Author details

Full Name

James K Bonfield

Affiliation

Wellcome Sanger Institute

ORCID

Career Start Year

1994

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
34999766	CRAM 3.1: advances in the CRAM file format.	Bioinformatics	2022
35072136	GA4GH: International policies and standards for data sharing across genomic research and healthcare.	Cell Genom	2021
33594436	HTSlib: C library for reading/writing high-throughput sequencing data.	Gigascience	2021
33590861	Twelve years of SAMtools and BCFtools.	Gigascience	2021
29992288	Crumble: reference free lossy compression of sequence quality values.	Bioinformatics	2019
28638050	De novo yeast genome assemblies from MinION, PacBio and MiSeq platforms.	Sci Rep	2017
27776113	Comparison of high-throughput sequencing data compression tools.	Nat Methods	2016
24930138	The Scramble conversion tool.	Bioinformatics	2014
23533605	Compression of FASTQ and SAM format sequencing data.	PLoS One	2013
19906712	Improvements to services at the European Nucleotide Archive.	Nucleic Acids Res	2010
20513662	Gap5--editing the billion fragment sequence assembly.	Bioinformatics	2010
19909804	Genome-wide end-sequenced BAC resources for the NOD/MrkTac() and NOD/ShiLtJ() mouse genomes.	Genomics	2010
18978013	Petabyte-scale innovations at the European Nucleotide Archive.	Nucleic Acids Res	2009
18039715	Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL Nucleotide Sequence Database.	Nucleic Acids Res	2008
15590942	Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags.	Genome Res	2005
16221968	Shotgun haplotyping: a novel method for surveying allelic sequence variation.	Nucleic Acids Res	2005
16257172	A genome-wide, end-sequenced 129Sv BAC library resource for targeting vector construction.	Genomics	2005
15852006	Complex haplotypes, copy number polymorphisms and coding variation in two recently divergent mouse strains.	Nat Genet	2005
11836205	ZTR: a new format for DNA sequence trace data.	Bioinformatics	2002
11836229	Trev: a DNA trace editor and viewer.	Bioinformatics	2002
11449730	Sequence assembly and finishing methods.	Methods Biochem Anal	2001
10547834	The Staden package, 1998.	Methods Mol Biol	2000
9649626	Automated detection of point mutations using fluorescent sequence trace subtraction.	Nucleic Acids Res	1998
8907307	Experiment files and their application during large-scale sequencing projects.	DNA Seq	1996
7753633	The application of numerical estimates of base calling accuracy to DNA sequencing projects.	Nucleic Acids Res	1995
8559656	A new DNA sequence assembly program.	Nucleic Acids Res	1995
7906398	2.2 Mb of contiguous nucleotide sequence from chromosome III of C. elegans.	Nature	1994

1 - 27 of 27

Fritz J Sedlazeck

Baylor College of Medicine

Career Start Year 2012

Number of shared co-authors 5

Sascha Steinbiss

Wellcome Sanger Institute

Career Start Year 2009

Number of shared co-authors 1

Shaun D Jackman

University of British Columbia

Career Start Year 2009

Number of shared co-authors 7

Jared T Simpson

Ontario Institute for Cancer Research

Career Start Year 2009

Number of shared co-authors 19

Jeroen F J Laros

National Institute for Public Health and the Environment

Career Start Year 2009

Number of shared co-authors 5

Tobias Marschall

Center for Digital Medicine, Heinrich Heine University Dusseldorf

Career Start Year 2009

Number of shared co-authors 6

Sergey Koren

National Human Genome Research Institute, National Institutes of Health

Career Start Year 2008

Number of shared co-authors 6

Robert P Davey

Earlham Institute

Career Start Year 2007

Number of shared co-authors 4

Paolo Ribeca

The James Hutton Institute

Career Start Year 2006

Number of shared co-authors 11

Anne-Katrin Emde

Variant Bio Inc.

Career Start Year 2006

Number of shared co-authors 1

Bertil Schmidt

Institute for Computer Science, Johannes Gutenberg University

Career Start Year 2005

Number of shared co-authors 0

Benedict Paten

UC Santa Cruz Genomics Institute, University of California

Career Start Year 2005

Number of shared co-authors 47

Jue Ruan

Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences

Career Start Year 2004

Number of shared co-authors 1

Mark J P Chaisson

University of Southern California

Career Start Year 2004

Number of shared co-authors 8

Michael C Schatz

Johns Hopkins University

Career Start Year 2004

Number of shared co-authors 10

Lachlan J M Coin

The Peter Doherty Institute for Infection and Immunity, The University of Melbourne

Career Start Year 2003

Number of shared co-authors 8

Aleksey V Zimin

Center for Computational Biology, Johns Hopkins University

Career Start Year 2003

Number of shared co-authors 4

Ali Bashir

Google Accelerated Science Team, Google Inc

Career Start Year 2003

Number of shared co-authors 3

Alexandre Souvorov

Career Start Year 2002

Number of shared co-authors 4

Adam M Phillippy

National Human Genome Research Institute, National Institutes of Health

Career Start Year 2002

Number of shared co-authors 11

Martin C Frith

Artificial Intelligence Research Center, University of Tokyo

Career Start Year 2001

Number of shared co-authors 5

Samuel V Angiuoli

Personal Genome Diagnostics Inc.

Career Start Year 2001

Number of shared co-authors 5

Can Alkan

Bilkent University

Career Start Year 2001

Number of shared co-authors 14

Knut Reinert

Institut fur Informatik, Freie Universitat Berlin

Career Start Year 1998

Number of shared co-authors 5

Ian Holmes

University of California berkeley

Career Start Year 1998

Number of shared co-authors 15

Anton Nekrutenko

The Pennsylvania State University, University Park

Career Start Year 1998

Number of shared co-authors 10

Stefano Lonardi

University of California Riverside

Career Start Year 1996

Number of shared co-authors 0

Granger Sutton

J. Craig Venter Institute

Career Start Year 1993

Number of shared co-authors 3

Steven L Salzberg

Center for Computational Biology, Johns Hopkins University

Career Start Year 1992

Number of shared co-authors 17

Pavel A Pevzner

University of California

Career Start Year 1987

Number of shared co-authors 16

row(s) 1 - 30 of 30

Thomas M Keane

European Bioinformatics Institute

Co-authored papers 5

Ewan Birney

European Bioinformatics Institute

Co-authored papers 5

Jane Rogers

The Wellcome Trust Sanger Institute

Co-authored papers 4

Rasko Leinonen

European Bioinformatics Institute

Co-authored papers 4

Lawrence Bower

Cancer Research UK Cambridge Institute, University of Cambridge

Co-authored papers 3

Tim Hubbard

Co-authored papers 3

Rodrigo Lopez

Co-authored papers 3

David J Adams

Wellcome Sanger Institute

Co-authored papers 3

Sean Humphray

Illumina Ltd.

Co-authored papers 3

Robert Vaughan

Co-authored papers 3

Guy Cochrane

European Bioinformatics Institute

Co-authored papers 3

Robert W Plumb

Co-authored papers 2

Christopher Hunter

BGI Hong Kong Tech Co Ltd.

Co-authored papers 2

Allan Bradley

The Wellcome Trust Sanger Institute

Co-authored papers 2

Shane McCarthy

Wellcome Sanger Institute

Co-authored papers 2

Richard Durbin

University of Cambridge

Co-authored papers 2

Ada Hamosh

Johns Hopkins University School of Medicine

Co-authored papers 1

Brian Walsh

Oregon Health & Science University

Co-authored papers 1

Rachele M Hendricks-Sturrup

Duke-Margolis Center for Health Policy

Co-authored papers 1

Monica C Munoz-Torres

University of Colorado Anschutz Medical Campus

Co-authored papers 1

Emmanouil T Dermitzakis

University of Geneva

Co-authored papers 1

Matthew E Hurles

Wellcome Sanger Institute

Co-authored papers 1

Megan Doerr

Cleveland Clinic

Co-authored papers 1

Neerjah Skantharajah

Ontario Institute for Cancer Research

Co-authored papers 1

Robert M Davies

Wellcome Sanger Institute

Co-authored papers 1

Danielle Denisko

University of Toronto

Co-authored papers 1

Melissa A Haendel

American Medical Informatics Association, Oregon Health and Science University, Oregon State University, University of Colorado Anschutz Medical Campus, University of North Carolina at Chapel Hill, University of Wisconsin-Madison

Co-authored papers 1

Reece K Hart

Broad Institute of MIT and Harvard

Co-authored papers 1

Tristan Nelson

Genomic Medicine Institute

Co-authored papers 1

Debyani Chakravarty

Memorial Sloan Kettering Cancer Center

Co-authored papers 1

1 - 30

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