errors. Overall the sensitivity of ViVaMBC is such that technical constraints like PCR errors start to form the bottleneck for low frequency variant detection.
HOTEL RESTAURANTE MIRALAGO UNA NUEVA VISIÓN DEL VALLE DE TARTANO, AUMENTO DE LA OFERTA DE ALOJAMIENTO A TRAVÉS DE UN PROYECTO PARA RENOVAR EL ÚLTIMO PISO DEL HOTEL.

HOTEL RESTAURANTE MIRALAGO UNA NUEVA VISIÓN DEL VALLE DE TARTANO, AUMENTO DE LA OFERTA DE ALOJAMIENTO A TRAVÉS DE UN PROYECTO PARA RENOVAR EL ÚLTIMO PISO DEL HOTEL.
Double Anti-angiogenic and Anti-inflammatory Protein Valpha Targeting VEGF-A and TNF-α in Retinopathy and Psoriasis

Pathological angiogenesis usually involves disrupted vascular integrity, vascular leakage, and infiltration of inflammatory cells, which are governed mainly by VEGF-A and TNF-α. Although many inhibitors targeting either VEGF-A or TNF-α have been developed, there is no single inhibitor molecule that simultaneously targets both molecules. Here, we designed and generated a novel chimeric decoy receptor (Valpha) that can simultaneously bind to VEGF-A and TNF-α and block their actions. In this experimental design, we have shown that Valpha, which is an effective synchronous blocker of VEGF-A and TNF-α, can drastically increase treatment effectiveness through its dual-blocking characteristics. Valpha contains the VEGF-A-binding domain of VEGFR1, the TNF-α-binding domain of TNFR2, and the Fc domain of IgG1. Valpha exhibited strong binding characteristics for its original counterparts, VEGF-A and TNF-α, but not for the extracellular matrix, resulting in a highly favorable pharmacokinetic profile in vivo. Compared with VEGF-Trap or Enbrel, both of which block either VEGF-A or TNF-α, singularly, Valpha is a highly effective molecule for reducing abnormal vascular tufts and the number of F4/80(+) macrophages in a retinopathy model. In addition, Valpha showed superior relief effects in a psoriasis model with regard to epidermal thickness and the area of blood and lymphatic vessels. Thus, the simultaneous blocking of VEGF-A and TNF-α using Valpha is an effective therapeutic strategy and cost-efficient for treatment of retinopathy and psoriasis.
An integrative strategy of testing systems for identification of eds related to metabolic disorders

Exposure to chemical substances that can produce endocrine disrupting effects represents one of the most critical public health threats nowadays. In line with the regulatory framework implemented within the European Union to reduce the levels of endocrine disruptors (EDs) for consumers, new and effective methods for ED testing are needed. The OBERON project will build an integrated testing strategy (ITS) to detect EDs-related metabolic disorders by developing, improving and validating a battery of test systems. It will be based on the concept of an integrated approach for testing and assessment (IATA). OBERON will combine 1) experimental methods (in vitro e.g. on 2D and 3D human-derived cells and tissues, and in vivo i.e. in zebrafish at different stages), 2) high throughput omics technologies, 3) epidemiology and human biomonitoring studies and 4) advanced computational models (in silico and systems biology) on functional endpoints related to metabolism. Such interdisciplinary framework will help at deciphering EDs based on mechanistic understanding of toxicity by providing and making available more effective alternative test methods relevant for human health that are in line with regulatory needs. Data generated in OBERON will also allow the development of novel Adverse Outcome Pathways (AOPs). The assays will be pre-validated in order to select the test systems that will show acceptable performance in terms of relevance for the second step of the validation process, i.e. the inter-laboratory validation as ring tests. Therefore, the aim of the OBERON project is to support the OECD conceptual framework for testing and assessment of EDs by developing specific assays not covered by the current tests, and to propose an IATA approach for ED-related metabolic disorders detection, which will be submitted to the JRC and OECD community.
Antibiotics and prevention

IN his article ‘Working together to safeguard animal health’ ( VR , February 13, 2016, vol 178, p 160) the Chief Veterinary Officer, Nigel Gibbens, used the expression ‘prevention is better than cure’ regarding the prevention of incursions of disease into the UK, which might bring significant losses to farmers. However, later on, discussing antimicrobial resistance and the responsible use of antibiotics, he states that: ‘Routine preventive or prophylactic use is no longer acceptable, and we need to ensure that disease is prevented wherever possible, reinforcing the importance of good animal husbandry and biosecurity measures.’ Is this practical and reasonable, and how many pig and poultry farmers are in a position to operate in this way?

I think most veterinarians would support the statement that ‘Management systems that are sustainable only by regular and predictable therapeutic use of antibiotics at key stages must go.’ However, the onus is on the farmer to improve his business model. If the farmer doesn't do this, how does this leave the veterinary surgeon exposed regarding not being able to fulfil his duties to the health and welfare of the animals under his care?

It appears that preventive use of antibiotics is …
An Eulerian–Eulerian model for particulate matter transport in indoor spaces

Abstract A new type of Eulerian-based two-phase flow model, known as the Eulerian–Eulerian model, was applied in this study to model the transport and distribution characteristics of particulate matters in indoor spaces. Computations were conducted with both transient and steady states and under both isothermal and thermal conditions. Comparisons against the experimental data available in the literature and the existing models for PM transport (e.g. the Lagrangian model and the drift-flux model) demonstrated that the Eulerian–Eulerian model is capable of realizing a comprehensive description of inter-phase mechanisms and has a comparable accuracy with the Lagrangian model. More importantly, the Eulerian–Eulerian model gives a direct prediction to the PM concentration field through solving a set of conservation equations for the particulate phase, thus does not need additional post-processing procedures to estimate the PM concentration based on the particle trajectories. Therefore, the Eulerian-Eulerian model needs much lower computational cost than the Lagrangian model and eliminates the uncertainties that might be caused by the additional procedures.
Power allocation and mode selection methods for cooperative communication in the rectangular tunnel

Abstract For the multipath fading on electromagnetic waves of wireless communication in the confined areas, the rectangular tunnel cooperative communication system was established based on the multimode channel model and the channel capacity formula derivation was obtained. On the optimal criterion of the channel capacity, the power allocation methods of both amplifying and forwarding (AF) and decoding and forwarding (DF) cooperative communication systems were proposed in the limitation of the total power to maximize the channel capacity. The mode selection methods of single input single output (SISO) and single input multiple output (SIMO) models in the rectangular tunnel, through which the higher channel capacity can be obtained, were put forward as well. The theoretical analysis and simulation comparison show that, channel capacity of the wireless communication system in the rectangular tunnel can be effectively enhanced through the cooperative technology; channel capacity of the rectangular tunnel under complicated conditions is maximized through the proposed power allocation methods, and the optimal cooperative mode of the channel capacity can be chosen according to the cooperative mode selection methods given in the paper.
AIRCRAFT STRUCTURE AND ASSOCIATED TOOLS AND METHODS

An aircraft including a fuselage with one or more wings extending from the fuselage. The aircraft may include one or more apertures in a surface of at least one of the fuselage and the one or more wings. The one or more apertures may be configured to enable air to pass through the one or more apertures when the aircraft is flying.
PLASTIC CORRUGATED CONTAINER WITH SOFT SCORE LINE.

A box formed from a plastic corrugated material with soft score lines is provided. The soft score lines are formed to enable the top flaps of the box to lay substantially flat against the outer surface of the box when folded to an open position.
The design and evaluation of modern fully dynamic data structures

Many real-world data sets change continuously, but their enormous size prohibits frequent re-processing of the whole data. Thus, there is an urgent need for efficient, fully dynamic data structures that maintain properties of the data set while supporting fast insertions and deletions. This is especially important for problems in data mining and network analysis, where a data structure often needs to fulfill new additional constraints that are not supported by classic data structures: (1) It should only use sublinear space, even if this leads to some small error in the answers. (2) As data sets frequently contain private information which needs to be protected, it should reveal nothing about individual data points, which is often modeled through differential privacy. Our ambitious goal is to design such groundbreaking new fully dynamic data structures for central problems on graphs and point sets.

Specifically, we will focus on problems with large practical relevance such as subgraph detection, k-core decomposition, and balanced graph partitioning as well as various clustering variants in general metric spaces. For these problems no fully dynamic data structures with small asymptotic running time are known and they have not even been studied in the small-space or differentially-private regime. However, using recent advanced in algorithms research it is now the right time to develop novel techniques to solve these challenging questions.

Thus, the goal of this project is to design algorithms for highly-relevant problems as well as advancing the field of data structures in general by moving it from a narrow focus on asymptotic complexity to a broader set of modern requirements with the goal of bridging the gap that currently exists between theory and practice. As data structures are used by every computer program the impact of this work will be far-reaching. With over 30 years of experience in algorithms research the PI is in the unique position to do so.
Mobilités quotidiennes et modes d’habiter dans le périurbain francilien

In a research devoted to ways of periurban living (Aguilera et al, 2014), we have collected material to question 3 aspects : territory - technical networks (ICT, automotive) - daily mobility, based on statements of thirty-one households living in Paris suburb (Haute Vallee de Chevreuse, Brie Boisee, Carnelle Pays de France). Starting with the management of uncertainty and the role played by ICT in said issue, we found that ICT enables the individual to elect a double position to face uncertainty. ICT is a clear progress to face uncertainty of transport network, we outline that it also ensures flexibility in activity program. The conclusions of this first part led to open the spectrum and analyse ICT in suburban ways of living. ICT are not seen as the tool to manage temporal and spatial tension between distance and proximity, typical of suburban areas. Nevertheless, they go together with an improvement of territorial household appropriation. Their use still largely advisory is subject to the links that individuals develop with the territory and does not replace it. This technical appropriation does not prevent from assuming that ICT will ultimately play a territorial adapter role similar to the one played by automobile.
A new way to own, drive and maintain a boat

D&A Experiences Oy is a Finnish SME, founded as an Innovation Design Agency with focus on consumer electronics, electric boats and bikes. Our vision is to create beauty and value by implementing the most advanced technologies into form and function that make the world a better place. We specialise in creating novel user experiences based on both advanced design and tested technology. We have created G-Boat™, the World’s smartest and most iconic electric boat for the metropolitan water front market. G-Boat™ contains many innovations in the waterborne transport  industry, including hydrodynamics design, environment friendly lightweight materials, battery technology, navigation technology, ownership models and maintenance requirements. By commercialising G-Boat™, our vision is to become the market leader in smart electric boats, in an industry that is worth over €20 Billion. We foresee that our innovative solution will generate over €10 Million to our annual revenue by 2023, increase our annual profits by 25% and grow direct and indirect employment. Phase 1 of this innovative project is to carry out an elaborate Feasibility Study and Business Plan to get G-Boat™ from TRL6 to TRL9 and commercialise it.
Test of the Day of the Week Effect: The Case of Kuwait Stock Exchange

This study examines the presence of the day-of-the-week effect anomaly in the Kuwait Stock Exchange (KSE) using Ordinary Least Square Method (OLS). The day-of-the-week effect is a phenomenon that constitutes a form of anomaly of the efficient capital markets theory. According to this phenomenon, the average daily return of the market is not the same for trading days of the week, as we would expect on the basis of the efficient market theory. This study investigates day of the week effect on the available data of daily returns on the weighted index in the Kuwait Stock Exchange with the period from January 2002 to September 2011. The findings show that KSE exhibits positive returns on the first and the last day of the week with significant negative returns on the Second day of the Trading week.
The ecology of pelagic freshwater methylotrophs assessed by a high-resolution monitoring and isolation campaign

Methylotrophic planktonic bacteria fulfill a particular role in the carbon cycle of lakes via the turnover of single-carbon compounds. We studied two planktonic freshwater lineages (LD28 and PRD01a001B) affiliated with Methylophilaceae (Betaproteobacteria) in Lake Zurich, Switzerland, by a combination of molecular and cultivation-based approaches. Their spatio-temporal distribution was monitored at high resolution (n=992 samples) for 4 consecutive years. LD28 methylotrophs constituted up to 11 × 10(7) cells l(-1) with pronounced peaks in spring and autumn-winter, concomitant with blooms of primary producers. They were rare in the warm water layers during summer but abundant in the cold hypolimnion, hinting at psychrophilic growth. Members of the PRD01a001B lineage were generally less abundant but also had maxima in spring. More than 120 axenic strains from these so far uncultivated lineages were isolated from the pelagic zone by dilution to extinction. Phylogenetic analysis separated isolates into two distinct genotypes. Isolates grew slowly (μmax=0.4 d(-1)), were of conspicuously small size, and were indeed psychrophilic, with higher growth yield at low temperatures. Growth was enhanced upon addition of methanol and methylamine to sterile lake water. Genomic analyses of two strains confirmed a methylotrophic lifestyle with a reduced set of genes involved in C1 metabolism. The very small and streamlined genomes (1.36 and 1.75 Mb) shared several pathways with the marine OM43 lineage. As the closest described taxa (Methylotenera sp.) are only distantly related to either set of isolates, we propose a new genus with two species, that is, 'Candidatus Methylopumilus planktonicus' (LD28) and 'Candidatus Methylopumilus turicensis' (PRD01a001B).
ASSESSMENT AND CONTROL OF CENTRIFUGE OPERATION

A drilling fluid conditioning system can include a centrifuge, and at least one heat transfer property sensor that outputs real time measurements of a heat transfer property of a drilling fluid that flows through the centrifuge. A method can include measuring a heat transfer property of a drilling fluid, and determining, based on the measured heat transfer property, an operational parameter of a centrifuge through which the drilling fluid flows. A well system can include a drilling fluid that circulates through a wellbore, and a drilling fluid conditioning system including a centrifuge and at least one heat transfer property sensor that measures a heat transfer property of the drilling fluid.
32.BI-MU MILÃO 2020

O REGISTO NA 32.BI-MU EM MILÃO É UMA IMPORTANTE OPORTUNIDADE PARA A POLIANGOLAR S.R.L. SE RECONECTAR COM EMPRESAS DO SETOR E EXPANDIR SEU PORTFÓLIO DE CLIENTES, ATENDENDO POTENCIAIS UTENTES DE SEGMENTOS DO SETOR AINDA NÃO CIENTES DAS VANTAGENS OFERECIDAS PELAS FERRAMENTAS DA POLIANGOLAR S.R.L. OS PRINCIPAIS OBJETIVOS DA EMPRESA SÃO OS SEGUINTES:1. CONSOLIDAR OS LAÇOS COM OUTRAS EMPRESAS ITALIANAS E ESTRANGEIRAS DO SETOR;2. PROCURAR PARCERIAS POTENCIAIS E ACORDOS COMERCIAIS ESTREITOS;3. ESTUDAR E INTERCETAR AS NECESSIDADES DO MERCADO DE REFERÊNCIA, COM O OBJETIVO DE MELHORAR O CATÁLOGO DE PRODUTOS DA EMPRESA E OFERECER NO MERCADO EQUIPAMENTOS FUNCIONAIS ÀS NECESSIDADES MOSTRADAS PELOS EXPOSITORES E VISITANTES;4. MELHORAR O POSICIONAMENTO DE SEUS PRODUTOS NO MERCADO EXTERNO, GRAÇAS À RELEVÂNCIA INTERNACIONAL DA FEIRA.
Clinical Tips for Placing TAD

Bone anchorage is a promising new field in orthodontics (TAD’s). Micro-implant anchors, also known as temporary anchorage devices, have been used to enhance orthodontic anchorage for difficult tooth movements. Here the author describes about the precautions to be taken while placing implant to lessen implant failure. Micro-implant screw is removed when orthodontic treatment is completed. It takes a minute to remove it and causes no pain. These micro-implants are placed between the roots of the teeth as well as location nearby the roots of the teeth and the palate. Recently, a number of case reports have appeared in orthodontic literature documenting the possibility of overcoming anchorage limitations via the use of temporary anchorage devices (TAD - biocompatible devices fixed to bone for the purpose of moving teeth).This article aims to outline some of the basic biologic parameters for their use.
Expression of modified xynA gene fragments from Bacillus subtilis BE-91

Expression of modified xynA gene fragments in Escherichia coli BL21 was studied, using the complete xynA gene from Bacillus subtilis BE-91 as the positive control. The technical workflow consisted of the following steps: (1) predicting protein structures relative to the xynA gene; (2) designing primers for modifiers; (3) amplifying the modifiers; (4) integrating the modifiers with the pET-28a(+) vector; (5) transferring the recombinant plasmids into E. coli BL21; (6) evaluating and analyzing the expression of modified cells. The results were: (1) the xynA gene from BE-91 with the untranslated region deleted on both ends was able to promote XynA activity by 28.9 %; (2) deletion of the 1- to 16-amino acid (AA) coding sequence in the open reading frame on the 5′-end, deletion of the 209- to 213-AA fragment on the 3′-end and deletion of the 20 AA on both ends could promote XynA activity by 27.2, 27.7 and 24.0 %,respectively; (3) deletion of the 1- to 29-AA fragment on the 5′-end and deletion of the 197- to 213-AA fragment on the 3′-end could reduce XynA activity dramatically by 95.6 and 74.8 %, respectively; (4) inactivation factors of XynA would be either the first β-fold and the hydrophilic structure domain or the last two α-screws and the seventeenth turn region. The results mean that any deletion in the catalytic domain would lead to a decline or inactivation in XynA activity while the deletion of any sequence outside the catalytic domain could effectively promote XynA activity, as such sequences are unnecessary for XynA function.