Difference between revisions of "Template:Article of the week"

From LIMSWiki
Jump to navigationJump to search
(Updated article of the week text.)
(Updated article of the week text)
(39 intermediate revisions by the same user not shown)
Line 1: Line 1:
<div style="float: left; margin: 0.5em 0.9em 0.4em 0em;">[[File:Fig2 Backman BMCBio2016 17.gif|240px]]</div>
'''"[[Journal:Defending our public biological databases as a global critical infrastructure|Defending our public biological databases as a global critical infrastructure]]"'''
'''"[[Journal:systemPipeR: NGS workflow and report generation environment|systemPipeR: NGS workflow and report generation environment]]"'''


Next-generation sequencing (NGS) has revolutionized how research is carried out in many areas of biology and medicine. However, the analysis of NGS data remains a major obstacle to the efficient utilization of the technology, as it requires complex multi-step processing of big data, demanding considerable computational expertise from users. While substantial effort has been invested on the development of software dedicated to the individual analysis steps of NGS experiments, insufficient resources are currently available for integrating the individual software components within the widely used R/Bioconductor environment into automated [[Workflow|workflows]] capable of running the analysis of most types of NGS applications from start-to-finish in a time-efficient and reproducible manner. ('''[[Journal:systemPipeR: NGS workflow and report generation environment|Full article...]]''')<br />
Progress in modern biology is being driven, in part, by the large amounts of freely available data in public resources such as the International Nucleotide Sequence Database Collaboration (INSDC), the world's primary database of biological sequence (and related) [[information]]. INSDC and similar databases have dramatically increased the pace of fundamental biological discovery and enabled a host of innovative therapeutic, diagnostic, and forensic applications. However, as high-value, openly shared resources with a high degree of assumed trust, these repositories share compelling similarities to the early days of the internet. Consequently, as public biological databases continue to increase in size and importance, we expect that they will face the same threats as undefended cyberspace. There is a unique opportunity, before a significant breach and loss of trust occurs, to ensure they evolve with quality and security as a design philosophy rather than costly “retrofitted” mitigations. This perspective article surveys some potential quality assurance and security weaknesses in existing open [[Genomics|genomic]] and [[Proteomics|proteomic]] repositories, describes methods to mitigate the likelihood of both intentional and unintentional errors, and offers recommendations for risk mitigation based on lessons learned from [[cybersecurity]]. ('''[[Journal:Defending our public biological databases as a global critical infrastructure|Full article...]]''')<br />
<br />
<br />
''Recently featured'':
''Recently featured'':
: ▪ [[Journal:A data quality strategy to enable FAIR, programmatic access across large, diverse data collections for high performance data analysis|A data quality strategy to enable FAIR, programmatic access across large, diverse data collections for high performance data analysis]]
: ▪ [[Journal:Determining the hospital information system (HIS) success rate: Development of a new instrument and case study|Determining the hospital information system (HIS) success rate: Development of a new instrument and case study]]
: ▪ [[Journal:How big data, comparative effectiveness research, and rapid-learning health care systems can transform patient care in radiation oncology|How big data, comparative effectiveness research, and rapid-learning health care systems can transform patient care in radiation oncology]]
: ▪ [[Journal:Smart information systems in cybersecurity: An ethical analysis|Smart information systems in cybersecurity: An ethical analysis]]
: ▪ [[Journal:Wireless positioning in IoT: A look at current and future trends|Wireless positioning in IoT: A look at current and future trends]]
: ▪ [[Journal:Chemometric analysis of cannabinoids: Chemotaxonomy and domestication syndrome|Chemometric analysis of cannabinoids: Chemotaxonomy and domestication syndrome]]

Revision as of 15:16, 23 July 2019

"Defending our public biological databases as a global critical infrastructure"

Progress in modern biology is being driven, in part, by the large amounts of freely available data in public resources such as the International Nucleotide Sequence Database Collaboration (INSDC), the world's primary database of biological sequence (and related) information. INSDC and similar databases have dramatically increased the pace of fundamental biological discovery and enabled a host of innovative therapeutic, diagnostic, and forensic applications. However, as high-value, openly shared resources with a high degree of assumed trust, these repositories share compelling similarities to the early days of the internet. Consequently, as public biological databases continue to increase in size and importance, we expect that they will face the same threats as undefended cyberspace. There is a unique opportunity, before a significant breach and loss of trust occurs, to ensure they evolve with quality and security as a design philosophy rather than costly “retrofitted” mitigations. This perspective article surveys some potential quality assurance and security weaknesses in existing open genomic and proteomic repositories, describes methods to mitigate the likelihood of both intentional and unintentional errors, and offers recommendations for risk mitigation based on lessons learned from cybersecurity. (Full article...)

Recently featured:

Determining the hospital information system (HIS) success rate: Development of a new instrument and case study
Smart information systems in cybersecurity: An ethical analysis
Chemometric analysis of cannabinoids: Chemotaxonomy and domestication syndrome