Citation Impact
Citing Papers
Recent Molecular Genetic Explorations of Caenorhabditis elegans MicroRNAs
2018 StandoutNobel
RepeatModeler2 for automated genomic discovery of transposable element families
2020 Standout
Genetic Control of Seed Shattering in Rice by the APETALA2 Transcription Factor SHATTERING ABORTION1
2012
One thousand plant transcriptomes and the phylogenomics of green plants
2019 StandoutNature
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm
2014
The Ensembl Variant Effect Predictor
2016 Standout
Improved metagenomic analysis with Kraken 2
2019 Standout
Kraken: ultrafast metagenomic sequence classification using exact alignments
2014 Standout
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
2011 Standout
DisGeNET: a comprehensive platform integrating information on human disease-associated genes and variants
2016 Standout
Regulation of microRNA function in animals
2018 Standout
The Biogenesis, Functions, and Challenges of Circular RNAs
2018 Standout
Biogenesis, Turnover, and Mode of Action of Plant MicroRNAs
2013
Modelling and simulating generic RNA-Seq experiments with the flux simulator
2012
A Primer on Metagenomics
2010
Classifying short genomic fragments from novel lineages using composition and homology
2011
Root exudate metabolites drive plant-soil feedbacks on growth and defense by shaping the rhizosphere microbiota
2018 Standout
Linking bacterial identities and ecosystem processes: can ‘omic’ analyses be more than the sum of their parts?
2010
Regulation of microRNA biogenesis
2014 Standout
StringTie enables improved reconstruction of a transcriptome from RNA-seq reads
2015 Standout
PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants
2016 Standout
New CRISPR–Cas systems from uncultivated microbes
2016 StandoutNatureNobel
A Neanderthal Sodium Channel Increases Pain Sensitivity in Present-Day Humans
2020 StandoutNobel
Lethal Mutagenesis of Hepatitis C Virus Induced by Favipiravir
2016 StandoutNobel
BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons
2011 Standout
PHASTER: a better, faster version of the PHAST phage search tool
2016 Standout
The Human Transcription Factors
2018 Standout
A circRNA from SEPALLATA3 regulates splicing of its cognate mRNA through R-loop formation
2017
PhylOTU: A High-Throughput Procedure Quantifies Microbial Community Diversity and Resolves Novel Taxa from Metagenomic Data
2011
Metagenomic biomarker discovery and explanation
2011 Standout
Gut Microbiota Regulate Motor Deficits and Neuroinflammation in a Model of Parkinson’s Disease
2016 Standout
A comparison of tools for the simulation of genomic next-generation sequencing data
2016
JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles
2015
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation
2010 Standout
The pangenome of an agronomically important crop plant Brassica oleracea
2016 Standout
FragGeneScan: predicting genes in short and error-prone reads
2010
Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation
2017 Standout
Persistence of soil organic matter as an ecosystem property
2011 StandoutNature
HISAT: a fast spliced aligner with low memory requirements
2015 Standout
Functional mapping and annotation of genetic associations with FUMA
2017 Standout
Harnessing genomics for evolutionary insights
2009
Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer
2017 Standout
Gut microbiota, metabolites and host immunity
2016 Standout
Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows
2010 Standout
Evolution of crop species: genetics of domestication and diversification
2013 Standout
metaSPAdes: a new versatile metagenomic assembler
2017 Standout
Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data
2012
Metagenomic Analysis Reveals Symbiotic Relationship among Bacteria in Microcystis-Dominated Community
2016
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
2013 Standout
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
2017 Standout
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
2015 Standout
Targeted and shotgun metagenomic approaches provide different descriptions of dryland soil microbial communities in a manipulated field study
2012
Inference of Isoforms from Short Sequence Reads
2011
Genovo: De Novo Assembly for Metagenomes
2011
Minimap2: pairwise alignment for nucleotide sequences
2018 Standout
CADD: predicting the deleteriousness of variants throughout the human genome
2018 Standout
dbCAN2: a meta server for automated carbohydrate-active enzyme annotation
2018 Standout
Scalable metagenomic taxonomy classification using a reference genome database
2013
Evolution and Functional Diversification of MIRNA Genes
2011
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
2013 Standout
Cross-biome metagenomic analyses of soil microbial communities and their functional attributes
2012 Standout
Helitrons , the Eukaryotic Rolling-circle Transposable Elements
2015
Mason
2010
LTR_retriever: A Highly Accurate and Sensitive Program for Identification of Long Terminal Repeat Retrotransposons
2017
Biogenesis of phased siRNAs on membrane-bound polysomes in Arabidopsis
2016
SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
2012 Standout
Computational meta'omics for microbial community studies
2013
Genetic Control and Comparative Genomic Analysis of Flowering Time in Setaria (Poaceae)
2013
Active Transposition in Genomes
2012
Inference with viral quasispecies diversity indices: clonal and NGS approaches
2014
Bambus 2: scaffolding metagenomes
2011
The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote
2013 Standout
A Bountiful Harvest: Genomic Insights into Crop Domestication Phenotypes
2013
Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy
2017
Plants Release Precursors of Histone Deacetylase Inhibitors to Suppress Growth of Competitors
2015
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
2012 Standout
Omega: an Overlap-graphde novoAssembler for Metagenomics
2014
PEAR: a fast and accurate Illumina Paired-End reAd mergeR
2013 Standout
A link between LEAFY and B‐gene homologues in Welwitschia mirabilis sheds light on ancestral mechanisms prefiguring floral development
2017
PBSIM: PacBio reads simulator—toward accurate genome assembly
2012
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
2015 Standout
The DisGeNET knowledge platform for disease genomics: 2019 update
2019 Standout
Twelve years of SAMtools and BCFtools
2021 Standout
DNA-binding specificities of plant transcription factors and their potential to define target genes
2014
LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-throughput sequencing datasets
2012
ART: a next-generation sequencing read simulator
2011
Works of Felix Ott being referenced
Prediction of Regulatory Interactions from Genome Sequences Using a Biophysical Model for the Arabidopsis LEAFY Transcription Factor
2011
Orchestration of the Floral Transition and Floral Development in Arabidopsis by the Bifunctional Transcription Factor APETALA2
2010
A SAM oligomerization domain shapes the genomic binding landscape of the LEAFY transcription factor
2016
Temperature-dependent regulation of flowering by antagonistic FLM variants
2013 Nature
Whole-genome sequencing of multiple Arabidopsis thaliana populations
2011
MetaSim—A Sequencing Simulator for Genomics and Metagenomics
2008
Fast-Forward Genetics Identifies Plant CPL Phosphatases as Regulators of miRNA Processing Factor HYL1
2012
Comparative analysis of non-autonomous effects of tasiRNAs and miRNAs in Arabidopsis thaliana
2010
Natural Variation in Biogenesis Efficiency of Individual Arabidopsis thaliana MicroRNAs
2011
Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata
2011
Reference-guided assembly of four diverse Arabidopsis thaliana genomes
2011