scholarly journals Choice of assembly software has a critical impact on virome characterisation

2018 ◽  
Author(s):  
Thomas D.S. Sutton ◽  
Adam G. Clooney ◽  
Feargal J. Ryan ◽  
R. Paul Ross ◽  
Colin Hill
Keyword(s):  
De Novo ◽  
Vital Role ◽  
Well Performance ◽  
Community Members ◽  
Reference Databases ◽  
Downstream Analysis ◽  
Metagenomic Assembly ◽  
Assembly Performance ◽  
Genomic Repeats

AbstractBackgroundThe viral component of microbial communities play a vital role in driving bacterial diversity, facilitating nutrient turnover and shaping community composition. Despite their importance, the vast majority of viral sequences are poorly annotated and share little or no homology to reference databases. As a result, investigation of the viral metagenome (virome) relies heavily on de novo assembly of short sequencing reads to recover compositional and functional information. Metagenomic assembly is particularly challenging for virome data, often resulting in fragmented assemblies and poor recovery of viral community members. Despite the essential role of assembly in virome analysis and difficulties posed by these data, current assembly comparisons have been limited to subsections of virome studies or bacterial datasets.DesignThis study presents the most comprehensive virome assembly comparison to date, featuring 16 metagenomic assembly approaches which have featured in human virome studies. Assemblers were assessed using four independent virome datasets, namely; simulated reads, two mock communities, viromes spiked with a known phage and human gut viromes.ResultsAssembly performance varied significantly across all test datasets, with SPAdes (meta) performing consistently well. Performance of MIRA and VICUNA varied, highlighting the importance of using a range of datasets when comparing assembly programs. It was also found that while some assemblers addressed the challenges of virome data better than others, all assemblers had limitations. Low read coverage and genomic repeats resulted in assemblies with poor genome recovery, high degrees of fragmentation and low accuracy contigs across all assemblers. These limitations must be considered when setting thresholds for downstream analysis and when drawing conclusions from virome data.

scholarly journals Mapping Microproteins and ncRNA-Encoded Polypeptides in Different Mouse Tissues

2021 ◽  
Vol 9 ◽  
Author(s):  
Ni Pan ◽  
Zhiwei Wang ◽  
Bing Wang ◽  
Jian Wan ◽  
Cuihong Wan
Keyword(s):  
De Novo ◽  
Vital Role ◽  
Open Reading Frames ◽  
Top Down ◽  
Bottom Up ◽  
Reading Frame ◽  
Non Coding Rna ◽  
Mouse Tissues ◽  
Different Tissues

Small open reading frame encoded peptides (SEPs), also called microproteins, play a vital role in biological processes. Plenty of their open reading frames are located within the non-coding RNA (ncRNA) range. Recent research has demonstrated that ncRNA-encoded polypeptides have essential functions and exist ubiquitously in various tissues. To better understand the role of microproteins, especially ncRNA-encoded proteins, expressed in different tissues, we profiled the proteomic characterization of five mouse tissues by mass spectrometry, including bottom-up, top-down, and de novo sequencing strategies. Bottom-up and top-down with database-dependent searches identified 811 microproteins in the OpenProt database. De novo sequencing identified 290 microproteins, including 12 ncRNA-encoded microproteins that were not found in current databases. In this study, we discovered 1,074 microproteins in total, including 270 ncRNA-encoded microproteins. From the annotation of these microproteins, we found that the brain contains the largest number of neuropeptides, while the spleen contains the most immunoassociated microproteins. This suggests that microproteins in different tissues have tissue-specific functions. These unannotated ncRNA-coded microproteins have predicted domains, such as the macrophage migration inhibitory factor domain and the Prefoldin domain. These results expand the mouse proteome and provide insight into the molecular biology of mouse tissues.

Asiana Airlines Flight 214

2014 ◽  
Vol 4 (2) ◽  
pp. 113-121 ◽  
Author(s):  
Stephanie Chow ◽  
Stephen Yortsos ◽  
Najmedin Meshkati
Keyword(s):  
Human Factors ◽  
Aviation Safety ◽  
Cultural Factors ◽  
Vital Role ◽  
Cultural Issues ◽  
Flight Crew ◽  
Pilot Performance ◽  
Engineering Designs ◽  
Flight Deck

This article focuses on a major human factors–related issue that includes the undeniable role of cultural factors and cockpit automation and their serious impact on flight crew performance, communication, and aviation safety. The report concentrates on the flight crew performance of the Boeing 777–Asiana Airlines Flight 214 accident, by exploring issues concerning mode confusion and autothrottle systems. It also further reviews the vital role of cultural factors in aviation safety and provides a brief overview of past, related accidents. Automation progressions have been created in an attempt to design an error-free flight deck. However, to do that, the pilot must still thoroughly understand every component of the flight deck – most importantly, the automation. Otherwise, if pilots are not completely competent in terms of their automation, the slightest errors can lead to fatal accidents. As seen in the case of Asiana Flight 214, even though engineering designs and pilot training have greatly evolved over the years, there are many cultural, design, and communication factors that affect pilot performance. It is concluded that aviation systems designers, in cooperation with pilots and regulatory bodies, should lead the strategic effort of systematically addressing the serious issues of cockpit automation, human factors, and cultural issues, including their interactions, which will certainly lead to better solutions for safer flights.

Posttransplant CMV infection and the role of immunosuppression (Sponsor: Novartis Pharma GmbH, Nürnberg)

2016 ◽  
Vol 04 (01) ◽  
pp. 4-10
Keyword(s):  
Lower Incidence ◽  
Paradigm Shift ◽  
Mtor Inhibitor ◽  
De Novo ◽  
Expert Panel ◽  
Risk Of Infection ◽  
Cmv Infection ◽  
Expert Meeting ◽  
Selection Of

AbstractImmunosuppression permits graft survival after transplantation and consequently a longer and better life. On the other hand, it increases the risk of infection, for instance with cytomegalovirus (CMV). However, the various available immunosuppressive therapies differ in this regard. One of the first clinical trials using de novo everolimus after kidney transplantation [1] already revealed a considerably lower incidence of CMV infection in the everolimus arms than in the mycophenolate mofetil (MMF) arm. This result was repeatedly confirmed in later studies [2–4]. Everolimus is now considered a substance with antiviral properties. This article is based on the expert meeting “Posttransplant CMV infection and the role of immunosuppression”. The expert panel called for a paradigm shift: In a CMV prevention strategy the targeted selection of the immunosuppressive therapy is also a key element. For patients with elevated risk of CMV, mTOR inhibitor-based immunosuppression is advantageous as it is associated with a significantly lower incidence of CMV events.

Energy Efficiency Analysis in ERA using NFL-BA Algorithm

2020 ◽  
pp. 340-348
Author(s):  
Palky Mehta ◽  
H. L. Sharma
Keyword(s):  
Cluster Head ◽  
Vital Role ◽  
Wireless Sensor ◽  
Energy Usage ◽  
Cluster Heads ◽  
Comparison Results ◽  
Current Scenario ◽  
Energy Efficiency Analysis ◽  
Selection Of

In the current scenario of Wireless Sensor Network (WSN), power consumption is the major issue associated with nodes in WSN. LEACH technique plays a vital role of clustering in WSN and reduces the energy usage effectively. But LEACH has its own limitation in order to search cluster head nodes which are randomly distributed over the network. In this paper, ERA-NFL- BA algorithm is being proposed for selects the cluster heads in WSN. This algorithm help in selection of cluster heads can freely transform from global search to local search. At the end, a comparison has been done with earlier researcher using protocol ERA-NFL, which clearly shown that proposed Algorithm is best suited and from comparison results that ERA-NFL-BA has given better performance.

Tertiary English-majored Students’ Perceptions toward the Role of Pronunciation in English Language Learning and their Practicing Strategies

2020 ◽  
Vol 6 (2) ◽  
pp. 264-279
Keyword(s):  
Language Learning ◽  
English Language ◽  
Vital Role ◽  
English Language Learning ◽  
Structured Interviews ◽  
Efl Learners ◽  
The University

Accurate pronunciation has a vital role in English language learning as it can help learners to avoid misunderstanding in communication. However, EFL learners in many contexts, especially at the University of Phan Thiet, still encounter many difficulties in pronouncing English correctly. Therefore, this study endeavors to explore English-majored students’ perceptions towards the role of pronunciation in English language learning and examine their pronunciation practicing strategies (PPS). It involved 155 English-majored students at the University of Phan Thiet who answered closed-ended questionnaires and 18 English-majored students who participated in semi-structured interviews. The findings revealed that students strongly believed in the important role of pronunciation in English language learning; however, they sometimes employed PPS for their pronunciation improvement. Furthermore, the results showed that participants tended to use naturalistic practicing strategies and formal practicing strategies with sounds, but they overlooked strategies such as asking for help and cooperating with peers. Such findings could contribute further to the understanding of how students perceive the role of pronunciation and their PPS use in the research’s context and other similar ones. Received 10th June 2019; Revised 12th March 2020; Accepted 12th April 2020

The role of Record of Rights (Khatian) in determining title or possession: An overview

IIUC Studies ◽  
2020 ◽  
Vol 15 ◽  
pp. 33-46
Author(s):  
Kalim Ullah
Keyword(s):  
Human Life ◽  
Vital Role ◽  
Critical Element ◽  
Human Beings ◽  
Supportive Evidence ◽  
Land Administration ◽  
Holy Quran ◽  
The Holy Quran ◽  
Religious Systems

Human beings are deeply related to land. Human beings take birth on land, live on land, die on land and mixes with land ultimately. As stated in the holy Quran: ‘We (Allah) created you (human beings) from the soil, we shall make you return to the soil and We shall call you back again from the soil’ (20:55). Human life is surrounded by soil i.e. land. So, land is a highly completed issue of human life involving economic, social, political, cultural and often religious systems. Land administration is thus a critical element and often a pre-condition for peaceful society and sustainable development. In administrating land, Khatian or record of rights plays a vital role to determine the rights and interests of the respective parties as supportive evidence. In this article, discussion is mainly made on the fact that Khatian or record of rights is not a document of title solely but it may be an evidence of title as well as possession. IIUC Studies Vol.15(0) December 2018: 33-46

A Court in Decline? Examining the Regality Court Records of Melrose, Roxburghshire, 1657–84

2020 ◽  
Vol 40 (1) ◽  
pp. 1-16
Author(s):  
Vivienne Dunstan
Keyword(s):  
Seventeenth Century ◽  
Local Community ◽  
Local Population ◽  
Local Area ◽  
Vital Role ◽  
Local Communities ◽  
Court Records ◽  
Seminal Work

McIntyre, in his seminal work on Scottish franchise courts, argues that these courts were in decline in this period, and of little relevance to their local population. 1 But was that really the case? This paper explores that question, using a particularly rich set of local court records. By analysing the functions and significance of one particular court it assesses the role of this one court within its local area, and considers whether it really was in decline at this time, or if it continued to perform a vital role in its local community. The period studied is the mid to late seventeenth century, a period of considerable upheaval in Scottish life, that has attracted considerable attention from scholars, though often less on the experiences of local communities and people.

GERMAS ( Gerakan Masyarakat Hidup Sehat) Di Desa Rambah Hilir

2020 ◽  
Vol 3 (1) ◽  
pp. 100
Author(s):  
Elvira Junita ◽  
Yuli Handayani ◽  
Lufita Nur Alfiah
Keyword(s):  
Fruits And Vegetables ◽  
Healthy Lifestyle ◽  
Health Centre ◽  
Health Check ◽  
Community Partnership ◽  
Health It ◽  
Community Members ◽  
Healthy Life ◽  
Partnership Program

AbstrakPermasalahan kesehatan yang timbul saat ini merupakan akibat dari perilaku hidup yang tidak sehat. Gaya hidup yang kurang baik mengakibatkan tingginya angka kejadian Penyakit Tidak Menular, Di Desa Rambah Hilir kunjungan penderita hipertensi dan diabetes di Puskesmas Rambah Hilir I di tahun 2018 ini sampai bulan Juni 66 kasus Hipertensi 27 Kasus Diabetes. Gerakan Masyarakat Hidup Sehat (GERMAS) merupakan progam Pemerintah untuk mengajak masyarakat hidup sehat dengan focus pada 3 kegiatan utama yaitu melakukan aktifitas fisik, makan buah sayur dan cek kesehatan secara rutin minimal enam bulan sekali.Dalam Program Kemitraan Masyarakat ini upaya yang dilakukan adalah meningkatkan gaya hidup sehat yakni meningkatnya aktifitas fisik yang dilakukan dengan melaksanakan kegiatan rutin senam bersama setiap hari minggu dan meningkatkan konsumsi buah dan sayur dengan memanfaatkan lahan perkarangan rumah warga dengan menanam buah dan sayur dihalaman rumah untuk memenuhi kebutuhan konsumsi buah dan sayur. Upaya Peningkatan peran masyarakat dalam memeriksakan kesehatannya dengan mendirikan posko kesehatan untuk memudahkan masyarakat dalam memeriksa kesehatannya. Luaran yang telah dicapai adalah Adanya kegiatan senam rutin, meningkatnya konsumsi buah dan sayur dengan Adanya tanaman buah dan sayur disetiap rumah warga, makan buah dan sayur bersama setiap hari minggu, Adanya pemeriksaan kesehatan secara berkala.Abstract.Health problems that currently emergeare resulted from unhealthy living behaviours. A bad lifestyle causes an increase innon-communicable diseases cases. According to patient visit data until June 2018 at the community health centre (Puskesmas) Rambah Hilir I, Rambah Hilir Village, Rokan Hulu, Riau, it shows that there were 66 cases of hypertension and 27 cases of diabetes.The Healthy Life Society Movement (GERMAS) is a government program to encourage people to live a healthy lifestyle focusing on 3 main activities namely physical activities, eating vegetables, together with regular health check-upsat least once every 6 months. This community partnership program attempts to enhance the healthy lifestyle by intensifying physical activitiesthrough a routine collective exercise on every Sunday and increasing fruits and vegetables consumption. The community members’ yards are used as land to grow fruits and vegetables for meeting the community’s needs. Regarding the effort to improve the role of the community members to check their health, it was carried out by establishing a health post to facilitate them in checking-up their health. Outputs that have been achieved are the routine exercise; an increase in fruits and vegetables consumptionasthere are fruit and vegetable plants in every resident's houses; eating fruits and vegetables collectively on every Sunday; as well as regular health check-ups.

Risk and Protective Factors in the Life of Youth in Relation to Resilience

2018 ◽  
Vol 52 (1) ◽  
pp. 50-59
Author(s):  
Silvia Barnová ◽  
Viola Tamášová
Keyword(s):  
Social Support ◽  
Protective Factors ◽  
School Psychologists ◽  
Social Environment ◽  
Social Services ◽  
Service Providers ◽  
Vital Role ◽  
Great Role ◽  
Health Service Providers

Abstract Introduction: A certain degree of stress is present in everyone’s life and young people are not an exception. Most of them show a certain degree of resilience and can cope with stressful situations without any difficulties, however there is a group of youth who live in toxic environments and need help. If there is a risk of failure due to the intensity of stressors; external formal and informal support have a great role to play as they have the potential to prevent negative developmental outcomes. Purpose: The authors’ intention was to make a review of available literature on the current issues of resilience research with a focus on the importance of protective factors in young people’s lives – especially when they are exposed to adversity. An emphasis is placed on the vital role of social support to individuals provided by schools as well as social services. Methods: In the presented literature review, multiple formal search methods including hand searching of key journals; electronic searching of journal databases and subject specific websites; reference scanning; and citation tracking were used. Conclusion: Individuals commonly demonstrate some level of resilience, yet most of them are able to deal with stressful situations without any harm. On the other hand, if the adversity is too high, the presence of social support provided by their social environment is important. In this context, good relationships in general and sufficient external protective factors provided by their social environment (schools, school psychologists, institutional social and health service providers) are important.

Knowledge creation in small building and construction firms

2013 ◽  
Vol 1 (1) ◽  
pp. 125-142 ◽  
Author(s):  
Susanne Durst ◽  
Ingi Runar Edvardsson ◽  
Guido Bruns
Keyword(s):  
Construction Industry ◽  
Knowledge Creation ◽  
Vital Role ◽  
Knowledge Sources ◽  
Structured Interviews ◽  
Construction Firms ◽  
External Knowledge ◽  
Body Of Knowledge ◽  
Small Building

Studies on knowledge creation are limited in general, and there is a particular shortage of research on the topic in small and medium-sized enterprises (SMEs). Given the importance of SMEs for the economy and the vital role of knowledge creation in innovation, this situation is unsatisfactory. Accordingly, the purpose of our study is to increase our understanding of how SMEs create new knowledge. Data are obtained through semi-structured interviews with ten managing directors of German SMEs operating in the building and construction industry. The findings demonstrate the influence of external knowledge sources on knowledge creation activities. Even though the managing directors take advantage of different external knowledge sources, they seem to put an emphasis on informed knowledge sources. The study´s findings advance the limited body of knowledge regarding knowledge creation in SMEs.

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