ArticleInternational journal of molecular sciences2020
Evaluation of Seven Different RNA-Seq Alignment Tools Based on Experimental Data from the Model Plant
Article in International journal of molecular sciences, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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.
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Who cites it
28 citing papers in PubMed, 54 citations in OpenAlex.
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- Systematic evaluation of long- and short-read RNA-seq for human peripheral blood.NAR molecular medicine · 2026Article
- Bovine Endometrium Drives and Responds to Divergence of In Vitro Produced Conceptus Biochemistry.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2025Article
- A plastid lipid-associated protein-encoding gene (GhPAP) that positively regulates fiber strength was identified via genetic mapping and transcriptomic analysis of a stable QTL on chromosome D06 of upland cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Regulatory analysis of root architectural and anatomical adaptation to nitrate and ammonium inFrontiers in plant science · 2025Article
- Functional characterization of a bovine luteal cell culture model: Effects of passage number.PloS one · 2025Article
- Maternal Undernutrition Affects Fetal Thymus DNA Methylation, Gene Expression, and, Thereby, Metabolism and Immunopoiesis in Wagyu (Japanese Black) Cattle.International journal of molecular sciences · 2024Article
- A comprehensive workflow for optimizing RNA-seq data analysis.BMC genomics · 2024Article
- De novo assembly of transcriptomes and differential gene expression analysis using short-read data from emerging model organisms - a brief guide.Frontiers in zoology · 2024Review
- Pan-cancer discovery of somatic mutations from RNA sequencing data.Communications biology · 2024Article
- Alternative Transcripts Diversify Genome Function for Phenome Relevance to Health and Diseases.Genes · 2023Review
- Transcriptome software results show significant variation among different commercial pipelines.BMC genomics · 2023Article
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- Broad misappropriation of developmental splicing profile by cancer in multiple organs.Nature communications · 2022Article
- A transcriptome software comparison for the analyses of treatments expected to give subtle gene expression responses.BMC genomics · 2022Article
- A simple guide to de novo transcriptome assembly and annotation.Briefings in bioinformatics · 2022Review
- A method for simultaneous detection of small and long RNA biotypes by ribodepleted RNA-Seq.Scientific reports · 2022Article
- Exploring COVID-19 pathogenesis on command-line: A bioinformatics pipeline for handling and integrating omics data.Advances in protein chemistry and structural biology · 2022Article
- Trends and Applications of Omics Technologies to Functional Characterisation of Enzymes and Protein Metabolites Produced by Fungi.Journal of fungi (Basel, Switzerland) · 2021Review
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Quantification of gene expression is crucial to connect genome sequences with phenotypic and physiological data. RNA-Sequencing (RNA-Seq) has taken a prominent role in the study of transcriptomic reactions of plants to various environmental and genetic perturbations. However, comparative tests of different tools for RNA-Seq read mapping and quantification have been mainly performed on data from animals or humans, which necessarily neglect, for example, the large genetic variability among natural accessions within plant species. Here, we compared seven computational tools for their ability to map and quantify Illumina single-end reads from the
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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.