ArticlePloS one2013
Transcriptome analysis of newt lens regeneration reveals distinct gradients in gene expression patterns.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers, 1 of them a synthesis that pooled it.
What it found
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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.
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
27 citing papers in PubMed, 1 synthesis or guideline pooled it, 43 citations in OpenAlex.
- Transcriptome Meta-Analysis Uncovers Cell-Specific Regulatory Relationships in Embryonic, Juvenile, Adult, and Aged Mouse Lens Epithelium and Fibers.Investigative ophthalmology & visual science · 2025Pooled it
- Contributions of aquatic organisms to understanding the vertebrate ocular lens.Frontiers in ophthalmology · 2026Review
- A Single Cell Atlas of the Newt Iris During Lens Regeneration.bioRxiv : the preprint server for biology · 2025Article
- Macrophages modulate fibrosis during newt lens regeneration.Stem cell research & therapy · 2024Article
- Integrated single-cell multiomics uncovers foundational regulatory mechanisms of lens development and pathology.Development (Cambridge, England) · 2024Article
- Macrophages modulate fibrosis during newt lens regeneration.Research square · 2023Article
- Isolation and Characterization of Peritoneal Macrophages from Salamanders.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Pigment Epithelia of the Eye: Cell-Type Conversion in Regeneration and Disease.Life (Basel, Switzerland) · 2022Review
- Genome of the sea anemoneFrontiers in cell and developmental biology · 2022Article
- Article
- In Vivo Imaging of Newt Lens Regeneration: Novel Insights Into the Regeneration Process.Translational vision science & technology · 2021Article
- Genes causing congenital hydrocephalus: Their chromosomal characteristics of telomere proximity and DNA compositions.Experimental neurology · 2021Review
- Salamanders: The molecular basis of tissue regeneration and its relevance to human disease.Current topics in developmental biology · 2021Review
- Article
- Insights into regeneration tool box: An animal model approach.Developmental biology · 2019Review
- Transcriptional correlates of proximal-distal identify and regeneration timing in axolotl limbs.Comparative biochemistry and physiology. Toxicology & pharmacology : CBP · 2018Article
- Lens regeneration: a historical perspective.The International journal of developmental biology · 2018Review
- Systems biology of lens development: A paradigm for disease gene discovery in the eye.Experimental eye research · 2017Review
- Mutations in CPAMD8 Cause a Unique Form of Autosomal-Recessive Anterior Segment Dysgenesis.American journal of human genetics · 2016Article
- LimiTT: link miRNAs to targets.BMC bioinformatics · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
Regeneration of the lens in newts is quite a unique process. The lens is removed in its entirety and regeneration ensues from the pigment epithelial cells of the dorsal iris via transdifferentiation. The same type of cells from the ventral iris are not capable of regenerating a lens. It is, thus, expected that differences between dorsal and ventral iris during the process of regeneration might provide important clues pertaining to the mechanism of regeneration. In this paper, we employed next generation RNA-seq to determine gene expression patterns during lens regeneration in Notophthalmus viridescens. The expression of more than 38,000 transcripts was compared between dorsal and ventral iris. Although very few genes were found to be dorsal- or ventral-specific, certain groups of genes were up-regulated specifically in the dorsal iris. These genes are involved in cell cycle, gene regulation, cytoskeleton and immune response. In addition, the expression of six highly regulated genes, TBX5, FGF10, UNC5B, VAX2, NR2F5, and NTN1, was verified using qRT-PCR. These graded gene expression patterns provide insight into the mechanism of lens regeneration, the markers that are specific to dorsal or ventral iris, and layout a map for future studies in the field.
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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.