ArticleBioinformatics (Oxford, England)2023
peaks2utr: a robust Python tool for the annotation of 3' UTRs.
Article in Bioinformatics (Oxford, England), 2023. 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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Who cites it
12 citing papers in PubMed.
- The carbohydrate utilization regulator Cbr1 coordinates nutrient-specific gene activation with selective carbon catabolite repression in a basidiomycete yeast.PLoS biology · 2026Article
- Single-Nucleus Transcriptome Analysis Provides New Insights Into B Chromosome Elimination in Sorghum.Plant biotechnology journal · 2026Article
- Trypanosoma cruzi cell atlas as a single-cell resource for understanding parasite population heterogeneity and differentiation.Nature communications · 2026Article
- Chromosome-level genome assembly of the sponge Halisarca dujardinii.Scientific data · 2026Article
- Single-cell RNA-seq reveals trans-sialidase-like superfamily gene expression heterogeneity ineLife · 2026Article
- GeneExt: a gene model extension tool for enhanced single-cell RNA-seq analysis.Bioinformatics (Oxford, England) · 2026Article
- MedakaBase as a unified genomic resource platform for medaka fish biology.DNA research : an international journal for rapid publication of reports on genes and genomes · 2025Article
- Establishing single cell RNA transcriptomics: a brief guide.Frontiers in zoology · 2025Review
- The divergent intron-containing actin in sponge morphogenetic processes.NAR genomics and bioinformatics · 2025Article
- paraCell: a novel software tool for the interactive analysis and visualization of standard and dual host-parasite single-cell RNA-seq data.Nucleic acids research · 2025Article
- Revealing gene expression heterogeneity in a clonal population ofBiochemistry and biophysics reports · 2024Article
- Single-cell transcriptomics refuels the exploration of spiralian biology.Briefings in functional genomics · 2023Review
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Authors and funding
3 authors.
Funding
Abstract
summaryAnnotation of nonmodel organisms is an open problem, especially the detection of untranslated regions (UTRs). Correct annotation of UTRs is crucial in transcriptomic analysis to accurately capture the expression of each gene yet is mostly overlooked in annotation pipelines. Here we present peaks2utr, an easy-to-use Python command line tool that uses the UTR enrichment of single-cell technologies, such as 10× Chromium, to accurately annotate 3' UTRs for a given canonical annotation. AVAILABILITY AND IMPLEMENTATION: peaks2utr is implemented in Python 3 (≥3.8). It is available via PyPI at https://pypi.org/project/peaks2utr and GitHub at https://github.com/haessar/peaks2utr. It is licensed under GNU GPLv3.
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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.