| # | Title | Journal | Year | Citations |
|---|
| 1 | Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega | Molecular Systems Biology | 2011 | 12,778 |
| 2 | tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes | Nucleic Acids Research | 2016 | 2,219 |
| 3 | The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs | Nucleic Acids Research | 2005 | 2,090 |
| 4 | Ultraconserved Elements in the Human Genome | Science | 2004 | 1,496 |
| 5 | tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences | Methods in Molecular Biology | 2019 | 1,023 |
| 6 | C-Myb+ Erythro-Myeloid Progenitor-Derived Fetal Monocytes Give Rise to Adult Tissue-Resident Macrophages | Immunity | 2015 | 847 |
| 7 | The chromatin accessibility landscape of primary human cancers | Science | 2018 | 781 |
| 8 | GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes | Nucleic Acids Research | 2016 | 776 |
| 9 | Automated forward and reverse ratcheting of DNA in a nanopore at 5-Å precision | Nature Biotechnology | 2012 | 528 |
| 10 | Replication stress is a potent driver of functional decline in ageing haematopoietic stem cells | Nature | 2014 | 519 |
| 11 | The Shaping of Modern Human Immune Systems by Multiregional Admixture with Archaic Humans | Science | 2011 | 441 |
| 12 | Complete Mitochondrial Genomes of Ancient Canids Suggest a European Origin of Domestic Dogs | Science | 2013 | 438 |
| 13 | Forces Shaping the Fastest Evolving Regions in the Human Genome | PLoS Genetics | 2006 | 399 |
| 14 | ARM-seq: AlkB-facilitated RNA methylation sequencing reveals a complex landscape of modified tRNA fragments | Nature Methods | 2015 | 350 |
| 15 | Nanopore long-read RNAseq reveals widespread transcriptional variation among the surface receptors of individual B cells | Nature Communications | 2017 | 329 |
| 16 | FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing | Nature Methods | 2010 | 289 |
| 17 | Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection | Nature Methods | 2015 | 282 |
| 18 | Ultrafast Sample placement on Existing tRees (UShER) enables real-time phylogenetics for the SARS-CoV-2 pandemic | Nature Genetics | 2021 | 264 |
| 19 | The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon | PLoS ONE | 2010 | 234 |
| 20 | Combining ATAC-seq with nuclei sorting for discovery of cis-regulatory regions in plant genomes | Nucleic Acids Research | 2017 | 231 |
| 21 | Inferring causal molecular networks: empirical assessment through a community-based effort | Nature Methods | 2016 | 209 |
| 22 | Complete genomic and epigenetic maps of human centromeres | Science | 2022 | 204 |
| 23 | Cancer vaccines and carbohydrate epitopes | Vaccine | 2011 | 203 |
| 24 | Transposable element islands facilitate adaptation to novel environments in an invasive species | Nature Communications | 2014 | 183 |
| 25 | Genomic Evidence for Island Population Conversion Resolves Conflicting Theories of Polar Bear Evolution | PLoS Genetics | 2013 | 181 |
| 26 | Million-year-old DNA sheds light on the genomic history of mammoths | Nature | 2021 | 179 |
| 27 | RNAcentral: a comprehensive database of non-coding RNA sequences | Nucleic Acids Research | 2017 | 174 |
| 28 | Analysis of V2 Antibody Responses Induced in Vaccinees in the ALVAC/AIDSVAX HIV-1 Vaccine Efficacy Trial | PLoS ONE | 2013 | 165 |
| 29 | Minimizing polymerase biases in metabarcoding | Molecular Ecology Resources | 2018 | 160 |
| 30 | Genomic evidence of geographically widespread effect of gene flow from polar bears into brown bears | Molecular Ecology | 2015 | 148 |
| 31 | Improved reference genome for the domestic horse increases assembly contiguity and composition | Communications Biology | 2018 | 148 |
| 32 | BRCA Challenge: BRCA Exchange as a global resource for variants in BRCA1 and BRCA2 | PLoS Genetics | 2018 | 148 |
| 33 | Compartmental Genomics in Living Cells Revealed by Single-Cell Nanobiopsy | ACS Nano | 2014 | 144 |
| 34 | A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters | Cell | 2019 | 144 |
| 35 | Genome-wide searching for pseudouridylation guide snoRNAs: analysis of the Saccharomyces cerevisiae genome | Nucleic Acids Research | 2004 | 139 |
| 36 | TRANSCRIPTOME AND GENOME CONSERVATION OF ALTERNATIVE SPLICING EVENTS IN HUMANS AND MICE | | 2003 | 138 |
| 37 | A Transient Developmental Hematopoietic Stem Cell Gives Rise to Innate-like B and T Cells | Cell Stem Cell | 2016 | 136 |
| 38 | Whole-transcriptome RNAseq analysis from minute amount of total RNA | Nucleic Acids Research | 2011 | 127 |
| 39 | A Hidden Markov Model Approach for Simultaneously Estimating Local Ancestry and Admixture Time Using Next Generation Sequence Data in Samples of Arbitrary Ploidy | PLoS Genetics | 2017 | 117 |
| 40 | Matching tRNA modifications in humans to their known and predicted enzymes | Nucleic Acids Research | 2019 | 116 |
| 41 | Molecular Signatures of Quiescent, Mobilized and Leukemia-Initiating Hematopoietic Stem Cells | PLoS ONE | 2010 | 114 |
| 42 | Towards microfluidic-based exosome isolation and detection for tumor therapy | Nano Today | 2021 | 112 |
| 43 | Sensitive giant magnetoresistive-based immunoassay for multiplex mycotoxin detection | Biosensors and Bioelectronics | 2010 | 108 |
| 44 | Natural selection shaped the rise and fall of passenger pigeon genomic diversity | Science | 2017 | 105 |
| 45 | Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility | Science | 2020 | 105 |
| 46 | Quantitation of Human Papillomavirus DNA in Plasma of Oropharyngeal Carcinoma Patients | International Journal of Radiation Oncology Biology Physics | 2012 | 101 |
| 47 | Microhaplotypes provide increased power from short‐read DNA sequences for relationship inference | Molecular Ecology Resources | 2018 | 101 |
| 48 | Cell Contact–Dependent Outer Membrane Exchange in Myxobacteria: Genetic Determinants and Mechanism | PLoS Genetics | 2012 | 99 |
| 49 | Reintroduction of the archaic variant of NOVA1 in cortical organoids alters neurodevelopment | Science | 2021 | 96 |
| 50 | From “Banghasomes” to liposomes: A memoir of Alec Bangham, 1921–2010 | FASEB Journal | 2010 | 94 |
