Citation Impact
Citing Papers
voom: precision weights unlock linear model analysis tools for RNA-seq read counts
2014 Standout
de novo assembly and population genomic survey of natural yeast isolates with the Oxford Nanopore MinION sequencer
2017
Reciprocal Regulation of DUSP9 and DUSP16 Expression by HIF1 Controls ERK and p38 MAP Kinase Activity and Mediates Chemotherapy-Induced Breast Cancer Stem Cell Enrichment
2018 StandoutNobel
Oxford Nanopore MinION Sequencing and Genome Assembly
2016
Seeds for effective oligonucleotide design
2011
Tumor hypoxia induces nuclear paraspeckle formation through HIF-2α dependent transcriptional activation of NEAT1 leading to cancer cell survival
2014 StandoutNobel
Pharmacologic Targeting of Hypoxia-Inducible Factors
2019 StandoutNobel
Improved metagenomic analysis with Kraken 2
2019 Standout
The tumour hypoxia induced non-coding transcriptome
2016
Capture‐C reveals preformed chromatin interactions between HIF ‐binding sites and distant promoters
2016 StandoutNobel
The EGLN-HIF O 2 -Sensing System: Multiple Inputs and Feedbacks
2017 StandoutNobel
A novel and well-defined benchmarking method for second generation read mapping
2011
Hyperexpression of α-hemolysin explains enhanced virulence of sequence type 93 community-associated methicillin-resistant Staphylococcus aureus
2014
Nanopore sequencing at Mars, Europa, and microgravity conditions
2020 StandoutNobel
Hypoxia-regulated target genes implicated in tumor metastasis
2012
The Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community
2016
Implication of Long noncoding RNAs in the endothelial cell response to hypoxia revealed by RNA-sequencing
2016
Mechanisms of hypoxia signalling: new implications for nephrology
2019 StandoutNobel
The SIN3A histone deacetylase complex is required for a complete transcriptional response to hypoxia
2017 StandoutNobel
Extracellular Vesicle RNA: A Universal Mediator of Microbial Communication?
2018 StandoutNobel
MicroRNA-mediated mechanisms of the cellular stress response in atherosclerosis
2015
Update on hypoxia-inducible factors and hydroxylases in oxygen regulatory pathways: from physiology to therapeutics
2017 StandoutNobel
Direct radiocarbon dating and DNA analysis of the Darra-i-Kur (Afghanistan) human temporal bone
2017 StandoutNobel
Detecting and characterizing circular RNAs
2014 Standout
Complete nitrification by Nitrospira bacteria
2015 StandoutNature
Global mapping of miRNA-target interactions in cattle (Bos taurus)
2017 StandoutNobel
In Situ Field Sequencing and Life Detection in Remote (79°26′N) Canadian High Arctic Permafrost Ice Wedge Microbial Communities
2017
Skeletal infections: microbial pathogenesis, immunity and clinical management
2022 Standout
The Effects of Sequence Variation on Genome-wide NRF2 Binding—New Target Genes and Regulatory SNPs
2016
Robustness of the hypoxic response: Another job for miRNAs?
2012
Integrated analysis of microRNA and mRNA expression and association with HIF binding reveals the complexity of microRNA expression regulation under hypoxia
2014
Canu: scalable and accurate long-read assembly via adaptive k -mer weighting and repeat separation
2017 Standout
Fast and sensitive protein alignment using DIAMOND
2014 Standout
Hypoxia-inducible factors promote breast cancer stem cell specification and maintenance in response to hypoxia or cytotoxic chemotherapy
2018 StandoutNobel
limma powers differential expression analyses for RNA-sequencing and microarray studies
2015 Standout
The Third Revolution in Sequencing Technology
2018
Fast and accurate de novo genome assembly from long uncorrected reads
2017 Standout
The Complete Genome Sequence of Escherichia coli EC958: A High Quality Reference Sequence for the Globally Disseminated Multidrug Resistant E. coli O25b:H4-ST131 Clone
2014
Sensitive protein alignments at tree-of-life scale using DIAMOND
2021 Standout
Assembly of long, error-prone reads using repeat graphs
2019 Standout
Argonaute CLIP-Seq reveals miRNA targetome diversity across tissue types
2014
Deep learning in bioinformatics: Introduction, application, and perspective in the big data era
2019
Mining museums for historical DNA: advances and challenges in museomics
2021 Standout
Review of deep learning: concepts, CNN architectures, challenges, applications, future directions
2021 Standout
Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA
2015
Hypoxia-inducible factor 1 and breast cancer metastasis
2015 StandoutNobel
Reciprocal regulations between miRNAs and HIF-1α in human cancers
2018
Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads
2017 Standout
DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads
2017
Advances in Hypoxia-Inducible Factor Biology
2017
Nucleic Acid Extraction and Sequencing from Low-Biomass Synthetic Mars Analog Soils for In Situ Life Detection
2019 StandoutNobel
HypoxamiRs and Cancer: From Biology to Targeted Therapy
2013
Staphylococcus aureus Infections: Epidemiology, Pathophysiology, Clinical Manifestations, and Management
2015 Standout
Minimap2: pairwise alignment for nucleotide sequences
2018 Standout
SpEED: fast computation of sensitive spaced seeds
2011
proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
2014
The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote
2013 Standout
Adaptive Upregulation of Clumping Factor A (ClfA) by Staphylococcus aureus in the Obese, Type 2 Diabetic Host Mediates Increased Virulence
2017
Pleistocene North African genomes link Near Eastern and sub-Saharan African human populations
2018 StandoutScienceNobel
The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads
2019 Standout
The KEAP1-NRF2 System: a Thiol-Based Sensor-Effector Apparatus for Maintaining Redox Homeostasis
2018 Standout
RazerS 3: Faster, fully sensitive read mapping
2012
Endothelial Cell Dysfunction and the Pathobiology of Atherosclerosis
2016 Standout
Tools for mapping high-throughput sequencing data
2012
Global dissemination of a multidrug resistant Escherichia coli clone
2014
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
2013 Standout
Low-power portable devices for metagenomics analysis: Fog computing makes bioinformatics ready for the Internet of Things
2018
Antimicrobial Resistance in ESKAPE Pathogens
2020 Standout
Sources and Functions of Extracellular Small RNAs in Human Circulation
2016
rHAT: fast alignment of noisy long reads with regional hashing
2015
Works of Matei David being referenced
Nanocall: an open source basecaller for Oxford Nanopore sequencing data
2016
Deep-sequencing of endothelial cells exposed to hypoxia reveals the complexity of known and novel microRNAs
2012
Detecting DNA cytosine methylation using nanopore sequencing
2017
SHRiMP2: Sensitive yet Practical Short Read Mapping
2011