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SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads
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Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/s11427-013-4442-zopenalex-snapshot
Comparative study of de novo assembly and genome-guided assembly strategies for transcriptome reconstruction based on RNA-Seq
inferredcites →https://doi.org/10.1038/nature07638openalex-snapshot
Transcriptome sequencing to detect gene fusions in cancer
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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
inferredcites →https://doi.org/10.1038/nbt.1633openalex-snapshot
Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs
inferredcites →https://doi.org/10.1038/nbt.1883openalex-snapshot
Full-length transcriptome assembly from RNA-Seq data without a reference genome
inferredcites →https://doi.org/10.1038/nmeth.1226openalex-snapshot
Mapping and quantifying mammalian transcriptomes by RNA-Seq
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De novo assembly and analysis of RNA-seq data
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Oases:robustde novoRNA-seq assembly across the dynamic range of expression levels
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Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
inferredcites →https://doi.org/10.1101/gr.089532.108openalex-snapshot
ABySS: A parallel assembler for short read sequence data
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De novo assembly of human genomes with massively parallel short read sequencing
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Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome
inferredcites →https://doi.org/10.1101/gr.103846.109openalex-snapshot
Optimization of de novo transcriptome assembly from next-generation sequencing data
inferredcites →https://doi.org/10.1101/gr.229202openalex-snapshot
BLAT —The BLAST -Like Alignment Tool
inferredcites →https://doi.org/10.1186/1471-2164-11-663openalex-snapshot
Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads
inferredcites →https://doi.org/10.1186/2047-217x-1-18openalex-snapshot
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
inferredcites →https://doi.org/10.1371/journal.pbio.0030038openalex-snapshot
The Genomes of Oryza sativa: A History of Duplications
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Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Computational and functional annotation at genomic scale
inferred← citeshttps://doi.org/10.1016/b978-0-323-89775-4.00002-xopenalex-snapshot
RNA-seq for revealing the function of the transcriptome
inferred← citeshttps://doi.org/10.1016/b978-0-323-89778-5.00011-8openalex-snapshot
Genome informatics: present status and future prospects in agriculture
inferred← citeshttps://doi.org/10.1016/b978-0-323-89778-5.00019-2openalex-snapshot
Computational approaches toward single-nucleotide polymorphism discovery and its applications in plant breeding
inferred← citeshttps://doi.org/10.1016/b978-0-323-91810-7.00013-3openalex-snapshot
Desert plant transcriptomics and adaptation to abiotic stress
inferred← citeshttps://doi.org/10.1016/b978-0-323-95502-7.00207-4openalex-snapshot
Next Generation Sequence Analysis
inferred← citeshttps://doi.org/10.1016/b978-0-323-95502-7.00217-7openalex-snapshot
Genome-Wide Scanning of Gene Expression
inferred← citeshttps://doi.org/10.1016/b978-0-323-95502-7.00250-5openalex-snapshot
Identification of Novel RNAs
inferred← citeshttps://doi.org/10.1016/b978-0-323-95502-7.00292-xopenalex-snapshot
Transcriptome Analysis
inferred← citeshttps://doi.org/10.1016/b978-0-323-95890-5.00006-5openalex-snapshot
Host-pathogen interactions: databases and approaches for data generation
inferred← citeshttps://doi.org/10.1016/b978-0-323-98394-5.00009-2openalex-snapshot
Metagenomics and bioinformatics in microbial ecology: current status and beyond
inferred← citeshttps://doi.org/10.1016/b978-0-443-13320-6.00032-9openalex-snapshot
Computational Tools for Whole Genome and Metagenome Analysis of NGS Data for Microbial Diversity Studies
inferred← citeshttps://doi.org/10.1016/b978-0-443-16092-9.00012-6openalex-snapshot
Role of bioinformatics in genome analysis
inferred← citeshttps://doi.org/10.1016/b978-0-443-36457-0.00016-xopenalex-snapshot
Applications of metabolomics technologies for crop improvement
inferred← citeshttps://doi.org/10.1016/bs.afnr.2024.09.013openalex-snapshot
Advanced data analytics and “omics” techniques to control enteric foodborne pathogens
inferred← citeshttps://doi.org/10.1016/j.anaerobe.2021.102502openalex-snapshot
Fecal microbiota transplantation as therapy for recurrent Clostridioides difficile infection is associated with amelioration of delirium and accompanied by changes in fecal microbiota and the metabolome
inferred← citeshttps://doi.org/10.1016/j.aspen.2017.04.012openalex-snapshot
Next-generation sequencing data used to determine the mitochondrial genomes and a preliminary phylogeny of Verophasmatodea insects
inferred← citeshttps://doi.org/10.1016/j.aspen.2018.05.001openalex-snapshot
Complete mitochondrial genome of the darkling beetle Gonocephalum outreyi (Coleoptera: Tenebrionidae) with phylogenetic implications
inferred← citeshttps://doi.org/10.1016/j.bbapap.2017.05.003openalex-snapshot
Cytochrome P450 diversity in the tree of life
inferred← citeshttps://doi.org/10.1016/j.biocel.2018.12.009openalex-snapshot
RNA splicing analysis in genomic medicine
inferred← citeshttps://doi.org/10.1016/j.biortech.2015.07.002openalex-snapshot
Elucidation of the growth delimitation of Dunaliella tertiolecta under nitrogen stress by integrating transcriptome and peptidome analysis
inferred← citeshttps://doi.org/10.1016/j.biotechadv.2015.04.007openalex-snapshot
Thermophiles in the genomic era: Biodiversity, science, and applications
inferred← citeshttps://doi.org/10.1016/j.cbd.2026.101857openalex-snapshot
Transcriptome profiling to decipher molecular mechanisms of diapause in Chilo partellus (Swinhoe) (Lepidoptera: Crambidae)
inferred← citeshttps://doi.org/10.1016/j.cbpc.2019.108625openalex-snapshot
The sweet side of venom: Glycosylated prothrombin activating metalloproteases from Dispholidus typus (boomslang) and Thelotornis mossambicanus (twig snake)
inferred← citeshttps://doi.org/10.1016/j.cca.2019.08.010openalex-snapshot
Proteogenomics: From next-generation sequencing (NGS) and mass spectrometry-based proteomics to precision medicine
inferred← citeshttps://doi.org/10.1016/j.cell.2019.11.019openalex-snapshot
Toward a Common Coordinate Framework for the Human Body
inferred← citeshttps://doi.org/10.1016/j.cell.2021.04.046openalex-snapshot
Pan-genome analysis of 33 genetically diverse rice accessions reveals hidden genomic variations
inferred← citeshttps://doi.org/10.1016/j.chemosphere.2022.136009openalex-snapshot
Analysis of Crassostrea gasar transcriptome reveals candidate genes involved in metal metabolism
inferred← citeshttps://doi.org/10.1016/j.cofs.2022.100920openalex-snapshot
Could foodomics hold the key to unlocking the role of prebiotics in gut microbiota and immunity?
inferred← citeshttps://doi.org/10.1016/j.compbiolchem.2017.10.010openalex-snapshot
A novel feature selection for RNA-seq analysis
inferred← citeshttps://doi.org/10.1016/j.cpb.2017.12.004openalex-snapshot
Tools for building de novo transcriptome assembly
inferred← citeshttps://doi.org/10.1016/j.cpb.2019.100111openalex-snapshot
Uncovering genome wide novel allelic variants for eating and cooking quality in a popular Indian rice cultivar, Samba Mahsuri
inferred← citeshttps://doi.org/10.1016/j.csbj.2022.07.007openalex-snapshot
Proteotranscriptomics – A facilitator in omics research
inferred← citeshttps://doi.org/10.1016/j.csbj.2025.12.015openalex-snapshot
Designing RNA sequencing experiments: A practical guide to reproducible gene expression analysis
inferred← citeshttps://doi.org/10.1016/j.cub.2017.01.027openalex-snapshot
Evolutionary History of the Hymenoptera
inferred← citeshttps://doi.org/10.1016/j.cub.2017.02.031openalex-snapshot
A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals
inferred← citeshttps://doi.org/10.1016/j.cub.2020.03.048openalex-snapshot
Phylogenomic Evidence for the Monophyly of Bryophytes and the Reductive Evolution of Stomata
inferred← citeshttps://doi.org/10.1016/j.dci.2017.02.006openalex-snapshot
Issues with RNA-seq analysis in non-model organisms: A salmonid example
inferred← citeshttps://doi.org/10.1016/j.dib.2018.06.095openalex-snapshot
The assembled transcriptome of the adult horn fly, Haematobia irritans
inferred← citeshttps://doi.org/10.1016/j.envres.2019.05.038openalex-snapshot
Unravelling the molecular mechanisms of nickel in woodlice.
inferred← citeshttps://doi.org/10.1016/j.enzmictec.2019.109487openalex-snapshot
Transcriptome analysis of Haematococcus pluvialis of multiple defensive systems against nitrogen starvation
inferred← citeshttps://doi.org/10.1016/j.eswa.2015.09.022openalex-snapshot
Supporting scientific knowledge discovery with extended, generalized Formal Concept Analysis
inferred← citeshttps://doi.org/10.1016/j.febslet.2015.08.033openalex-snapshot
Analysis of amino acid and codon usage inParamecium bursaria
inferred← citeshttps://doi.org/10.1016/j.fgb.2023.103828openalex-snapshot
A reference transcriptome for walnut anthracnose pathogen, Ophiognomonia leptostyla, guides the discovery of candidate virulence genes
inferred← citeshttps://doi.org/10.1016/j.fsi.2017.08.011openalex-snapshot
Deep transcriptome profiling sheds light on key players in nucleus implantation induced immune response in the pearl oyster Pinctada martensii
inferred← citeshttps://doi.org/10.1016/j.future.2016.06.008openalex-snapshot
A resource provisioning framework for bioinformatics applications in multi-cloud environments
inferred← citeshttps://doi.org/10.1016/j.gene.2015.11.038openalex-snapshot
Molecular evolution of antioxidant and hypoxia response in long-lived, cancer-resistant blind mole rats: The Nrf2–Keap1 pathway
inferred← citeshttps://doi.org/10.1016/j.gene.2018.10.026openalex-snapshot
Computational analysis of alternative splicing in plant genomes
inferred← citeshttps://doi.org/10.1016/j.gene.2022.146556openalex-snapshot
Understanding of the various aspects of gene regulatory networks related to crop improvement
inferred← citeshttps://doi.org/10.1016/j.gene.2023.147219openalex-snapshot
Small population of the largest water strider after the late Pleistocene and the implications for its conservation
inferred← citeshttps://doi.org/10.1016/j.genrep.2017.08.003openalex-snapshot
Reducing the number of artifactual repeats in de novo assembly of RNA-Seq data by optimizing the assembly pipeline
inferred← citeshttps://doi.org/10.1016/j.genrep.2023.101800openalex-snapshot
Comparative analysis of commonly used bioinformatics software based on omics
inferred← citeshttps://doi.org/10.1016/j.heliyon.2018.e00583openalex-snapshot
De novo assembly and characterizing of the culm-derived meta-transcriptome from the polyploid sugarcane genome based on coding transcripts
inferred← citeshttps://doi.org/10.1016/j.ibmb.2020.103488openalex-snapshot
Cathepsins L and B in Dysdercus peruvianus, Rhodnius prolixus, and Mahanarva fimbriolata. Looking for enzyme adaptations to digestion
inferred← citeshttps://doi.org/10.1016/j.ibmb.2025.104470openalex-snapshot
Sgie3, a venomous carboxylesterase from the ectoparasitoid of Sclerodermus guani exhibits lipolytic activity to modulate host lipid metabolism
inferred← citeshttps://doi.org/10.1016/j.ijbiomac.2018.08.181openalex-snapshot
Comparative analysis of mitochondrial genomes of the superfamily Grylloidea (Insecta, Orthoptera) reveals phylogenetic distribution of gene rearrangements
inferred← citeshttps://doi.org/10.1016/j.ijbiomac.2019.02.130openalex-snapshot
The complete mitochondrial genome of Tetraphleps aterrimus (Hemiptera: Anthocoridae): Genomic comparisons and phylogenetic analysis of Cimicomorpha
inferred← citeshttps://doi.org/10.1016/j.isci.2019.08.016openalex-snapshot
Virus- and Interferon Alpha-Induced Transcriptomes of Cells from the Microbat Myotis daubentonii
inferred← citeshttps://doi.org/10.1016/j.isci.2022.104067openalex-snapshot
Tiglon enables accurate transcriptome assembly via integrating mappings of different aligners
inferred← citeshttps://doi.org/10.1016/j.jbiotec.2021.08.005openalex-snapshot
Non-coding Natural Antisense Transcripts: Analysis and Application
inferred← citeshttps://doi.org/10.1016/j.jgr.2014.05.008openalex-snapshot
Transcriptome profiling and comparative analysis of Panax ginseng adventitious roots
inferred← citeshttps://doi.org/10.1016/j.jinf.2026.106875openalex-snapshot
Human febrile illness associated with Yanggou tick virus: Clinical characteristics and epidemiological links to rodents
inferred← citeshttps://doi.org/10.1016/j.jinsphys.2017.03.009openalex-snapshot
A physiologically-oriented transcriptomic analysis of the midgut of Tenebrio molitor
inferred← citeshttps://doi.org/10.1016/j.jtbi.2017.04.019openalex-snapshot
DBH: A de Bruijn graph-based heuristic method for clustering large-scale 16S rRNA sequences into OTUs
inferred← citeshttps://doi.org/10.1016/j.margen.2015.01.001openalex-snapshot
De novo assembly and comprehensive characterization of the skeletal muscle transcriptomes of the European anchovy (Engraulis encrasicolus)
inferred← citeshttps://doi.org/10.1016/j.margen.2015.11.010openalex-snapshot
Evaluation of potential candidate genes involved in salinity tolerance in striped catfish ( Pangasianodon hypophthalmus ) using an RNA-Seq approach
inferred← citeshttps://doi.org/10.1016/j.margen.2016.04.012openalex-snapshot
Next-generation biology: Sequencing and data analysis approaches for non-model organisms
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