ArticleSystematic biology2019
Phylotocol: Promoting Transparency and Overcoming Bias in Phylogenetics.
Article in Systematic biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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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.
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Who cites it
12 citing papers in PubMed.
- Morphological and dietary changes encoded in the genome ofNAR genomics and bioinformatics · 2024Article
- Cytoplasmic Polyadenylation Is an Ancestral Hallmark of Early Development in Animals.Molecular biology and evolution · 2023Article
- Single-cell atavism reveals an ancient mechanism of cell type diversification in a sea anemone.Nature communications · 2023Article
- Independent Innexin Radiation Shaped Signaling in Ctenophores.Molecular biology and evolution · 2023Article
- Gene Loss may have Shaped the Cnidarian and Bilaterian Hox and ParaHox Complement.Genome biology and evolution · 2023Article
- A Chromosome-level Genome Assembly of the Highly Heterozygous Sea Urchin Echinometra sp. EZ Reveals Adaptation in the Regulatory Regions of Stress Response Genes.Genome biology and evolution · 2022Article
- Six-State Amino Acid Recoding is not an Effective Strategy to Offset Compositional Heterogeneity and Saturation in Phylogenetic Analyses.Systematic biology · 2021Article
- Draft Genome of the Sea CucumberFrontiers in Marine Science · 2021Article
- Insect morphometry is reproducible under average investigation standards.Ecology and evolution · 2021Article
- Inferring Tunicate Relationships and the Evolution of the Tunicate Hox Cluster with the Genome of Corella inflata.Genome biology and evolution · 2020Article
- Sponges Lack ParaHox Genes.Genome biology and evolution · 2019Article
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Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The integrity of science requires that the process be based on sound experimental design and objective methodology. Strategies that increase reproducibility and transparency in science protect this integrity by reducing conscious and unconscious biases. Given the large number of analysis options and the constant development of new methodologies in phylogenetics, this field is one that would particularly benefit from more transparent research design. Herein, we introduce phylotocol (fi lō 'ta kôl), an a priori protocol-driven approach in which all analyses are planned and documented at the start of a project. The phylotocol template is simple and the implementation options are flexible to reduce administrative burdens and allow researchers to adapt it to their needs without restricting scientific creativity. While the primary goal of phylotocol is to increase transparency and accountability, it has a number of auxiliary benefits including improving study design and reproducibility, enhancing collaboration and education, and increasing the likelihood of project completion. Our goal with this Point of View article is to encourage a dialog about transparency in phylogenetics and the best strategies to bring transparent research practices to our field.
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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.