Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities
Various next generation sequencing (NGS) based strategies have been successfully used in
the recent past for tracing origins and understanding the evolution of infectious agents …
the recent past for tracing origins and understanding the evolution of infectious agents …
Challenges and best practices in omics benchmarking
TG Brooks, NF Lahens, A Mrčela, GR Grant - Nature Reviews Genetics, 2024 - nature.com
Technological advances enabling massively parallel measurement of biological features—
such as microarrays, high-throughput sequencing and mass spectrometry—have ushered in …
such as microarrays, high-throughput sequencing and mass spectrometry—have ushered in …
The nf-core framework for community-curated bioinformatics pipelines
To the Editor—The standardization, portability and reproducibility of analysis pipelines are
key issues within the bioinformatics community. Most bioinformatics pipelines are designed …
key issues within the bioinformatics community. Most bioinformatics pipelines are designed …
The EMBL-EBI search and sequence analysis tools APIs in 2019
The EMBL-EBI provides free access to popular bioinformatics sequence analysis
applications as well as to a full-featured text search engine with powerful cross-referencing …
applications as well as to a full-featured text search engine with powerful cross-referencing …
Making sense of big data in health research: towards an EU action plan
Medicine and healthcare are undergoing profound changes. Whole-genome sequencing
and high-resolution imaging technologies are key drivers of this rapid and crucial …
and high-resolution imaging technologies are key drivers of this rapid and crucial …
Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities
With the development of new experimental technologies, biologists are faced with an
avalanche of data to be computationally analyzed for scientific advancements and …
avalanche of data to be computationally analyzed for scientific advancements and …
[HTML][HTML] The role of metadata in reproducible computational research
Reproducible computational research (RCR) is the keystone of the scientific method for in
silico analyses, packaging the transformation of raw data to published results. In addition to …
silico analyses, packaging the transformation of raw data to published results. In addition to …
[HTML][HTML] Four simple recommendations to encourage best practices in research software
RC Jiménez, M Kuzak, M Alhamdoosh, M Barker… - …, 2017 - ncbi.nlm.nih.gov
Scientific research relies on computer software, yet software is not always developed
following practices that ensure its quality and sustainability. This manuscript does not aim to …
following practices that ensure its quality and sustainability. This manuscript does not aim to …
Actively triggerable metals via liquid metal embrittlement for biomedical applications
Actively triggerable materials, which break down upon introduction of an exogenous
stimulus, enable precise control over the lifetime of biomedical technologies, as well as …
stimulus, enable precise control over the lifetime of biomedical technologies, as well as …
Current RNA-seq methodology reporting limits reproducibility
J Simoneau, S Dumontier, R Gosselin… - Briefings in …, 2021 - academic.oup.com
Ribonucleic acid sequencing (RNA-seq) identifies and quantifies RNA molecules from a
biological sample. Transformation from raw sequencing data to meaningful gene or isoform …
biological sample. Transformation from raw sequencing data to meaningful gene or isoform …