Citation Impact
Citing Papers
Genome Sequencing Identifies a Basis for Everolimus Sensitivity
2012 Science
rMATS: Robust and flexible detection of differential alternative splicing from replicate RNA-Seq data
2014 Standout
RepeatModeler2 for automated genomic discovery of transposable element families
2020 Standout
voom: precision weights unlock linear model analysis tools for RNA-seq read counts
2014 Standout
NanoPack: visualizing and processing long-read sequencing data
2018 Standout
CLEVER: clique-enumerating variant finder
2012
The prenatal gut microbiome: are we colonized with bacteria in utero ?
2017
Assembly of long error-prone reads using de Bruijn graphs
2016
Altitude Adaptation: A Glimpse Through Various Lenses
2015
Human high-altitude adaptation: forward genetics meets the HIF pathway
2014
Evolutionary history of Tibetans inferred from whole-genome sequencing
2017 StandoutNobel
The Ensembl Variant Effect Predictor
2016 Standout
A critical assessment of the “sterile womb” and “in utero colonization” hypotheses: implications for research on the pioneer infant microbiome
2017 Standout
The EGLN-HIF O 2 -Sensing System: Multiple Inputs and Feedbacks
2017 StandoutNobel
The Intestinal Microbiome in Early Life: Health and Disease
2014
Sensitive Quantitative Analysis of the Meconium Bacterial Microbiota in Healthy Term Infants Born Vaginally or by Cesarean Section
2016
Haplotype-resolved genome sequencing: experimental methods and applications
2015
Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement
2014 Standout
Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes
2009
The advantages and disadvantages of being polyploid
2005 Standout
Intestinal microbiota during early life – impact on health and disease
2014
De novo identification of repeat families in large genomes
2005
Applying genomic and transcriptomic advances to mitochondrial medicine
2021
Design and validation issues in RNA-seq experiments
2011
Hallmarks of aging: An expanding universe
2023 Standout
The composition of the gut microbiota throughout life, with an emphasis on early life
2015
Application of second-generation sequencing to cancer genomics
2010
Microbial Changes during Pregnancy, Birth, and Infancy
2016
Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes
2006
Expanding the computational toolbox for mining cancer genomes
2014
The relationship between non‐protein‐coding DNA and eukaryotic complexity
2007
The single-cell transcriptional landscape of mammalian organogenesis
2019 StandoutNature
mTOR Signaling in Growth, Metabolism, and Disease
2017 Standout
Ganglion-specific splicing of TRPV1 underlies infrared sensation in vampire bats
2011 StandoutNatureNobel
Aptamers as therapeutics
2010 Standout
Whole genome sequencing in clinical and public health microbiology
2015
Multiple sequence alignment: In pursuit of homologous DNA positions
2007
Long non-coding RNAs: new players in cell differentiation and development
2013 Standout
Maternal influences on fetal microbial colonization and immune development
2014
Using genomic data to unravel the root of the placental mammal phylogeny
2007
Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing
2014
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
2012 Standout
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement
2010 Standout
Nanopore sequencing detects structural variants in cancer
2016
Ancestral polyploidy in seed plants and angiosperms
2011 StandoutNature
The history of hepatitis C virus (HCV): Basic research reveals unique features in phylogeny, evolution and the viral life cycle with new perspectives for epidemic control
2016
Liquid biopsies come of age: towards implementation of circulating tumour DNA
2017 Standout
First-Pass Meconium Samples from Healthy Term Vaginally-Delivered Neonates: An Analysis of the Microbiota
2015
Current understanding of the human microbiome
2018 Standout
How to usefully compare homologous plant genes and chromosomes as DNA sequences
2008
Direct mutation analysis by high-throughput sequencing: From germline to low-abundant, somatic variants
2011
Coming of age: ten years of next-generation sequencing technologies
2016 Standout
Efficient experimental design and analysis strategies for the detection of differential expression using RNA-Sequencing
2012
Assembly of long, error-prone reads using repeat graphs
2019 Standout
Deficient Induction Response in a Xenopus Nucleocytoplasmic Hybrid
2011 StandoutNobel
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
2012 Standout
Revised Estimates for the Number of Human and Bacteria Cells in the Body
2016 Standout
The infant microbiome development: mom matters
2014
miRNA independent hepacivirus variants suggest a strong evolutionary pressure to maintain miR-122 dependence
2017 StandoutNobel
The Hallmarks of Aging
2013 Standout
Human gut colonisation may be initiated in utero by distinct microbial communities in the placenta and amniotic fluid
2016
The PI3K Pathway in Human Disease
2017 Standout
Delayed gut microbiota development in high-risk for asthma infants is temporarily modifiable by Lactobacillus supplementation
2018
The emerging biofuel crop Camelina sativa retains a highly undifferentiated hexaploid genome structure
2014 Standout
A survey of tools for variant analysis of next-generation genome sequencing data
2013
A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species
2011 Standout
Maftools: efficient and comprehensive analysis of somatic variants in cancer
2018 Standout
Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications
2017
Of the bugs that shape us: maternal obesity, the gut microbiome, and long-term disease risk
2014
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
2017 Standout
ATAC-see reveals the accessible genome by transposase-mediated imaging and sequencing
2016 StandoutNobel
Sequence assembly demystified
2013
Long non-coding RNAs: insights into functions
2009 Standout
Organization and variability of the maize genome
2006
Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery
2017
Gut microbiota in human metabolic health and disease
2020 Standout
Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package
2015
The human skin microbiome
2018 Standout
Plant genome organisation and diversity: the year of the junk!
2006
A unified classification system for eukaryotic transposable elements
2007 Standout
Genomic Duplication, Fractionation and the Origin of Regulatory Novelty
2004
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions
2006
Clinical iron deficiency disturbs normal human responses to hypoxia
2016 StandoutNobel
Genome sequencing and analysis of the model grass Brachypodium distachyon
2010 StandoutNature
Diagnosing COVID-19: The Disease and Tools for Detection
2020 Standout
A Recombinant Hepatitis C Virus Genotype 1a E1/E2 Envelope Glycoprotein Vaccine Elicits Antibodies That Differentially Neutralize Closely Related 2a Strains through Interactions of the N-Terminal Hypervariable Region 1 of E2 with Scavenger Receptor B1
2019 StandoutNobel
Introduction to the human gut microbiota
2017 Standout
Model Averaging and Bayes Factor Calculation of Relaxed Molecular Clocks in Bayesian Phylogenetics
2011
A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
2011 Standout
Cancer Genome Landscapes
2013 StandoutScience
Endothelial Hypoxia-Inducible Factor-2α Is Required for the Maintenance of Airway Microvasculature
2019 StandoutNobel
The First Microbial Colonizers of the Human Gut: Composition, Activities, and Health Implications of the Infant Gut Microbiota
2017 Standout
A systematic dissection of determinants and consequences of snoRNA-guided pseudouridylation of human mRNA
2022 StandoutNobel
Confirming the Phylogeny of Mammals by Use of Large Comparative Sequence Data Sets
2008
Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7
2018 Standout
Finding and Comparing Syntenic Regions among Arabidopsis and the Outgroups Papaya, Poplar, and Grape: CoGe with Rosids
2008
Works of Ali Bashir being referenced
Designing deep sequencing experiments: detecting structural variation and estimating transcript abundance
2010
Evaluation of Paired-End Sequencing Strategies for Detection of Genome Rearrangements in Cancer
2008
Conserved Noncoding Sequences in the Grasses4
2003
Strobe sequence design for haplotype assembly
2011
Orthologous repeats and mammalian phylogenetic inference
2005
Diversified Microbiota of Meconium Is Affected by Maternal Diabetes Status
2013
Hepatitis C virus genetics affects miR-122 requirements and response to miR-122 inhibitors
2014
Structural variation analysis with strobe reads
2010
Alpha-CENTAURI: assessing novel centromeric repeat sequence variation with long read sequencing
2016
A geometric approach for classification and comparison of structural variants
2009
Characterization of structural variants with single molecule and hybrid sequencing approaches
2014
Resolving complex tandem repeats with long reads
2014
Genome Sequencing of an Extended Series of NDM-Producing Klebsiella pneumoniae Isolates from Neonatal Infections in a Nepali Hospital Characterizes the Extent of Community- versus Hospital-Associated Transmission in an Endemic Setting
2014
Experimental selection of hypoxia-tolerant Drosophila melanogaster
2011