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Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

Genome research, 2012-02, Vol.22 (2), p.299-306

2012

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ARCS: scaffolding genome drafts with linked reads

Bioinformatics, 2018-03, Vol.34 (5), p.725-731

2018

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ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter

Genome research, 2017-05, Vol.27 (5), p.768-777

2017

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HLA predictions from the bronchoalveolar lavage fluid and blood samples of eight COVID-19 patients at the pandemic onset

Bioinformatics, 2021-01, Vol.36 (21), p.5271-5273

2021

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Brain microbial populations in HIV/AIDS: α-proteobacteria predominate independent of host immune status

PloS one, 2013-01, Vol.8 (1), p.e54673-e54673

2013

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Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes

Genome research, 2011-05, Vol.21 (5), p.790-797

2011

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Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution

Nature (London), 2009-10, Vol.461 (7265), p.809-813

2009

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LongStitch: high-quality genome assembly correction and scaffolding using long reads

BMC bioinformatics, 2021-10, Vol.22 (1), p.1-534, Article 534

2021

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AMPlify: attentive deep learning model for discovery of novel antimicrobial peptides effective against WHO priority pathogens

BMC genomics, 2022-01, Vol.23 (1), p.77-15, Article 77

2022

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Assembling millions of short DNA sequences using SSAKE

Bioinformatics, 2007-02, Vol.23 (4), p.500-501

2007

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Complete Haplotype Sequence of the Human Immunoglobulin Heavy-Chain Variable, Diversity, and Joining Genes and Characterization of Allelic and Copy-Number Variation

American journal of human genetics, 2013-04, Vol.92 (4), p.530-546

2013

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ntEdit: scalable genome sequence polishing

Bioinformatics, 2019-11, Vol.35 (21), p.4430-4432

2019

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Co-occurrence of anaerobic bacteria in colorectal carcinomas

Microbiome, 2013-05, Vol.1 (1), p.16-16, Article 16

2013

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ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers

BMC bioinformatics, 2018-06, Vol.19 (1), p.234-234, Article 234

2018

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Models and data of AMPlify: a deep learning tool for antimicrobial peptide prediction

BMC research notes, 2023-02, Vol.16 (1), p.11-11, Article 11

2023

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HLA alleles measured from COVID-19 patient transcriptomes reveal associations with disease prognosis in a New York cohort

PeerJ (San Francisco, CA), 2021-10, Vol.9, p.e12368-e12368, Article e12368

2021

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RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes

Genome research, 2020-08, Vol.30 (8), p.1191-1200

2020

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Sealer: a scalable gap-closing application for finishing draft genomes

BMC bioinformatics, 2015-07, Vol.16 (1), p.230-230, Article 230

2015

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Tigmint: correcting assembly errors using linked reads from large molecules

BMC bioinformatics, 2018-10, Vol.19 (1), p.393-393, Article 393

2018

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Assembly of the Complete Sitka Spruce Chloroplast Genome Using 10X Genomics' GemCode Sequencing Data

PloS one, 2016-09, Vol.11 (9), p.e0163059-e0163059

2016

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Neo-antigens predicted by tumor genome meta-analysis correlate with increased patient survival

Genome research, 2014-05, Vol.24 (5), p.743-750

2014

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LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads

Gigascience, 2015-08, Vol.4 (1), p.35-35, Article 35

2015

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Reference-free assembly of long-read transcriptome sequencing data with RNA-Bloom2

Nature communications, 2023-05, Vol.14 (1), p.2940-14, Article 2940

2023

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Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art

Bioinformatics (Oxford, England), 2017-04, Vol.33 (8), p.1261-1270

2017

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Linear time complexity de novo long read genome assembly with GoldRush

Nature communications, 2023-05, Vol.14 (1), p.2906-9, Article 2906

2023

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Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

ARCS: scaffolding genome drafts with linked reads

ABySS 2.0: resource-efficient assembly of large genomes using a Bloom filter

HLA predictions from the bronchoalveolar lavage fluid and blood samples of eight COVID-19 patients at the pandemic onset

Brain microbial populations in HIV/AIDS: α-proteobacteria predominate independent of host immune status

Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes

Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution

LongStitch: high-quality genome assembly correction and scaffolding using long reads

AMPlify: attentive deep learning model for discovery of novel antimicrobial peptides effective against WHO priority pathogens

Assembling millions of short DNA sequences using SSAKE

Complete Haplotype Sequence of the Human Immunoglobulin Heavy-Chain Variable, Diversity, and Joining Genes and Characterization of Allelic and Copy-Number Variation

ntEdit: scalable genome sequence polishing

Co-occurrence of anaerobic bacteria in colorectal carcinomas

ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers

Models and data of AMPlify: a deep learning tool for antimicrobial peptide prediction

HLA alleles measured from COVID-19 patient transcriptomes reveal associations with disease prognosis in a New York cohort

RNA-Bloom enables reference-free and reference-guided sequence assembly for single-cell transcriptomes

Sealer: a scalable gap-closing application for finishing draft genomes

Tigmint: correcting assembly errors using linked reads from large molecules

Assembly of the Complete Sitka Spruce Chloroplast Genome Using 10X Genomics' GemCode Sequencing Data

Neo-antigens predicted by tumor genome meta-analysis correlate with increased patient survival

LINKS: Scalable, alignment-free scaffolding of draft genomes with long reads

Reference-free assembly of long-read transcriptome sequencing data with RNA-Bloom2

Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art

Linear time complexity de novo long read genome assembly with GoldRush

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