21,242 Works

Using LiDAR to assess transitions in riparian vegetation structure along a rural-to-urban land use gradient in western North America

Noortje H. Grijseels, Paul D. Brooks, Martin Buchert & Diane E. Pataki
Riparian forests, although relatively small in extent, contribute greatly to regional productivity and ecosystem services. Rapid expansion of urban areas and growing human populations are increasingly disturbing these ecosystems. This may impair important ecosystem functions, making it essential to better understand the effects of human disturbances and hydrological changes on riparian vegetation. We used Red Butte Creek in the Salt Lake Valley, Utah as a case study to evaluate vegetation structure along land use and...

Metacognition for healthcare adhesion as a way of prevention of health aid: what can Occupational Therapy learn from this?

Márcia Regina De Assis, Pedro Henrique Maraglia, Leonardo Valesi Valente & Mauricio Abreu Pinto Peixoto
INTRODUCTION:
Self-Care is the core of human occupation when verified in terms of daily life, it is the most intimate expression with everyday life and the relationships that people establish with themselves. The self-care learning approach, as a way to prevent health problems, is necessary as chronic noncommunicable diseases have their incidence increased each year (BRAZIL, 2013). In chronic diseases, successful treatment depends largely on the active participation and commitment of the user. Learning and motivation...

Chimeric Reads and Where to Find Them

David Eccles
When we prepare more than one DNA sample for sequencing, we attach a known sequence of DNA to the sample. These "DNA barcodes" mean that as long as we are able to read the sequence, no matter how much the individual sequences jumbled up, they can always be assigned to the right origin or destination.

At least, that's what's meant to happen. Sometimes when you get one thing sequenced, and later on open up your folder...

Bioinspired algorithms in bioinformatics

Katya Rodríguez-Vázquez
In the field of Computer Sciences, Artificial Intelligence can be defined as the ability of reasoning of an artificial agent. In this area, it is used the term of “intelligent machine or intelligent computer”, but instead of “machines”, these are computer algorithms that automatically improve through experience. These are algorithms that “learn” and “adapt” to their environment; this means, a problem to be solved. Thus, we can talk about evolutionary and bio-inspired algorithms, techniques that...

Link-HD: a tool to multiple-microbial communities integration

Laura M. Zingaretti, Gilles Renand, Diego P. Morgavi & Yuliaxis Ramayo-Caldas
We present Link-HD, an approach to integrate multiple datasets. Link-HD is a generalization of STATIS-ACT (‘Structuration des Tableaux A Trois Indices de la Statistique –Analyse Conjointe de Tableaux’), a family of methods designed to integrate information from heterogeneous data. We extend the classical approach to deal with broader datasets (e.g., compositional data), we also incorporate methods for variable selection, and taxon-set enrichment analysis. We illustrate the methodology by integrating rumen microbial communities from cows for...

Mercury: high quality visualization and reproducible analysis of scRNA-seq data

Ash Blibaum & Alexander Dobin
Single cell RNA-seq (scRNA-seq) has recently become an extremely popular methodology for the analysis of biological systems, providing transcriptome profiles at single cell resolution. However, scRNA-seq data is challenging to analyse due to its high dimensionality and sparsity, making visual and supervised analysis of the data crucially important. This typically involves visualization of cell clustering, manual editing and definition of cell clusters/groups, and selection of cell groups for differential expression analysis. Though hundreds of tools...

Aging disabilities and Negligence in Bangladesh

Md. Shahariar Islam
In Bangladesh due to improved quality of life the number of people over 60 years is increasing rapidly. The growing trend towards nuclear family or where children live abroad will put the elderly parents in a dilemma-the financial and social support that is essential for them has not yet emerged. The nutrition and health status of elderly people depend on adequate food, safe water, proper sanitation facilities and maintaining hygienic standards. Disability among older adults...

ProtoCell: automated identification of cell types in scRNA-seq data using prototypical neural networks

Ash Blibaum & Alexander Dobin
One of the most crucial components of Single-cell RNA-seq data analysis is the classification of each cell into its characteristic type. This is typically done via unsupervised clustering and differential expression of marker genes, which is a manual and time consuming process with poor reproducibility. To alleviate these problems, various machine learning techniques are now being used to automatically classify cell types via large datasets of manual annotations. However, we show that models previously shown...

Bioinspired Algorithms in Bioinformatics

Katya Rodriguez-Vazquez
In the field of Computer Sciences, Artificial Intelligence can be defined as the ability of reasoning of an artificial agent. In this area, it is used the term of “intelligent machine or intelligent computer”, but instead of “machines”, these are computer algorithms that automatically improve through experience. These are algorithms that “learn” and “adapt” to their environment; this means, a problem to be solved. Thus, we can talk about evolutionary and bio-inspired algorithms, techniques that...

Using domain-specific vocabulary to detect multiple-word phrases to improve Word2Vec embedding performance in medical literature

Attayeb Mohsen, Yi-An Chen & Kenji Mizuguchi
Word2Vec[1] used neural network to represent text in a vector space. Each word is represented in a form of continuous vector. The values of these vectors are influenced by the context they are used in. Word2Vec representation can be used to understand the relations between words; It can also show the similarity between the words in usage and meaning.
Many medical terms consist of more than one word, for example, “Diabetes mellitus” and “Myocardial infarction.”...

Levels of cerebrospinal fluid biomarkers total tau and phosphorylated tau do not predict survival time after diagnosis of Alzheimer’s disease – An 18-year follow-up

Carina Wattmo, Kaj Blennow, Lennart Minthon & Oskar Hansson
The current study aims to investigate whether pathological levels of total tau (T-tau) and/or phosphorylated tau (P-tau) can predict survival in Alzheimer's disease (AD).

Mortality in AD is complex and depends on many factors e.g., demographic and clinical. In this clinical-practice-based long-term study, almost half of the participants with AD had normal levels of tau. We found no clear results that the levels of T-tau and/or P-tau affect survival after diagnosis in AD. This observation does...

Personalized neoantigen vaccination with synthetic long peptides

John P. Finnigan, Alex Rubinsteyn, Tavi Nathanson, Nicholas Akers, Nina Bhardwaj, Jeff Hammerbacher, Bojan Losic & Eric Schadt
Mutations in cancer may give rise to novel antigenic peptides, known as tumor neoantigens, that are promising targets for immunotherapy. However, due to the complexity and heterogeneity of most cancers, a single antigenic target is often insufficient for achieving a durable response or remission. Vaccines using single, short synthetic peptides are vulnerable to immune evasion or may even promote immune tolerance and/or anergy, leading to increased tumor growth. Cancer vaccination has moved in two promising...

Enrichment of PRC2-binding RNA motifs for RNA-mediated regulation

Haroon Naeem, Stuart Archer, David Powell & Chen Davidovich
Motivation: Polycomb repressive complex 2 (PRC2) has been discovered as an important chromatin regulator of epigenetic gene silencing. PRC2 functions by interacting with nascent RNAs, repressing thousands of target transcripts. However, little is known about how PRC2 identifies these RNAs.

Results: We empirically quantified the genome-wide and transcriptome-wide association between PRC2 and G-tract rich motifs of the sequences [GnNm]k, where G is a guanine and N can be any nucleotide. We show that motifs composed...

Concomitant O-GlcNAcylation and phosphorylation of a plant virus capsid protein

Sandra Martínez-Turiño, Jesús Pérez, Marta Hervás, S Ciordia, R Navajas, MC Mena & Juan Antonio García Álvarez
O-linked b-D-N-acetylglucosamine modification has been shown to play a very important role in a number of pathophysiological human conditions. However, contrary to animals, this PTM has been barely studied in plants.

Plum pox virus (PPV) (genus Potyvirus) causes sharka, one of the most damaging diseases affecting stone fruit trees. PPV genome is a positive-sense single-stranded RNA encapsidated by a single type of capsid protein (CP) in flexuous rod particles. The PPV CP is the best-characterized target...

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