8,222 Works

The Annual Indicator Monitoring and Periodic Review Processes: ELIXIR Core Data Resources and Deposition Databases

Rachel Drysdale, Jo McEntyre, Christine Durinx, Jerry Lanfear & Niklas Blomberg
In establishing the list of ELIXIR Core Data Resources (https://elixir-europe.org/platforms/data/core-data-resources) and the list of ELIXIR Deposition Databases (https://elixir-europe.org/platforms/data/elixir-deposition-databases), it was recognised that periodic review of the lists will be necessary, to ensure that the standards applied in making these selections are maintained, as is the relevance of the scope of the chosen resources to life science bioinformatics, as new technologies are developed and new fields of research emerge, in some cases superseding older technologies, and...

Integration of Hepatitis B screening and prevention into ante-natal care and delivery services in an urban cohort in Mozambique

Natalia Tamayo Antabak, Anne Loarec, Aude Nguyen, Námita Da Conceição Milicinho Eliseo, Lucas Molfino, Javier Goiri, Iza Ciglenecki & Ana Mafalda Chissano

Does current palliative and end of life care research match the priorities of patients, carers and clinicians? A grant mapping analysis of the UK Clinical Research Collaboration’s Health Research Classification System dataset 2014

Florence Todd Fordham, Bridget Candy, Stevie McMillan, Sanjay Thakrar, Bill Noble & Sabine Best
This report highlights under-researched areas in palliative and end of life care. It provides a snapshot of ongoing and very recent research by mapping research activity in 2014 against 83 questions from patients, carers and health and social care professionals. The questions were identified through the Palliative and end of life care Priority Setting Partnership (PeolcPSP) with the James Lind Alliance (JLA).

The report is for researchers, funders and policy planners. It can help them:

• avoid...

It does not take a unicorn: how cities can attract private sector participation in addressing the urban sanitation crisis

David Auerbach, Ruthie Rosenberg, Isabelle Poulet & Sheila Kibuthu
Private sector approaches to sanitation in low-income areas of fast-growing cities in the developing world have struggled to gain traction. The spending potential of the typical customer is lower, governments are operating on highly constrained budgets, and the benefits that wealthier areas have that can make running a business smooth are often lacking. And yet, there is no more urgent time to bring in the private sector than now – 60 million people are moving...

Case study: tobacco control policy adoption and implementation in Senegal

Beth Pulawski & Mamadou Bamba Sagna
Many countries in Africa and across the world are seeking to adopt, implement and strengthen their tobacco control policies and programs to prevent tobacco use and encourage smokers to quit. The adoption and implementation of Senegal’s 2014 Tobacco Control bill has emerged as a potential model for replication by other countries. This case study identifies critical factors and turning points that led to Senegal’s success, major challenges faced, and other distinguishing factors, to provide insight...

Case study: tobacco control policy adoption and implementation in Senegal

Beth Pulawski & Mamadou Bamba Sagna
Many countries in Africa and across the world are seeking to adopt, implement and strengthen their tobacco control policies and programs to prevent tobacco use and encourage smokers to quit. The adoption and implementation of Senegal’s 2014 Tobacco Control bill has emerged as a potential model for replication by other countries. This case study identifies critical factors and turning points that led to Senegal’s success, major challenges faced, and other distinguishing factors, to provide insight...

Visual adaptation distorts judgments of human behavior during naturalistic viewing

Nick Barraclough, Joanna Wincenciak, James Ward, Tjeerd Jellema & Bruce Keefe

Species richness, forest structure, and functional diversity during succession in the New Guinea lowlands

Timothy Whitfeld, Jesse Laskey, Kipiro Damas, Gibson Sosanika, Kenneth Molem & Rebecca Montgomery
Over half of all temperate and tropical forested areas have been classified as regenerating, young secondary forests. These areas are important reservoirs of biodiversity and significant sources of timber and non-timber products. Studies exist that examine patterns in richness and shifts in traits through succession but less is known about changes in functional diversity as forests age. We examined changes in forest structure, plant species richness, and plant functional traits. In addition, we estimated rarified...

Characterization of maize producing households in Cacuaco and Lobito municipalities of Angola

Manuvanga Kiakanua, António Chichicuhua, Desideria V. Pedro, Vuvu Kua Nzambi & Helder S. C. Jezo
Characterization of maize producing households in Cacuaco and Lobito municipalities of Angola

AIDS-related cytomegalovirus screening and treatment in a referral primary health centre in Mozambique

Ana G. Gutierrez, Natalia Tamayo Antabak, Gil Muvale, Peter Saranchuk, Lucas Molfino, Adrian Guadarrama, Iza Ciglenecki & David Heiden

Hepatitis B prevention of mother to child transmission integrated into antenatal care services in Mozambique

Aude Nguyen, NATALIA TAMAYO ANTABAK, Maira Chanase Rodrigues Marra, Natercia Madeira, Lucas Molfino, Nelly Staderini & Anne Loarec

Open Science at the Montreal Neurological Institute and Hospital: the buy-in process.

Viviane Poupon, Annabel Seyller, Aled Edwards, Richard Gold & Guy Rouleau
This document is a white paper describing the process undertaken by The Montreal Neurological Institute and Hospital (The Neuro) to become an Open Science Institute.

Hepatitis B screening and prevention integration into ante-natal care and delivery services in an urban cohort in Mozambique

Natalia Tamayo Antabak, Anne Loarec, Aude Nguyen, Námita Da Conceição Milicinho Eliseo, Lucas Molfino, Iza Ciglenecki & Ana Mafalda Chissano

HCV diagnosis and direct-acting antiviral agents-based treatment for HIV/HCV co-infected patients in a primary care setting in Maputo, Mozambique

Natalia Tamayo Antabak, Ana Gabriela Zamudio, Lucas Molfino, Sheila Cassamo Issufu, Anne Loarec & Aude Nguyen

Focus on Land in Africa Brief: Cameroon. Experiences with Transferring Forest Rights

Anne-Gaelle Javelle
Focus on Land in Africa Brief: Cameroon. Experiences with Transferring Forest Rights

FROGS: Find Rapidly OTU with Galaxy Solution

Frederic Escudie, Lucas Auer, Maria Bernard, Laurent Cauquil, Katia Vidal, Sarah Maman, Mahendra Mariadassou, Guillermina Hernandez-Raquet & Geraldine Pascal
High-throughput sequencing of 16S/18S/23S RNA amplicons has opened new horizons in the study of microbe communities. With the sequencing at great depth the current processing pipelines struggle to run rapidly and the most effective solutions are often designed for specialists. These tools are designed to give both the abundance table of operational taxonomic units (OTUs) and their taxonomic affiliation. In this context we developed the pipeline FROGS: « Find Rapidly OTU with Galaxy Solution »....

Auxin regulatory module evolution during C4 plant evolution

Yao-Ming Chang, Arthur Chun-Chieh Shih & Wen-Hsiung Li
Auxin, a plant phytohormone, plays an important role in vasculature development of vascular plants through the feedback regulation between auxin responsive factors (ARFs) and AUX/IAA proteins. In flowering plants, more than twenty genes in both ARF and AUX/IAA families have been identified but their regulatory relationships are still largely unknown. In this study, we analyzed three time-course transcriptome datasets from maize foliar (C4), husk (C3-like) and rice (C3) embryonic leaves and found that most ARF...

The Annual Indicator Monitoring and Periodic Review Processes: ELIXIR Core Data Resources and Deposition Databases

Rachel Drysdale, Jo McEntyre, Christine Durinx, Jerry Lanfear & Niklas Blomberg
In establishing the list of ELIXIR Core Data Resources (https://elixir-europe.org/platforms/data/core-data-resources) and the list of ELIXIR Deposition Databases (https://elixir-europe.org/platforms/data/elixir-deposition-databases), it was recognised that periodic review of the lists will be necessary, to ensure that the standards applied in making these selections are maintained, as is the relevance of the scope of the chosen resources to life science bioinformatics, as new technologies are developed and new fields of research emerge, in some cases superseding older technologies, and...

ELIXIR Position Paper on Suitable Business Models for Open Data

Andrew Smith, Corinne Martin, Niklas Blomberg & ELIXIR Consortium
This documents outlines ELIXIR’s position on the different business models for access and use of bioinformatics data. Reflecting its commitment to Open Data, Open Source and Open Science, ELIXIR's recommendation for the European Open Science Cloud is that non-depletable resources (such as data, tools and software and standards) developed through public funding should be provided to users without charge (i.e. a “public good”). Charging users for access to depletable resources (including HPC/cloud computing and data...

Mechanisms of spontaneous preterm birth (sPTB) in Zambian women – increased risk by HIV and ART?

Kristina De Paris, Katelyn Rittenhouse, Humphrey Mwabe, Joan Price, Bellington Vwalika, Elizabeth Stringer & Jeffrey Stringer
Preterm birth (PTB) continues to be a major global problem affecting both maternal and infant health. HIV-1 infected women carry an additional risk of PTB.

Spontaneous PTB is multifactorial in etiology, but the predominant phenotype is inflammatory.We propose that dysregulated maternal immune responses increase the risk of sPTB by impeding the tightly controlled processes at the maternal-fetal interface during pregnancy. Leveraging ongoing pregnancy cohorts in Zambia with an established sample biorepository, and applying an...

An introduction to sharing medical knowledge

Alin Teodosiu
A presentation highlighting the intrinsic importance of teaching for the medical culture as a whole while also providing useful guidelines for beginners as well as experienced teachers alike.

Core outcomes In neonatology: a core outcome set based on routinely collected data

James Webbe, Ginny Brunton, Shohaib Ali, Neena Modi & Chris Gale
Poster describing the development of a core outcome set for neonatal medicine which will identify which outcomes are most important to all affected by neonatal care.
This will facilitate evidence synthesis in neonatal medicine and be used to improve the national registry, audit and benchmarking processes.

Completing the puzzle: The unique role AMRC charities play in UK health research

AMRC
This infographic was published on the AMRC website on 28 January 2020. All stats are derived from the data gathered for the UK Health Research Analysis 2018 (UK Clinical Research Collaboration, 2020), which was compiled by the Medical Research Council (MRC), overseen and approved by the Health Research Analysis Forum (HRAF) on behalf of the UKCRC. The full report, dataset and analysis methods can be found here.

DEN-IM: dengue virus identification from metagenomic sequencing data

C I Mendes, E Lizarazo, M P Machado, D N Silva, A Tami, M Ramirez, N Couto, J W A Rossen & J A Carriço
Background: Dengue virus (DENV) posses a public health challenge where infection is endemic. To follow viral evolution and its impact on human health, high throughput sequencing technologies (HTS) are of great value in the molecular characterization of viruses causing the infections. However, bioinformatic expertise and appropriate computing infrastructure are required for accurate HTS data analysis and interpretation of the sequencing data.
Materials/Methods: We developed DEN-IM, an automated workflow enabling the analysis of metagenomic sequencing data...

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