Published in BMC Biotechnol on November 20, 2013
Inexpensive multiplexed library preparation for megabase-sized genomes. PLoS One (2015) 1.91
Factors influencing success of clinical genome sequencing across a broad spectrum of disorders. Nat Genet (2015) 1.76
The architecture of parent-of-origin effects in mice. Cell (2014) 1.68
Microprocessor mediates transcriptional termination of long noncoding RNA transcripts hosting microRNAs. Nat Struct Mol Biol (2015) 1.60
Cerebrospinal fluid-derived circulating tumour DNA better represents the genomic alterations of brain tumours than plasma. Nat Commun (2015) 1.07
Transcript Expression Data from Human Islets Links Regulatory Signals from Genome-Wide Association Studies for Type 2 Diabetes and Glycemic Traits to Their Downstream Effectors. PLoS Genet (2015) 1.03
ve-SEQ: Robust, unbiased enrichment for streamlined detection and whole-genome sequencing of HCV and other highly diverse pathogens. F1000Res (2015) 1.02
ATRX Plays a Key Role in Maintaining Silencing at Interstitial Heterochromatic Loci and Imprinted Genes. Cell Rep (2015) 0.99
Flexible and scalable genotyping-by-sequencing strategies for population studies. BMC Genomics (2014) 0.98
Genome-wide association of multiple complex traits in outbred mice by ultra-low-coverage sequencing. Nat Genet (2016) 0.87
GeneSippr: a rapid whole-genome approach for the identification and characterization of foodborne pathogens such as priority Shiga toxigenic Escherichia coli. PLoS One (2015) 0.83
Construction of a high-density mutant library in soybean and development of a mutant retrieval method using amplicon sequencing. BMC Genomics (2015) 0.82
Automated Gel Size Selection to Improve the Quality of Next-generation Sequencing Libraries Prepared from Environmental Water Samples. J Vis Exp (2015) 0.78
Insights into islet development and biology through characterization of a human iPSC-derived endocrine pancreas model. Islets (2016) 0.77
Human islet function following 20 years of cryogenic biobanking. Diabetologia (2015) 0.77
Genome Sequence of Geobacillus sp. Strain ZGt-1, an Antibacterial Peptide-Producing Bacterium from Hot Springs in Jordan. Genome Announc (2015) 0.76
Transcriptomic profiling of purified patient-derived dopamine neurons identifies convergent perturbations and therapeutics for Parkinson's disease. Hum Mol Genet (2017) 0.76
Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics. PeerJ (2016) 0.76
Single-cell RNA-sequencing: The future of genome biology is now. RNA Biol (2016) 0.75
Miniaturization Technologies for Efficient Single-Cell Library Preparation for Next-Generation Sequencing. J Lab Autom (2016) 0.75
Genome-to-genome analysis highlights the effect of the human innate and adaptive immune systems on the hepatitis C virus. Nat Genet (2017) 0.75
Comparison of six commercial kits to extract bacterial chromosome and plasmid DNA for MiSeq sequencing. Sci Rep (2016) 0.75
Highly-Immunogenic Virally-Vectored T-cell Vaccines Cannot Overcome Subversion of the T-cell Response by HCV during Chronic Infection. Vaccines (Basel) (2016) 0.75
Comprehensive comparison of Pacific Biosciences and Oxford Nanopore Technologies and their applications to transcriptome analysis. F1000Res (2017) 0.75
The Sequence Alignment/Map format and SAMtools. Bioinformatics (2009) 232.39
Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res (2008) 151.16
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res (2010) 97.51
Stampy: a statistical algorithm for sensitive and fast mapping of Illumina sequence reads. Genome Res (2010) 9.55
Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries. Genome Biol (2011) 9.18
Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition. Genome Biol (2010) 6.07
A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance. BMJ Open (2012) 3.93
Optimal enzymes for amplifying sequencing libraries. Nat Methods (2011) 3.21
Tn5/IS50 target recognition. Proc Natl Acad Sci U S A (1998) 2.47
Mauve assembly metrics. Bioinformatics (2011) 2.25
Optimizing Illumina next-generation sequencing library preparation for extremely AT-biased genomes. BMC Genomics (2012) 2.20
Microevolutionary analysis of Clostridium difficile genomes to investigate transmission. Genome Biol (2012) 2.04
Evaluation of a transposase protocol for rapid generation of shotgun high-throughput sequencing libraries from nanogram quantities of DNA. Appl Environ Microbiol (2011) 1.88
Tn5 as a model for understanding DNA transposition. Mol Microbiol (2003) 1.69
Transposase mediated construction of RNA-seq libraries. Genome Res (2011) 1.66
Ultra-low-input, tagmentation-based whole-genome bisulfite sequencing. Genome Res (2012) 1.50
Homopolymer tail-mediated ligation PCR: a streamlined and highly efficient method for DNA cloning and library construction. Biotechniques (2013) 1.29
Preparation of next-generation sequencing libraries using Nextera™ technology: simultaneous DNA fragmentation and adaptor tagging by in vitro transposition. Methods Mol Biol (2011) 1.28
Preparation of high-quality next-generation sequencing libraries from picogram quantities of target DNA. Genome Res (2011) 1.24
The variant call format and VCFtools. Bioinformatics (2011) 25.88
A systematic survey of loss-of-function variants in human protein-coding genes. Science (2012) 12.25
Dindel: accurate indel calls from short-read data. Genome Res (2010) 8.62
Drive against hotspot motifs in primates implicates the PRDM9 gene in meiotic recombination. Science (2009) 7.35
Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res (2007) 7.34
Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study. Lancet Infect Dis (2012) 7.18
The DNA sequence of the human X chromosome. Nature (2005) 6.97
Chloramphenicol treatment for acute infective conjunctivitis in children in primary care: a randomised double-blind placebo-controlled trial. Lancet (2005) 6.86
Multilocus sequence typing of Clostridium difficile. J Clin Microbiol (2009) 4.16
Insights into hominid evolution from the gorilla genome sequence. Nature (2012) 4.12
A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance. BMJ Open (2012) 3.93
Comparative and demographic analysis of orang-utan genomes. Nature (2011) 3.83
Accelerated evolution of the Prdm9 speciation gene across diverse metazoan taxa. PLoS Genet (2009) 3.60
Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain. PLoS Genet (2009) 3.38
Evolutionary dynamics of Staphylococcus aureus during progression from carriage to disease. Proc Natl Acad Sci U S A (2012) 3.29
Whole-genome sequencing shows that patient-to-patient transmission rarely accounts for acquisition of Staphylococcus aureus in an intensive care unit. Clin Infect Dis (2013) 3.05
A fine-scale chimpanzee genetic map from population sequencing. Science (2012) 2.83
MRSA bacteraemia in patients on arrival in hospital: a cohort study in Oxfordshire 1997-2003. BMJ (2005) 2.77
KNOX action in Arabidopsis is mediated by coordinate regulation of cytokinin and gibberellin activities. Curr Biol (2005) 2.54
The bonobo genome compared with the chimpanzee and human genomes. Nature (2012) 2.49
Multiple instances of ancient balancing selection shared between humans and chimpanzees. Science (2013) 2.32
Microevolutionary analysis of Clostridium difficile genomes to investigate transmission. Genome Biol (2012) 2.04
Emergence and persistence of CXCR4-tropic HIV-1 in a population of men from the multicenter AIDS cohort study. J Infect Dis (2008) 2.01
Next generation sequencing for molecular diagnosis of neurological disorders using ataxias as a model. Brain (2013) 1.95
Genome-wide association mapping in bacteria? Trends Microbiol (2006) 1.93
Massive turnover of functional sequence in human and other mammalian genomes. Genome Res (2010) 1.89
The human pancreatic islet transcriptome: expression of candidate genes for type 1 diabetes and the impact of pro-inflammatory cytokines. PLoS Genet (2012) 1.88
Determinants of acquisition and carriage of Staphylococcus aureus in infancy. J Clin Microbiol (2003) 1.87
The origin, evolution, and functional impact of short insertion-deletion variants identified in 179 human genomes. Genome Res (2013) 1.83
DC-SIGN is a receptor for human herpesvirus 8 on dendritic cells and macrophages. J Immunol (2006) 1.78
Identification of serotype in culture negative pneumococcal meningitis using sequential multiplex PCR: implication for surveillance and vaccine design. PLoS One (2008) 1.72
Evaluation of a cluster-randomized controlled trial of a package of community-based maternal and newborn interventions in Mirzapur, Bangladesh. PLoS One (2010) 1.70
Rising to the challenge: will the NHS support people with long term conditions? BMJ (2005) 1.69
Within-host evolution of Staphylococcus aureus during asymptomatic carriage. PLoS One (2013) 1.67
Novel type IV secretion system involved in propagation of genomic islands. J Bacteriol (2006) 1.64
Genome assembly quality: assessment and improvement using the neutral indel model. Genome Res (2010) 1.64
Recombination and population structure in Salmonella enterica. PLoS Genet (2011) 1.61
People of the British Isles: preliminary analysis of genotypes and surnames in a UK-control population. Eur J Hum Genet (2011) 1.58
Mutations in AP2S1 cause familial hypocalciuric hypercalcemia type 3. Nat Genet (2012) 1.53
Simultaneous integrated boost intensity-modulated radiotherapy for locally advanced head-and-neck squamous cell carcinomas: II--clinical results. Int J Radiat Oncol Biol Phys (2004) 1.51
Pneumococcal genome sequencing tracks a vaccine escape variant formed through a multi-fragment recombination event. Nat Genet (2012) 1.43
Estimating divergence time and ancestral effective population size of Bornean and Sumatran orangutan subspecies using a coalescent hidden Markov model. PLoS Genet (2011) 1.37
Stable and noncompetitive RNA internal control for routine clinical diagnostic reverse transcription-PCR. J Clin Microbiol (2004) 1.33
GAT: a simulation framework for testing the association of genomic intervals. Bioinformatics (2013) 1.27
DC-SIGN on B lymphocytes is required for transmission of HIV-1 to T lymphocytes. PLoS Pathog (2006) 1.25
Preparation of high-quality next-generation sequencing libraries from picogram quantities of target DNA. Genome Res (2011) 1.24
A new isolation with migration model along complete genomes infers very different divergence processes among closely related great ape species. PLoS Genet (2012) 1.23
Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large-scale whole-genome sequencing. J Infect Dis (2012) 1.21
Epitope discovery in West Nile virus infection: Identification and immune recognition of viral epitopes. Proc Natl Acad Sci U S A (2008) 1.18
Population-based incidence and etiology of community-acquired neonatal bacteremia in Mirzapur, Bangladesh: an observational study. J Infect Dis (2009) 1.18
Waves of trouble: MRSA strain dynamics and assessment of the impact of infection control. J Antimicrob Chemother (2011) 1.17
Whole genome sequencing and de novo assembly identifies Sydney-like variant noroviruses and recombinants during the winter 2012/2013 outbreak in England. Virol J (2013) 1.16
Unlocking the bottleneck in forward genetics using whole-genome sequencing and identity by descent to isolate causative mutations. PLoS Genet (2013) 1.14
Recessive mutations in SPTBN2 implicate β-III spectrin in both cognitive and motor development. PLoS Genet (2012) 1.14
Whole-exome sequencing studies of nonhereditary (sporadic) parathyroid adenomas. J Clin Endocrinol Metab (2012) 1.12
MicroRNA expression in abdominal and gluteal adipose tissue is associated with mRNA expression levels and partly genetically driven. PLoS One (2011) 1.11
A modified RNA-Seq approach for whole genome sequencing of RNA viruses from faecal and blood samples. PLoS One (2013) 1.07
Signatures of adaptive evolution within human non-coding sequence. Hum Mol Genet (2006) 1.03
Dog as an outgroup to human and mouse. PLoS Comput Biol (2007) 1.03
pl-bol3, a complex allele of the anthocyanin regulatory pl1 locus that arose in a naturally occurring maize population. Plant J (2003) 1.01
Mechanisms of erythropoiesis inhibition by malarial pigment and malaria-induced proinflammatory mediators in an in vitro model. Am J Hematol (2011) 1.01
Near patient testing for influenza in children in primary care: comparison with laboratory test. BMJ (2003) 1.01
Virus infection of dendritic cells: portal for host invasion and host defense. Trends Microbiol (2004) 1.01
Demographic and clinical factors associated with persistent symptoms after West Nile virus infection. Am J Trop Med Hyg (2010) 1.00
Surgical management of jugular foramen meningiomas: a series of 13 cases and review of the literature. Laryngoscope (2007) 1.00
Contributions of intrinsic mutation rate and selfish selection to levels of de novo HRAS mutations in the paternal germline. Proc Natl Acad Sci U S A (2013) 1.00
PROCERA encodes a DELLA protein that mediates control of dissected leaf form in tomato. Plant J (2008) 0.96
Segmentation of fluorescence microscopy images for quantitative analysis of cell nuclear architecture. Biophys J (2009) 0.94
Production of a dendritic cell-based vaccine containing inactivated autologous virus for therapy of patients with chronic human immunodeficiency virus type 1 infection. Clin Vaccine Immunol (2008) 0.94
Accurate reconstruction of insertion-deletion histories by statistical phylogenetics. PLoS One (2012) 0.94
Whole-exome sequencing studies of nonfunctioning pituitary adenomas. J Clin Endocrinol Metab (2013) 0.89
Development and implementation of a direct detection, quantitation and validation system for class I MHC self-peptide epitopes. J Immunol Methods (2006) 0.87
Influenza-like illness among university students: symptom severity and duration due to influenza virus infection compared to other etiologies. J Am Coll Health (2011) 0.87
Revision glomus tumor surgery. Otolaryngol Clin North Am (2006) 0.86
Large-scale generation of human iPSC-derived neural stem cells/early neural progenitor cells and their neuronal differentiation. Organogenesis (2014) 0.86
Management of the internal carotid artery in tumors of the lateral skull base: preoperative permanent balloon occlusion without reconstruction. Otol Neurotol (2004) 0.85
Prevalence of Staphylococcus aureus protein A (spa) mutants in the community and hospitals in Oxfordshire. BMC Microbiol (2014) 0.85
The use of internal carotid artery stenting in management of bilateral carotid body tumors. Eur Arch Otorhinolaryngol (2011) 0.84
Brain apparent diffusion coefficient evaluation in pediatric patients with neurofibromatosis type 1. J Comput Assist Tomogr (2005) 0.83
Dehiscence of posterior semicircular canal. Otol Neurotol (2007) 0.82
Evolutionary biology: human brain gene wins genome race. Nature (2006) 0.82
Monofunctional and polyfunctional CD8+ T cell responses to human herpesvirus 8 lytic and latency proteins. Clin Vaccine Immunol (2010) 0.82
Surgical management of tympanojugular paragangliomas with intradural extension, with a proposed revision of the Fisch classification. Audiol Neurootol (2012) 0.82
Endovascular treatment of an innominate artery iatrogenic pseudoaneurysm following subclavian vein catheterization. Vasc Endovascular Surg (2011) 0.80
A cross-sectional observational study of pneumococcal carriage in children, their parents, and older adults following the introduction of the 7-valent pneumococcal conjugate vaccine. Medicine (Baltimore) (2015) 0.80
Management of complex tympanojugular paragangliomas including endovascular intervention. Laryngoscope (2011) 0.79
Hepatobiliary effects of 90yttrium microsphere therapy for unresectable hepatocellular carcinoma. Hum Pathol (2008) 0.79
Investigating selection on viruses: a statistical alignment approach. BMC Bioinformatics (2008) 0.79
Alterations in cholesterol metabolism restrict HIV-1 trans infection in nonprogressors. MBio (2014) 0.79
Identification of another module involved in the horizontal transfer of the Haemophilus genomic island ICEHin1056. Plasmid (2013) 0.78