Alice Carolyn McHardy

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Isidore RigoutsosRichard W. Hevner Professor of Computational Medicine, Director Computational Medicine CenterVerified email at jefferson.edu
Philip HugenholtzAustralian Centre for Ecogenomics, SCMB, The University of QueenslandVerified email at uq.edu.au
Phil B. PopeAssociate Professor, Norwegian University of Life SciencesVerified email at nmbu.no
Johannes DrögeVerified email at uni-duesseldorf.de
Folker MeyerUniversity of Duisburg-Essen; University Hospital EssenVerified email at uni-due.de
Aristotelis TsirigosProfessor, NYU School of Medicine, NYVerified email at nyulangone.org
Nikos C KyrpidesJoint Genome Institute, Lawrence Berkeley National LaboratoryVerified email at lbl.gov
Hector Garcia MartinLawrence Berkeley National LaboratoryVerified email at lbl.gov
Lutz KrauseUniversity of Queensland Diamantina InstituteVerified email at uq.edu.au
Susannah TringeEnvironmental Genomics and Systems Biology, Lawrence Berkeley National LaboratoryVerified email at lbl.gov
Prof. Dr. Jörn KalinowskiHead of Technology Platform Genomics, Center for Biotechnology, Bielefeld UniversityVerified email at cebitec.uni-bielefeld.de
Kaustubh Raosaheb PatilForschungszentrum Jülich, Heinrich Heine Universität DüsseldorfVerified email at mit.edu
Tien HuynhIBM Thomas J. Watson Research CenterVerified email at us.ibm.com
Peter TurnbaughUniversity of California, San FranciscoVerified email at ucsf.edu
Christopher QuinceUniversity of WarwickVerified email at warwick.ac.uk
Christian RückertSenior Research Scientist, CeBiTec, Bielefeld UniversityVerified email at cebitec.uni-bielefeld.de
Alex CopelandJoint Genome InstituteVerified email at lbl.gov
Andreas WilkeArgonne National LaboratoryVerified email at anl.gov
Tim W. NattkemperProfessor of Computer Science, Bielefeld UniversityVerified email at uni-bielefeld.de
Jens StoyeBielefeld University, Faculty of Technology and Center for Biotechnology (CeBiTec)Verified email at uni-bielefeld.de

Alice Carolyn McHardy

Helmholtz Centre for Infection Research

Verified email at helmholtz-hzi.de - Homepage

Computational Biology Metagenomics Viral Evolution Next Generation Sequencing


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The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes R Overbeek, T Begley, RM Butler, JV Choudhuri, HY Chuang, M Cohoon, ... Nucleic acids research 33 (17), 5691-5702, 2005	1941	2005
Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite F Warnecke, P Luginbühl, N Ivanova, M Ghassemian, TH Richardson, ... Nature 450 (7169), 560-565, 2007	1341	2007
The complete Corynebacterium glutamicum ATCC 13032 genome sequence and its impact on the production of L-aspartate-derived amino acids and vitamins J Kalinowski, B Bathe, D Bartels, N Bischoff, M Bott, A Burkovski, N Dusch, ... Journal of biotechnology 104 (1-3), 5-25, 2003	1009	2003
Defining seasonal marine microbial community dynamics JA Gilbert, JA Steele, JG Caporaso, L Steinbrück, J Reeder, B Temperton, ... The ISME journal 6 (2), 298-308, 2012	804	2012
GenDB—an open source genome annotation system for prokaryote genomes F Meyer, A Goesmann, AC McHardy, D Bartels, T Bekel, JÈ Clausen, ... Nucleic acids research 31 (8), 2187-2195, 2003	771	2003
Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities HG Martín, N Ivanova, V Kunin, F Warnecke, KW Barry, AC McHardy, ... Nature biotechnology 24 (10), 1263-1269, 2006	708	2006
Functional overlap of the Arabidopsis leaf and root microbiota Y Bai, DB Müller, G Srinivas, R Garrido-Oter, E Potthoff, M Rott, ... Nature 528 (7582), 364-369, 2015	649	2015
Structure and function of the bacterial root microbiota in wild and domesticated barley D Bulgarelli, R Garrido-Oter, PC Münch, A Weiman, J Dröge, Y Pan, ... Cell host & microbe 17 (3), 392-403, 2015	649	2015
Accurate phylogenetic classification of variable-length DNA fragments AC McHardy, HG Martín, A Tsirigos, P Hugenholtz, I Rigoutsos Nature methods 4 (1), 63-72, 2007	557	2007
Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins PJ Turnbaugh, C Quince, JJ Faith, AC McHardy, T Yatsunenko, F Niazi, ... Proceedings of the National Academy of Sciences 107 (16), 7503-7508, 2010	516	2010
The amphioxus genome illuminates vertebrate origins and cephalochordate biology LZ Holland, R Albalat, K Azumi, È Benito-Gutiérrez, MJ Blow, ... Genome research 18 (7), 1100-1111, 2008	511	2008
Complete genome sequence of the myxobacterium Sorangium cellulosum S Schneiker, O Perlova, O Kaiser, K Gerth, A Alici, MO Altmeyer, D Bartels, ... Nature biotechnology 25 (11), 1281-1289, 2007	411	2007
Critical assessment of metagenome interpretation—a benchmark of metagenomics software A Sczyrba, P Hofmann, P Belmann, D Koslicki, S Janssen, J Dröge, ... Nature methods 14 (11), 1063-1071, 2017	402	2017
Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis S Schneiker, VAPM Dos Santos, D Bartels, T Bekel, M Brecht, ... Nature biotechnology 24 (8), 997-1004, 2006	399	2006
Microbiota and host nutrition across plant and animal kingdoms S Hacquard, R Garrido-Oter, A González, S Spaepen, G Ackermann, ... Cell host & microbe 17 (5), 603-616, 2015	391	2015
Use of simulated data sets to evaluate the fidelity of metagenomic processing methods K Mavromatis, N Ivanova, K Barry, H Shapiro, E Goltsman, AC McHardy, ... Nature methods 4 (6), 495-500, 2007	382	2007
Insights into Genome Plasticity and Pathogenicity of the Plant Pathogenic Bacterium Xanthomonas campestris pv. vesicatoria Revealed by the Complete Genome … F Thieme, R Koebnik, T Bekel, C Berger, J Boch, D Büttner, C Caldana, ... Journal of bacteriology 187 (21), 7254-7266, 2005	380	2005
High-resolution metagenomics targets specific functional types in complex microbial communities MG Kalyuzhnaya, A Lapidus, N Ivanova, AC Copeland, AC McHardy, ... Nature biotechnology 26 (9), 1029-1034, 2008	276	2008
Severe COVID-19 is marked by a dysregulated myeloid cell compartment J Schulte-Schrepping, N Reusch, D Paclik, K Baßler, S Schlickeiser, ... Cell 182 (6), 1419-1440. e23, 2020	274	2020
Complete genome of the mutualistic, N 2-fixing grass endophyte Azoarcus sp. strain BH72 A Krause, A Ramakumar, D Bartels, F Battistoni, T Bekel, J Boch, M Böhm, ... Nature biotechnology 24 (11), 1384-1390, 2006	274	2006

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