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    1180 results match your criteria Briefings in bioinformatics[Journal]

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    RNA methylation and diseases: experimental results, databases, Web servers and computational models.
    Brief Bioinform 2017 Nov 18. Epub 2017 Nov 18.
    Ribonucleic acid (RNA) methylation is a type of posttranscriptional modifications occurring in all kingdoms of life. It is strongly related to important biological process, thus making it linked to a number of human diseases. Owing to the development of high-throughput sequencing technology, plenty of achievement had been obtained in RNA methylation research recently. Read More

    A survey of software tools for microRNA discovery and characterization using RNA-seq.
    Brief Bioinform 2017 Nov 6. Epub 2017 Nov 6.
    Since the small RNA-sequencing (sRNA-seq) technology became available, it allowed the discovery of thousands new microRNAs (miRNAs) in humans and many other species, providing new data on these small RNAs (sRNAs) of high biological and translational relevance. MiRNA discovery has not yet reached saturation, even in the most studied model organisms, and many researchers are using sRNA-seq in studies with different aims in biomedicine, fundamental research and in applied animal sciences. We review several miRNA discovery and characterization software tools that implement different strategies, providing a useful guide for researchers to select the programs best suiting their study objectives and data. Read More

    Privacy-preserving techniques of genomic data-a survey.
    Brief Bioinform 2017 Nov 7. Epub 2017 Nov 7.
    Genomic data hold salient information about the characteristics of a living organism. Throughout the past decade, pinnacle developments have given us more accurate and inexpensive methods to retrieve genome sequences of humans. However, with the advancement of genomic research, there is a growing privacy concern regarding the collection, storage and analysis of such sensitive human data. Read More

    Effect of normalization methods on the performance of supervised learning algorithms applied to HTSeq-FPKM-UQ data sets: 7SK RNA expression as a predictor of survival in patients with colon adenocarcinoma.
    Brief Bioinform 2017 Nov 3. Epub 2017 Nov 3.
    Motivation: One of the main challenges in machine learning (ML) is choosing an appropriate normalization method. Here, we examine the effect of various normalization methods on analyzing FPKM upper quartile (FPKM-UQ) RNA sequencing data sets. We collect the HTSeq-FPKM-UQ files of patients with colon adenocarcinoma from TCGA-COAD project. Read More

    Coloured Petri nets for multilevel, multiscale and multidimensional modelling of biological systems.
    Brief Bioinform 2017 Nov 3. Epub 2017 Nov 3.
    Owing to the availability of data of one biological phenomenon at different levels/scales, modelling of biological systems is moving from single level/scale to multiple levels/scales, which introduces a number of challenges. Coloured Petri nets (ColPNs) have been successfully applied to multilevel, multiscale and multidimensional modelling of some biological systems, addressing many of these challenges. In this article, we first review the basics of ColPNs and some popular extensions, and then their applications for multilevel, multiscale and multidimensional modelling of biological systems. Read More

    Comprehensive evaluation of non-hybrid genome assembly tools for third-generation PacBio long-read sequence data.
    Brief Bioinform 2017 Nov 3. Epub 2017 Nov 3.
    Long reads obtained from third-generation sequencing platforms can help overcome the long-standing challenge of the de novo assembly of sequences for the genomic analysis of non-model eukaryotic organisms. Numerous long-read-aided de novo assemblies have been published recently, which exhibited superior quality of the assembled genomes in comparison with those achieved using earlier second-generation sequencing technologies. Evaluating assemblies is important in guiding the appropriate choice for specific research needs. Read More

    Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters.
    Brief Bioinform 2017 Nov 3. Epub 2017 Nov 3.
    Many drugs are derived from small molecules produced by microorganisms and plants, so-called natural products. Natural products have diverse chemical structures, but the biosynthetic pathways producing those compounds are often organized as biosynthetic gene clusters (BGCs) and follow a highly conserved biosynthetic logic. This allows for the identification of core biosynthetic enzymes using genome mining strategies that are based on the sequence similarity of the involved enzymes/genes. Read More

    Establishing a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia.
    Brief Bioinform 2017 Jun 30. Epub 2017 Jun 30.
    EMBL Australia Bioinformatics Resource (EMBL-ABR) is a developing national research infrastructure, providing bioinformatics resources and support to life science and biomedical researchers in Australia. EMBL-ABR comprises 10 geographically distributed national nodes with one coordinating hub, with current funding provided through Bioplatforms Australia and the University of Melbourne for its initial 2-year development phase. The EMBL-ABR mission is to: (1) increase Australia's capacity in bioinformatics and data sciences; (2) contribute to the development of training in bioinformatics skills; (3) showcase Australian data sets at an international level and (4) enable engagement in international programs. Read More

    A strategy for multimodal data integration: application to biomarkers identification in spinocerebellar ataxia.
    Brief Bioinform 2017 Jul 3. Epub 2017 Jul 3.
    The growing number of modalities (e.g. multi-omics, imaging and clinical data) characterizing a given disease provides physicians and statisticians with complementary facets reflecting the disease process but emphasizes the need for novel statistical methods of data analysis able to unify these views. Read More

    CircView: a visualization and exploration tool for circular RNAs.
    Brief Bioinform 2017 Jun 30. Epub 2017 Jun 30.
    Circular RNAs (circRNAs) are novel rising stars of noncoding RNAs, which are highly abundant and evolutionarily conserved across species. Number of publications related to circRNAs increased sharply in recent years, representing emerging focuses in the field. Therefore, tools, pipelines and databases have been developed to identify and store circRNAs. Read More

    An evaluation of noncoding genome annotation tools through enrichment analysis of 15 genome-wide association studies.
    Brief Bioinform 2017 Nov 2. Epub 2017 Nov 2.
    Functionally annotating genetic variations is an essential yet challenging topic in human genetics research. As large consortia including ENCODE and Roadmap Epigenomics Project continue to generate high-throughput transcriptomic and epigenomic data, many computational frameworks have been developed to integrate these experimental data to predict functionality of genetic variations in both protein-coding and noncoding regions. Here, we compare a number of recently developed annotation frameworks for noncoding regions through enrichment analysis on genome-wide association studies (GWASs). Read More

    Bioinformatics on a national scale: an example from Switzerland.
    Brief Bioinform 2017 Jul 4. Epub 2017 Jul 4.
    Switzerland has been a pioneer in the field of bioinformatics since the early 1980s. As time passed, the need for one entity to gather and represent bioinformatics on a national scale was felt and, in 1998, the SIB Swiss Institute of Bioinformatics was created. Hence, 2018 marks the Institute's 20th anniversary. Read More

    A generally applicable lightweight method for calculating a value structure for tools and services in bioinformatics infrastructure projects.
    Brief Bioinform 2017 Oct 30. Epub 2017 Oct 30.
    Sustainable noncommercial bioinformatics infrastructures are a prerequisite to use and take advantage of the potential of big data analysis for research and economy. Consequently, funders, universities and institutes as well as users ask for a transparent value model for the tools and services offered. In this article, a generally applicable lightweight method is described by which bioinformatics infrastructure projects can estimate the value of tools and services offered without determining exactly the total costs of ownership. Read More

    Evaluation and comparison of methods for recapitulation of 3D spatial chromatin structures.
    Brief Bioinform 2017 Oct 30. Epub 2017 Oct 30.
    How chromosomes fold and how distal genomic elements interact with one another at a genomic scale have been actively pursued in the past decade following the seminal work describing the Chromosome Conformation Capture (3C) assay. Essentially, 3C-based technologies produce two-dimensional (2D) contact maps that capture interactions between genomic fragments. Accordingly, a plethora of analytical methods have been proposed to take a 2D contact map as input to recapitulate the underlying whole genome three-dimensional (3D) structure of the chromatin. Read More

    Systematic review of computational methods for identifying miRNA-mediated RNA-RNA crosstalk.
    Brief Bioinform 2017 Oct 25. Epub 2017 Oct 25.
    Posttranscriptional crosstalk and communication between RNAs yield large regulatory competing endogenous RNA (ceRNA) networks via shared microRNAs (miRNAs), as well as miRNA synergistic networks. The ceRNA crosstalk represents a novel layer of gene regulation that controls both physiological and pathological processes such as development and complex diseases. The rapidly expanding catalogue of ceRNA regulation has provided evidence for exploitation as a general model to predict the ceRNAs in silico. Read More

    Proteomics and phosphoproteomics in precision medicine: applications and challenges.
    Brief Bioinform 2017 Oct 25. Epub 2017 Oct 25.
    Recent advances in proteomics allow the accurate measurement of abundances for thousands of proteins and phosphoproteins from multiple samples in parallel. Therefore, for the first time, we have the opportunity to measure the proteomic profiles of thousands of patient samples or disease model cell lines in a systematic way, to identify the precise underlying molecular mechanism and discover personalized biomarkers, networks and treatments. Here, we review examples of successful use of proteomics and phosphoproteomics data sets in as well as their integration other omics data sets with the aim of precision medicine. Read More

    Precision medicine needs pioneering clinical bioinformaticians.
    Brief Bioinform 2017 Oct 25. Epub 2017 Oct 25.
    Success in precision medicine depends on accessing high-quality genetic and molecular data from large, well-annotated patient cohorts that couple biological samples to comprehensive clinical data, which in conjunction can lead to effective therapies. From such a scenario emerges the need for a new professional profile, an expert bioinformatician with training in clinical areas who can make sense of multi-omics data to improve therapeutic interventions in patients, and the design of optimized basket trials. In this review, we first describe the main policies and international initiatives that focus on precision medicine. Read More

    Computational tools for plant small RNA detection and categorization.
    Brief Bioinform 2017 Oct 20. Epub 2017 Oct 20.
    Small RNAs (sRNAs) are important short-length molecules with regulatory functions essential for plant development and plasticity. High-throughput sequencing of total sRNA populations has revealed that the largest share of sRNA remains uncategorized. To better understand the role of sRNA-mediated cellular regulation, it is necessary to create accurate and comprehensive catalogues of sRNA and their sequence features, a task that currently relies on nontrivial bioinformatic approaches. Read More

    Machine learning approaches to decipher hormone and HER2 receptor status phenotypes in breast cancer.
    Brief Bioinform 2017 Oct 16. Epub 2017 Oct 16.
    Breast cancer prognosis and administration of therapies are aided by knowledge of hormonal and HER2 receptor status. Breast cancer lacking estrogen receptors, progesterone receptors and HER2 receptors are difficult to treat. Regarding large data repositories such as The Cancer Genome Atlas, available wet-lab methods for establishing the presence of these receptors do not always conclusively cover all available samples. Read More

    MicroRNAs and complex diseases: from experimental results to computational models.
    Brief Bioinform 2017 Oct 17. Epub 2017 Oct 17.
    Plenty of microRNAs (miRNAs) were discovered at a rapid pace in plants, green algae, viruses and animals. As one of the most important components in the cell, miRNAs play a growing important role in various essential and important biological processes. For the recent few decades, amounts of experimental methods and computational models have been designed and implemented to identify novel miRNA-disease associations. Read More

    Evaluation of variable selection methods for random forests and omics data sets.
    Brief Bioinform 2017 Oct 16. Epub 2017 Oct 16.
    Machine learning methods and in particular random forests are promising approaches for prediction based on high dimensional omics data sets. They provide variable importance measures to rank predictors according to their predictive power. If building a prediction model is the main goal of a study, often a minimal set of variables with good prediction performance is selected. Read More

    Translational medicine in the Age of Big Data.
    Brief Bioinform 2017 Oct 12. Epub 2017 Oct 12.
    The ability to collect, store and analyze massive amounts of molecular and clinical data is fundamentally transforming the scientific method and its application in translational medicine. Collecting observations has always been a prerequisite for discovery, and great leaps in scientific understanding are accompanied by an expansion of this ability. Particle physics, astronomy and climate science, for example, have all greatly benefited from the development of new technologies enabling the collection of larger and more diverse data. Read More

    Towards dynamic genome-scale models.
    Brief Bioinform 2017 Oct 13. Epub 2017 Oct 13.
    The analysis of the dynamic behaviour of genome-scale models of metabolism (GEMs) currently presents considerable challenges because of the difficulties of simulating such large and complex networks. Bacterial GEMs can comprise about 5000 reactions and metabolites, and encode a huge variety of growth conditions; such models cannot be used without sophisticated tool support. This article is intended to aid modellers, both specialist and non-specialist in computerized methods, to identify and apply a suitable combination of tools for the dynamic behaviour analysis of large-scale metabolic designs. Read More

    Toward completion of the Earth's proteome: an update a decade later.
    Brief Bioinform 2017 Oct 12. Epub 2017 Oct 12.
    Protein databases are steadily growing driven by the spread of new more efficient sequencing techniques. This growth is dominated by an increase in redundancy (homologous proteins with various degrees of sequence similarity) and by the incapability to process and curate sequence entries as fast as they are created. To understand these trends and aid bioinformatic resources that might be compromised by the increasing size of the protein sequence databases, we have created a less-redundant protein data set. Read More

    A benchmarking of workflows for detecting differential splicing and differential expression at isoform level in human RNA-seq studies.
    Brief Bioinform 2017 Oct 13. Epub 2017 Oct 13.
    Over the last few years, RNA-seq has been used to study alterations in alternative splicing related to several diseases. Bioinformatics workflows used to perform these studies can be divided into two groups, those finding changes in the absolute isoform expression and those studying differential splicing. Many computational methods for transcriptomics analysis have been developed, evaluated and compared; however, there are not enough reports of systematic and objective assessment of processing pipelines as a whole. Read More

    Prediction of protein-protein interactions between fungus (Magnaporthe grisea) and rice (Oryza sativa L.).
    Brief Bioinform 2017 Oct 11. Epub 2017 Oct 11.
    Rice blast disease caused by the fungus Magnaporthe grisea (M. grisea) is one of the most serious diseases for the cultivated rice Oryza sativa (O. sativa). Read More

    Elucidating the editome: bioinformatics approaches for RNA editing detection.
    Brief Bioinform 2017 Oct 11. Epub 2017 Oct 11.
    RNA editing is a widespread co/posttranscriptional mechanism affecting primary RNAs by specific nucleotide modifications, which plays relevant roles in molecular processes including regulation of gene expression and/or the processing of noncoding RNAs. In recent years, the detection of editing sites has been improved through the availability of high-throughput RNA sequencing (RNA-Seq) technologies. Accurate bioinformatics pipelines are essential for the analysis of next-generation sequencing (NGS) data to ensure the correct identification of edited sites. Read More

    A rank-based algorithm of differential expression analysis for small cell line data with statistical control.
    Brief Bioinform 2017 Oct 13. Epub 2017 Oct 13.
    To detect differentially expressed genes (DEGs) in small-scale cell line experiments, usually with only two or three technical replicates for each state, the commonly used statistical methods such as significance analysis of microarrays (SAM), limma and RankProd (RP) lack statistical power, while the fold change method lacks any statistical control. In this study, we demonstrated that the within-sample relative expression orderings (REOs) of gene pairs were highly stable among technical replicates of a cell line but often widely disrupted after certain treatments such like gene knockdown, gene transfection and drug treatment. Based on this finding, we customized the RankComp algorithm, previously designed for individualized differential expression analysis through REO comparison, to identify DEGs with certain statistical control for small-scale cell line data. Read More

    PHAST, PHASTER and PHASTEST: Tools for finding prophage in bacterial genomes.
    Brief Bioinform 2017 Sep 25. Epub 2017 Sep 25.
    PHAST (PHAge Search Tool) and its successor PHASTER (PHAge Search Tool - Enhanced Release) have become two of the most widely used web servers for identifying putative prophages in bacterial genomes. Here we review the main capabilities of these web resources, provide some practical guidance regarding their use and discuss possible future improvements. PHAST, which was first described in 2011, made its debut just as whole bacterial genome sequencing and was becoming inexpensive and relatively routine. Read More

    Critical assessment and performance improvement of plant-pathogen protein-protein interaction prediction methods.
    Brief Bioinform 2017 Sep 27. Epub 2017 Sep 27.
    The identification of plant-pathogen protein-protein interactions (PPIs) is an attractive and challenging research topic for deciphering the complex molecular mechanism of plant immunity and pathogen infection. Considering that the experimental identification of plant-pathogen PPIs is time-consuming and labor-intensive, computational methods are emerging as an important strategy to complement the experimental methods. In this work, we first evaluated the performance of traditional computational methods such as interolog, domain-domain interaction and domain-motif interaction in predicting known plant-pathogen PPIs. Read More

    Comparative analysis of differential gene expression tools for RNA sequencing time course data.
    Brief Bioinform 2017 Oct 6. Epub 2017 Oct 6.
    RNA sequencing (RNA-seq) has become a standard procedure to investigate transcriptional changes between conditions and is routinely used in research and clinics. While standard differential expression (DE) analysis between two conditions has been extensively studied, and improved over the past decades, RNA-seq time course (TC) DE analysis algorithms are still in their early stages. In this study, we compare, for the first time, existing TC RNA-seq tools on an extensive simulation data set and validated the best performing tools on published data. Read More

    A new pan-European Train-the-Trainer programme for bioinformatics: pilot results on feasibility, utility and sustainability of learning.
    Brief Bioinform 2017 Sep 26. Epub 2017 Sep 26.
    Demand for training life scientists in bioinformatics methods, tools and resources and computational approaches is urgent and growing. To meet this demand, new trainers must be prepared with effective teaching practices for delivering short hands-on training sessions-a specific type of education that is not typically part of professional preparation of life scientists in many countries. A new Train-the-Trainer (TtT) programme was created by adapting existing models, using input from experienced trainers and experts in bioinformatics, and from educational and cognitive sciences. Read More

    Systematic comparative study of computational methods for T-cell receptor sequencing data analysis.
    Brief Bioinform 2017 Sep 23. Epub 2017 Sep 23.
    High-throughput sequencing technologies have exposed the possibilities for the in-depth evaluation of T-cell receptor (TCR) repertoires. These studies are highly relevant to gain insights into human adaptive immunity and to decipher the composition and diversity of antigen receptors in physiological and disease conditions. The major objective of TCR sequencing data analysis is the identification of V, D and J gene segments, complementarity-determining region 3 (CDR3) sequence extraction and clonality analysis. Read More

    A review of methods and databases for metagenomic classification and assembly.
    Brief Bioinform 2017 Sep 23. Epub 2017 Sep 23.
    Microbiome research has grown rapidly over the past decade, with a proliferation of new methods that seek to make sense of large, complex data sets. Here, we survey two of the primary types of methods for analyzing microbiome data: read classification and metagenomic assembly, and we review some of the challenges facing these methods. All of the methods rely on public genome databases, and we also discuss the content of these databases and how their quality has a direct impact on our ability to interpret a microbiome sample. Read More

    MG-RAST version 4-lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis.
    Brief Bioinform 2017 Sep 26. Epub 2017 Sep 26.
    As technologies change, MG-RAST is adapting. Newly available software is being included to improve accuracy and performance. As a computational service constantly running large volume scientific workflows, MG-RAST is the right location to perform benchmarking and implement algorithmic or platform improvements, in many cases involving trade-offs between specificity, sensitivity and run-time cost. Read More

    Mathematical modeling and computational prediction of cancer drug resistance.
    Brief Bioinform 2017 Jun 23. Epub 2017 Jun 23.
    Diverse forms of resistance to anticancer drugs can lead to the failure of chemotherapy. Drug resistance is one of the most intractable issues for successfully treating cancer in current clinical practice. Effective clinical approaches that could counter drug resistance by restoring the sensitivity of tumors to the targeted agents are urgently needed. Read More

    On the dynamical incompleteness of the Protein Data Bank.
    Brief Bioinform 2017 Aug 2. Epub 2017 Aug 2.
    Major scientific challenges that are beyond the capability of individuals need to be addressed by multi-disciplinary and multi-institutional consortia. Examples of these endeavours include the Human Genome Project, and more recently, the Structural Genomics (SG) initiative. The SG initiative pursues the expansion of structural coverage to include at least one structural representative for each protein family to derive the remaining structures using homology modelling. Read More

    'Multi-omic' data analysis using O-miner.
    Brief Bioinform 2017 Aug 4. Epub 2017 Aug 4.
    Innovations in -omics technologies have driven advances in biomedical research. However, integrating and analysing the large volumes of data generated from different high-throughput -omics technologies remain a significant challenge to basic and clinical scientists without bioinformatics skills or access to bioinformatics support. To address this demand, we have significantly updated our previous O-miner analytical suite, to incorporate several new features and data types to provide an efficient and easy-to-use Web tool for the automated analysis of data from '-omics' technologies. Read More

    SEGtool: a specifically expressed gene detection tool and applications in human tissue and single-cell sequencing data.
    Brief Bioinform 2017 Jul 7. Epub 2017 Jul 7.
    Different tissues and diseases have distinct transcriptional profilings with specifically expressed genes (SEGs). So, the identification of SEGs is an important issue in the studies of gene function, biological development, disease mechanism and biomarker discovery. However, few accurate and easy-to-use tools are available for RNA sequencing (RNA-seq) data to detect SEGs. Read More

    Proper joint analysis of summary association statistics requires the adjustment of heterogeneity in SNP coverage pattern.
    Brief Bioinform 2017 Jul 7. Epub 2017 Jul 7.
    As meta-analysis results published by consortia of genome-wide association studies (GWASs) become increasingly available, many association summary statistics-based multi-locus tests have been developed to jointly evaluate multiple single-nucleotide polymorphisms (SNPs) to reveal novel genetic architectures of various complex traits. The validity of these approaches relies on the accurate estimate of z-score correlations at considered SNPs, which in turn requires knowledge on the set of SNPs assessed by each study participating in the meta-analysis. However, this exact SNP coverage information is usually unavailable from the meta-analysis results published by GWAS consortia. Read More

    An account of in silico identification tools of secreted effector proteins in bacteria and future challenges.
    Brief Bioinform 2017 Jul 19. Epub 2017 Jul 19.
    Bacterial pathogens secrete numerous effector proteins via six secretion systems, type I to type VI secretion systems, to adapt to new environments or to promote virulence by bacterium-host interactions. Many computational approaches have been used in the identification of effector proteins before the subsequent experimental verification because they tolerate laborious biological procedures and are genome scale, automated and highly efficient. Prevalent examples include machine learning methods and statistical techniques. Read More

    OPATs: Omnibus P-value association tests.
    Brief Bioinform 2017 Jul 10. Epub 2017 Jul 10.
    Combining statistical significances (P-values) from a set of single-locus association tests in genome-wide association studies is a proof-of-principle method for identifying disease-associated genomic segments, functional genes and biological pathways. We review P-value combinations for genome-wide association studies and introduce an integrated analysis tool, Omnibus P-value Association Tests (OPATs), which provides popular analysis methods of P-value combinations. The software OPATs programmed in R and R graphical user interface features a user-friendly interface. Read More

    Detecting differential DNA methylation from sequencing of bisulfite converted DNA of diverse species.
    Brief Bioinform 2017 Jul 21. Epub 2017 Jul 21.
    DNA methylation is one of the most extensively studied epigenetic modifications of genomic DNA. In recent years, sequencing of bisulfite-converted DNA, particularly via next-generation sequencing technologies, has become a widely popular method to study DNA methylation. This method can be readily applied to a variety of species, dramatically expanding the scope of DNA methylation studies beyond the traditionally studied human and mouse systems. Read More

    Bioinformatics in Latin America and SoIBio impact, a tale of spin-off and expansion around genomes and protein structures.
    Brief Bioinform 2017 Jun 28. Epub 2017 Jun 28.
    Owing to the emerging impact of bioinformatics and computational biology, in this article, we present an overview of the history and current state of the research on this field in Latin America (LA). It will be difficult to cover without inequality all the efforts, initiatives and works that have happened for the past two decades in this vast region (that includes >19 million km2 and >600 million people). Despite the difficulty, we have done an analytical search looking for publications in the field made by researchers from 19 LA countries in the past 25 years. Read More

    Visualizing and comparing circular genomes using the CGView family of tools.
    Brief Bioinform 2017 Jul 26. Epub 2017 Jul 26.
    Graphical genome maps are widely used to assess genome features and sequence characteristics. The CGView (Circular Genome Viewer) software family is a popular collection of tools for generating genome maps for bacteria, organelles and viruses. In this review, we describe the capabilities of the original CGView program along with those of subsequent companion applications, including the CGView Server and the CGView Comparison Tool. Read More

    AtCircDB: a tissue-specific database for Arabidopsis circular RNAs.
    Brief Bioinform 2017 Jul 25. Epub 2017 Jul 25.
    Circular RNAs are widely existing in eukaryotes. However, there is as yet no tissue-specific Arabidopsis circular RNA database, which hinders the study of circular RNA in plants. Here, we used 622 Arabidopsis RNA sequencing data sets from 87 independent studies hosted at NCBI SRA and developed AtCircDB to systematically identify, store and retrieve circular RNAs. Read More

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