Citation Impact
Citing Papers
Oxidative Stress
2017 Standout
RepeatModeler2 for automated genomic discovery of transposable element families
2020 Standout
Increasing homogeneity in global food supplies and the implications for food security
2014 Standout
MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
2017 Standout
voom: precision weights unlock linear model analysis tools for RNA-seq read counts
2014 Standout
Genomic Analysis of Hospital Plumbing Reveals Diverse Reservoir of Bacterial Plasmids Conferring Carbapenem Resistance
2018
Crippling life support for SARS-CoV-2 and other viruses through synthetic lethality
2020 StandoutNobel
Cyanobacteria and the Great Oxidation Event: evidence from genes and fossils
2015
Global RNA recognition patterns of post‐transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivo
2016
An Introduction to Deep Reinforcement Learning
2018
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
2014 Standout
RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
2015 Standout
A survey of best practices for RNA-seq data analysis
2016 Standout
Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes
2015
GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes
2020 Standout
Hierarchical Mechanisms for Direct Reprogramming of Fibroblasts to Neurons
2013 StandoutNobel
Hydrogen peroxide as a central redox signaling molecule in physiological oxidative stress: Oxidative eustress
2017 Standout
Hydrogen peroxide sensing, signaling and regulation of transcription factors
2014
Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps
2010
Identification, variation and transcription of pneumococcal repeat sequences
2011
Are pangolins the intermediate host of the 2019 novel coronavirus (SARS-CoV-2)?
2020
Mechanisms of SARS-CoV-2 entry into cells
2021 Standout
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
2014 Standout
Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System
2015 Standout
Circular RNAs are a large class of animal RNAs with regulatory potency
2013 StandoutNature
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
2012 Standout
Longitudinal transcriptomic characterization of the immune response to acute hepatitis C virus infection in patients with spontaneous viral clearance
2018 StandoutNobel
Human ADAR1 Prevents Endogenous RNA from Triggering Translational Shutdown
2018 StandoutNobel
Genomic Characterisation of Invasive Non-Typhoidal Salmonella enterica Subspecies enterica Serovar Bovismorbificans Isolates from Malawi
2013
Strand-specific deep sequencing of the transcriptome
2010
A single-base resolution map of an archaeal transcriptome
2009
Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex
2014 StandoutNature
RNA-based recognition and targeting: sowing the seeds of specificity
2017 StandoutNobel
Comprehensive comparative analysis of strand-specific RNA sequencing methods
2010
Caffeinated and decaffeinated coffee and tea intakes and risk of colorectal cancer in a large prospective study
2012 Standout
Plasmid Flux in Escherichia coli ST131 Sublineages, Analyzed by Plasmid Constellation Network (PLACNET), a New Method for Plasmid Reconstruction from Whole Genome Sequences
2014
Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression
2019 Standout
Reactive oxygen species (ROS) as pleiotropic physiological signalling agents
2020 Standout
Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity
2009
MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data
2015 Standout
The primary transcriptome of the major human pathogen Helicobacter pylori
2010 StandoutNature
Chloroplast Genome Analysis of Resurrection Tertiary Relict Haberlea rhodopensis Highlights Genes Important for Desiccation Stress Response
2017
Full characterization of the integrative and conjugative element carrying the metallo-β-lactamaseblaSPM-1and bicyclomycinbcr1resistance genes found in the pandemicPseudomonas aeruginosaclone SP/ST277 : Figure 1.
2015
limma powers differential expression analyses for RNA-sequencing and microarray studies
2015 Standout
Oxidative Stress in Cancer
2020 Standout
Defining roles of specific reactive oxygen species (ROS) in cell biology and physiology
2022 Standout
Elucidation of the RamA Regulon in Klebsiella pneumoniae Reveals a Role in LPS Regulation
2015
Biogenesis pathways of RNA guides in archaeal and bacterial CRISPR-Cas adaptive immunity
2015 StandoutNobel
Insights into the regulation of protein abundance from proteomic and transcriptomic analyses
2012 Standout
Investigating CRISPR RNA Biogenesis and Function Using RNA-seq
2015
Next Generation Sequencing Analysis of Human Platelet PolyA+ mRNAs and rRNA-Depleted Total RNA
2013 StandoutNobel
Mining museums for historical DNA: advances and challenges in museomics
2021 Standout
metaSPAdes: a new versatile metagenomic assembler
2017 Standout
Next-generation transcriptome assembly
2011
A beginner's guide to eukaryotic genome annotation
2012
A post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
2012
Dominant Role of Nucleotide Substitution in the Diversification of Serotype 3 Pneumococci over Decades and during a Single Infection
2013
The human skin microbiome
2018 Standout
Cyanobacterial blooms
2018 Standout
Multidrug efflux pumps: structure, function and regulation
2018 Standout
RNA-seq: from technology to biology
2009
A Fibrosis‐Independent Hepatic Transcriptomic Signature Identifies Drivers of Disease Progression in Primary Sclerosing Cholangitis
2020 StandoutNobel
Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach
2013 Standout
Mobile Genetic Elements Associated with Antimicrobial Resistance
2018 Standout
Genetic Variation at IFNL4 Influences Extrahepatic Interferon-Stimulated Gene Expression in Chronic HCV Patients
2017 StandoutNobel
Klebsiella pneumoniae: Going on the Offense with a Strong Defense
2016 Standout
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
2014 Standout
Staphylococcus epidermidis pan-genome sequence analysis reveals diversity of skin commensal and hospital infection-associated isolates
2012
The Reciprocal Interactions between Polyphenols and Gut Microbiota and Effects on Bioaccessibility
2016 Standout
The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads
2019 Standout
Digital Reticular Chemistry
2020 StandoutNobel
Sources of erroneous sequences and artifact chimeric reads in next generation sequencing of genomic DNA from formalin-fixed paraffin-embedded samples
2018
Nascent-Seq reveals novel features of mouse circadian transcriptional regulation
2012 StandoutNobel
Metabolic fate of polyphenols in the human superorganism
2010
Plant Genetic Resources Conservation and Utilization: The Accomplishments and Future of a Societal Insurance Policy
2006
A new model for electron flow during anaerobic digestion: direct interspecies electron transfer to Methanosaeta for the reduction of carbon dioxide to methane
2013 Standout
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
2013 Standout
Antimicrobial Resistance in ESKAPE Pathogens
2020 Standout
Works of Samuel Assefa being referenced
A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi
2009
Diversity among Cynodon accessions and taxa based on DNA amplification fingerprinting
1999
A simple method for directional transcriptome sequencing using Illumina technology
2009
Generating Synthetic Data in Finance: Opportunities, Challenges and Pitfalls
2020
ABACAS: algorithm-based automatic contiguation of assembled sequences
2009