ArticleOmics : a journal of integrative biology2014
Toward more transparent and reproducible omics studies through a common metadata checklist and data publications.
Article in Omics : a journal of integrative biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
21 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Towards an understanding of the avian virome.The Journal of general virology · 2020Pooled it
- Perceptual and technical barriers in sharing and formatting metadata accompanying omics studies.Cell genomics · 2025Review
- Ten simple rules for starting FAIR discussions in your community.PLoS computational biology · 2023Article
- Metadata harmonization-Standards are the key for a better usage of omics data for integrative microbiome analysis.Environmental microbiome · 2022Article
- Expanding and Remixing the Metadata Landscape.Trends in cancer · 2021Review
- Data Integration Challenges for Machine Learning in Precision Medicine.Frontiers in medicine · 2021Review
- "Ethics When You Least Expect It": A Modular Approach to Short Course Data Ethics Instruction.Science and engineering ethics · 2020Article
- Implementing the FAIR Data Principles in precision oncology: review of supporting initiatives.Briefings in bioinformatics · 2020Review
- A systems approach to clinical oncology uses deep phenotyping to deliver personalized care.Nature reviews. Clinical oncology · 2020Review
- Dual Analysis of Virus-Host Interactions: The Case ofEvolutionary bioinformatics online · 2019Review
- Turning omics data into therapeutic insights.Current opinion in pharmacology · 2018Review
- EPIGEN-Brazil Initiative resources: a Latin American imputation panel and the Scientific Workflow.Genome research · 2018Article
- Reproducibility2020: Progress and priorities.F1000Research · 2017Review
- Omics-Based Strategies in Precision Medicine: Toward a Paradigm Shift in Inborn Errors of Metabolism Investigations.International journal of molecular sciences · 2016Review
- A novel framework for assessing metadata quality in epidemiological and public health research settings.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2016Article
- From big data analysis to personalized medicine for all: challenges and opportunities.BMC medical genomics · 2015Review
- Beyond protein expression, MOPED goes multi-omics.Nucleic acids research · 2015Article
- The reproducibility of biomedical research: Sleepers awake!Biomolecular detection and quantification · 2014Review
- Metadata checklist: identification of CHI3L1 and MASP2 as a biomarker pair for liver cancer through integrative secretome and transcriptome analysis.Omics : a journal of integrative biology · 2014Article
- Knowledge Discovery and interactive Data Mining in Bioinformatics--State-of-the-Art, future challenges and research directions.BMC bioinformatics · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
61 authors.
Funding
Abstract
Biological processes are fundamentally driven by complex interactions between biomolecules. Integrated high-throughput omics studies enable multifaceted views of cells, organisms, or their communities. With the advent of new post-genomics technologies, omics studies are becoming increasingly prevalent; yet the full impact of these studies can only be realized through data harmonization, sharing, meta-analysis, and integrated research. These essential steps require consistent generation, capture, and distribution of metadata. To ensure transparency, facilitate data harmonization, and maximize reproducibility and usability of life sciences studies, we propose a simple common omics metadata checklist. The proposed checklist is built on the rich ontologies and standards already in use by the life sciences community. The checklist will serve as a common denominator to guide experimental design, capture important parameters, and be used as a standard format for stand-alone data publications. The omics metadata checklist and data publications will create efficient linkages between omics data and knowledge-based life sciences innovation and, importantly, allow for appropriate attribution to data generators and infrastructure science builders in the post-genomics era. We ask that the life sciences community test the proposed omics metadata checklist and data publications and provide feedback for their use and improvement.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.