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Author: Adam M. Phillippy

  • ORCiD: http://orcid.org/0000-0003-2983-8934
  • Most recently observed institution: Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health

Rankings

  • All-time downloads: 104,545 (rank: 266 out of 397,841)
  • Categories:
    • bioinformatics: 55,161 (rank: 36 out of 33,896)
    • genetics: 427 (rank: 23,550 (tie) out of 36,473)
    • genomics: 47,811 (rank: 132 out of 42,205)
    • microbiology: 1,146 (rank: 7,630 (tie) out of 45,683)

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Preprints

Highly-accurate long-read sequencing improves variant detection and assembly of a human genome

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Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing

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Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation

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Mash: fast genome and metagenome distance estimation using MinHash

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Integrating Hi-C links with assembly graphs for chromosome-scale assembly

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Complete assembly of parental haplotypes with trio binning

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Telomere-to-telomere assembly of a complete human X chromosome

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A robust benchmark for germline structural variant detection

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A fast approximate algorithm for mapping long reads to large reference databases

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Extended haplotype phasing of de novo genome assemblies with FALCON-Phase

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Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control

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Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes

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Towards complete and error-free genome assemblies of all vertebrate species

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HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads

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A Fast Adaptive Algorithm for Computing Whole-Genome Homology Maps

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Automated ensemble assembly and validation of microbial genomes

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Long-read, whole genome shotgun sequence data for five model organisms

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De Novo assembly of the goldfish (Carassius auratus) genome and the evolution of genes after whole genome duplication

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Mash Screen: High-throughput sequence containment estimation for genome discovery

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MetaMaps - Strain-level metagenomic assignment and compositional estimation for long reads

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RefSeq database growth influences the accuracy of k-mer-based species identification

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An improved pig reference genome sequence to enable pig genetics and genomics research

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Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly

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The whale shark genome reveals patterns of vertebrate gene family evolution

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Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation

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Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

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Haplotype-Resolved Cattle Genomes Provide Insights Into Structural Variation and Adaptation

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Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

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Analysis of the Aedes albopictus C6/36 genome provides insight into cell line adaptations to in vitro viral propagation

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Effect of Sequence Depth and Length in Long-read Assembly of the Maize Inbred NC358

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HLA*PRG:LA - HLA typing from linearly projected graph alignments

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Chromosome-length haplotigs for yak and cattle from trio binning assembly of an F1 hybrid

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The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation

genetics more details view paper
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Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

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Complete vertebrate mitogenomes reveal widespread gene duplications and repeats

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