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Derivation of HLA types from shotgun sequence datasets

Genome medicine, 2012-12, Vol.4 (12), p.95-95

2012

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Complete Mitochondrial Genome of a Gymnosperm, Sitka Spruce (Picea sitchensis), Indicates a Complex Physical Structure

Genome biology and evolution, 2020-07, Vol.12 (7), p.1174-1179

2020

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NanoSim: nanopore sequence read simulator based on statistical characterization

Gigascience, 2017-04, Vol.6 (4)

2017

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Targeted assembly of short sequence reads

PloS one, 2011-05, Vol.6 (5), p.e19816-e19816

2011

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RResolver: efficient short-read repeat resolution within ABySS

BMC bioinformatics, 2022-06, Vol.23 (1), p.246-246, Article 246

2022

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Trans-NanoSim characterizes and simulates nanopore RNA-sequencing data

Gigascience, 2020-06, Vol.9 (6)

2020

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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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Interactive SARS-CoV-2 mutation timemaps [version 2; peer review: 3 approved with reservations]

F1000 research, 2021, Vol.10, p.68-68

2021

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Interactive SARS-CoV-2 mutation timemaps [version 1; peer review: 3 approved with reservations]

F1000 research, 2021, Vol.10, p.68

2021

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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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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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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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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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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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ntEdit+Sealer: Efficient Targeted Error Resolution and Automated Finishing of Long‐Read Genome Assemblies

Current protocols, 2022-05, Vol.2 (5), p.e442-n/a

2022

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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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ntEdit: scalable genome sequence polishing

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

2019

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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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The cumate gene-switch: a system for regulated expression in mammalian cells

BMC biotechnology, 2006-11, Vol.6 (1), p.43-43

2006

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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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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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Assembling millions of short DNA sequences using SSAKE

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

2007

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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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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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Derivation of HLA types from shotgun sequence datasets

Complete Mitochondrial Genome of a Gymnosperm, Sitka Spruce (Picea sitchensis), Indicates a Complex Physical Structure

NanoSim: nanopore sequence read simulator based on statistical characterization

Targeted assembly of short sequence reads

RResolver: efficient short-read repeat resolution within ABySS

Trans-NanoSim characterizes and simulates nanopore RNA-sequencing data

Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma

Interactive SARS-CoV-2 mutation timemaps [version 2; peer review: 3 approved with reservations]

Interactive SARS-CoV-2 mutation timemaps [version 1; peer review: 3 approved with reservations]

ARCS: scaffolding genome drafts with linked reads

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

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

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

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

ntEdit+Sealer: Efficient Targeted Error Resolution and Automated Finishing of Long‐Read Genome Assemblies

Co-occurrence of anaerobic bacteria in colorectal carcinomas

ntEdit: scalable genome sequence polishing

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

The cumate gene-switch: a system for regulated expression in mammalian cells

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

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

Assembling millions of short DNA sequences using SSAKE

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

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

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