Citation Impact
Citing Papers
Human cerebral organoids recapitulate gene expression programs of fetal neocortex development
2015 StandoutNobel
The Sequence Alignment/Map format and SAMtools
2009 Standout
STAR: ultrafast universal RNA-seq aligner
2012 Standout
Caenorhabditis elegans ADAR editing and the ERI-6/7/MOV10 RNAi pathway silence endogenous viral elements and LTR retrotransposons
2020 StandoutNobel
edgeR : a Bioconductor package for differential expression analysis of digital gene expression data
2009 Standout
Population genomics and local adaptation in wild isolates of a model microbial eukaryote
2011
Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
2008
Comprehensive genomic characterization of head and neck squamous cell carcinomas
2015 StandoutNature
Hypoxia-inducible factors and RAB22A mediate formation of microvesicles that stimulate breast cancer invasion and metastasis
2014 StandoutNobel
Comprehensive molecular portraits of human breast tumours
2012 StandoutNature
Mutational landscape and significance across 12 major cancer types
2013 StandoutNature
Hierarchical Mechanisms for Direct Reprogramming of Fibroblasts to Neurons
2013 StandoutNobel
Signatures of positive selection reveal a universal role of chromatin modifiers as cancer driver genes
2017
High quality draft sequences for prokaryotic genomes using a mix of new sequencing technologies
2008
Chromosome-scale selective sweeps shape Caenorhabditis elegans genomic diversity
2012
Caenorhabditis elegans mutant allele identification by whole-genome sequencing
2008
Pancreatic cancer genomics
2014
Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq
2012 StandoutNature
Circular RNAs are a large class of animal RNAs with regulatory potency
2013 StandoutNature
True single-molecule DNA sequencing of a pleistocene horse bone
2011
ChIP–seq: advantages and challenges of a maturing technology
2009
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
2010 Standout
Lessons from the Cancer Genome
2013
Design of association studies with pooled or un‐pooled next‐generation sequencing data
2010
De novo fragment assembly with short mate-paired reads: Does the read length matter?
2008
Personalized copy number and segmental duplication maps using next-generation sequencing
2009
Expanding the computational toolbox for mining cancer genomes
2014
Genetic Alterations Associated With Progression From Pancreatic Intraepithelial Neoplasia to Invasive Pancreatic Tumor
2013
Integrated genomic characterization of endometrial carcinoma
2013 StandoutNature
PD-1 and PD-L1 Immune Checkpoint Blockade to Treat Breast Cancer
2016 Standout
RNA sequencing shows no dosage compensation of the active X-chromosome
2010
RazerS—fast read mapping with sensitivity control
2009
Evaluation of next generation sequencing platforms for population targeted sequencing studies
2009
Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia
2013 Standout
High-Precision, Whole-Genome Sequencing of Laboratory Strains Facilitates Genetic Studies
2008
Fast gapped-read alignment with Bowtie 2
2012 Standout
Sensitive, specific polymorphism discovery in bacteria using massively parallel sequencing
2008
Exosomes facilitate therapeutic targeting of oncogenic KRAS in pancreatic cancer
2017 StandoutNature
Translation of genomics-guided RNA-based personalised cancer vaccines: towards the bedside
2014
RNA-Seq: a revolutionary tool for transcriptomics
2008 Standout
Glypican-1 identifies cancer exosomes and detects early pancreatic cancer
2015 StandoutNature
Emerging landscape of oncogenic signatures across human cancers
2013
N6-methyladenosine-dependent regulation of messenger RNA stability
2013 StandoutNature
Cancer exome analysis reveals a T-cell-dependent mechanism of cancer immunoediting
2012 StandoutNatureNobel
Alta-Cyclic: a self-optimizing base caller for next-generation sequencing
2008
Distinct Cellular Mechanisms Underlie Anti-CTLA-4 and Anti-PD-1 Checkpoint Blockade
2017 StandoutNobel
Emerging fungal threats to animal, plant and ecosystem health
2012 StandoutNature
VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing
2012 Standout
Maftools: efficient and comprehensive analysis of somatic variants in cancer
2018 Standout
Discovery and saturation analysis of cancer genes across 21 tumour types
2014 StandoutNature
Comprehensive Integration of Single-Cell Data
2019 Standout
Comprehensive identification of mutational cancer driver genes across 12 tumor types
2013
FunSeq2: a framework for prioritizing noncoding regulatory variants in cancer
2014
Mapping short DNA sequencing reads and calling variants using mapping quality scores
2008 Standout
Sequencing of natural strains of Arabidopsis thaliana with short reads
2008
De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae
2008
Organoid single-cell genomic atlas uncovers human-specific features of brain development
2019 StandoutNatureNobel
The evolution of gene expression levels in mammalian organs
2011 StandoutNatureNobel
Sequencing technologies — the next generation
2009 Standout
Effect of the diet type and temperature on theC. eleganstranscriptome
2017
ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches
2009
Inferring tumour purity and stromal and immune cell admixture from expression data
2013 Standout
VarScan: variant detection in massively parallel sequencing of individual and pooled samples
2009
PurityEst: estimating purity of human tumor samples using next-generation sequencing data
2012
CloudMap: A Cloud-Based Pipeline for Analysis of Mutant Genome Sequences
2012
Cutadapt removes adapter sequences from high-throughput sequencing reads
2011 Standout
Hypoxia-inducible factor 1-dependent expression of adenosine receptor 2B promotes breast cancer stem cell enrichment
2018 StandoutNobel
Regulation of Caenorhabditis elegans neuronal polarity by heterochronic genes
2019 StandoutNobel
Determination of tag density required for digital transcriptome analysis: Application to an androgen-sensitive prostate cancer model
2008
Chemotherapy induces enrichment of CD47 + /CD73 + /PDL1 + immune evasive triple-negative breast cancer cells
2018 StandoutNobel
Fast and accurate short read alignment with Burrows–Wheeler transform
2009 Standout
Optimal spliced alignments of short sequence reads
2008
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
High Throughput Short Read Alignment via Bi-directional BWT
2009
JointSNVMix: a probabilistic model for accurate detection of somatic mutations in normal/tumour paired next-generation sequencing data
2012
Optimal spliced alignments of short sequence reads
2008
Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments
2013 StandoutNobel
Neoantigens in cancer immunotherapy
2015 StandoutScience
HIF-1 regulates CD47 expression in breast cancer cells to promote evasion of phagocytosis and maintenance of cancer stem cells
2015 StandoutNobel
Nascent-Seq analysis of Drosophila cycling gene expression
2013 StandoutNobel
Chemotherapy triggers HIF-1–dependent glutathione synthesis and copper chelation that induces the breast cancer stem cell phenotype
2015 StandoutNobel
Hypoxia-inducible factor-dependent signaling between triple-negative breast cancer cells and mesenchymal stem cells promotes macrophage recruitment
2014 StandoutNobel
TopHat: discovering splice junctions with RNA-Seq
2009 Standout
Mitochondrial activation chemicals synergize with surface receptor PD-1 blockade for T cell-dependent antitumor activity
2017 StandoutNobel
Circadian neuron feedback controls the Drosophila sleep–activity profile
2016 StandoutNatureNobel
Caenorhabditis elegans responses to bacteria from its natural habitats
2016 StandoutNobel
OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes
2013
Works of David J. Dooling being referenced
MuSiC: Identifying mutational significance in cancer genomes
2012
Whole-genome sequencing and variant discovery in C. elegans
2008
SomaticSniper: identification of somatic point mutations in whole genome sequencing data
2011