ArticleGenome research2014
Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines.
Article in Genome research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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
52 citing papers in PubMed.
- Protocol for high-sensitivity detection of microRNAs in adult Drosophila tissues using hybridization chain reaction.STAR protocols · 2026Article
- Advancing insect research through cell line transcriptomics.In vitro cellular & developmental biology. Animal · 2026Review
- Recurrent expansion and rapid evolution of the Drosophilid RNAi pathway in testis.bioRxiv : the preprint server for biology · 2025Article
- Article
- Promiscuous splicing-derived hairpins are dominant substrates of tailing-mediated defense of miRNA biogenesis in mammals.Cell reports · 2023Article
- Review
- Transposable element expansion and low-level piRNA silencing in grasshoppers may cause genome gigantism.BMC biology · 2022Article
- Current Animal Model Systems for Ovarian Aging Research.Aging and disease · 2022Review
- Ongoing transposition in cell culture reveals the phylogeny of diverse Drosophila S2 sublines.Genetics · 2022Article
- Resources and Methods for the Analysis of MicroRNA Function in Drosophila.Methods in molecular biology (Clifton, N.J.) · 2022Review
- Expression characteristics of piRNAs in ovine luteal phase and follicular phase ovaries.Frontiers in veterinary science · 2022Article
- Transposable element profiles reveal cell line identity and loss of heterozygosity in Drosophila cell culture.Genetics · 2021Article
- A mosquito small RNA genomics resource reveals dynamic evolution and host responses to viruses and transposons.Genome research · 2021Article
- Review
- Global Analysis of Small Non-Coding RNA Populations across Tissues in the Malaria Vector,Insects · 2020Article
- Dynamic miRNA-mRNA interactions coordinate gene expression in adult Anopheles gambiae.PLoS genetics · 2020Article
- The evolutionary arms race between transposable elements and piRNAs in Drosophila melanogaster.BMC evolutionary biology · 2020Article
- Defining the expression of piRNA and transposable elements inLife science alliance · 2019Article
- Yb body assembly on theMolecular biology of the cell · 2019Article
- Small RNA-Seq Analysis Reveals miRNA Expression Dynamics Across Tissues in the Malaria Vector,G3 (Bethesda, Md.) · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
17 authors.
Funding
Abstract
We expanded the knowledge base for Drosophila cell line transcriptomes by deeply sequencing their small RNAs. In total, we analyzed more than 1 billion raw reads from 53 libraries across 25 cell lines. We verify reproducibility of biological replicate data sets, determine common and distinct aspects of miRNA expression across cell lines, and infer the global impact of miRNAs on cell line transcriptomes. We next characterize their commonalities and differences in endo-siRNA populations. Interestingly, most cell lines exhibit enhanced TE-siRNA production relative to tissues, suggesting this as a common aspect of cell immortalization. We also broadly extend annotations of cis-NAT-siRNA loci, identifying ones with common expression across diverse cells and tissues, as well as cell-restricted loci. Finally, we characterize small RNAs in a set of ovary-derived cell lines, including somatic cells (OSS and OSC) and a mixed germline/somatic cell population (fGS/OSS) that exhibits ping-pong piRNA signatures. Collectively, the ovary data reveal new genic piRNA loci, including unusual configurations of piRNA-generating regions. Together with the companion analysis of mRNAs described in a previous study, these small RNA data provide comprehensive information on the transcriptional landscape of diverse Drosophila cell lines. These data should encourage broader usage of fly cell lines, beyond the few that are presently in common usage.
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.