Simon A Berger
Simon A Berger
Verified email at h-its.org - Homepage
TitleCited byYear
Phylogenomics resolves the timing and pattern of insect evolution
B Misof, S Liu, K Meusemann, RS Peters, A Donath, C Mayer, ...
Science 346 (6210), 763-767, 2014
12112014
Performance, accuracy, and web server for evolutionary placement of short sequence reads under maximum likelihood
SA Berger, D Krompass, A Stamatakis
Systematic biology 60 (3), 291, 2011
3152011
Metagenomic species profiling using universal phylogenetic marker genes
S Sunagawa, DR Mende, G Zeller, F Izquierdo-Carrasco, SA Berger, ...
Nature methods 10 (12), 1196, 2013
2682013
Aligning short reads to reference alignments and trees
SA Berger, A Stamatakis
Bioinformatics 27 (15), 2068-2075, 2011
1292011
MLTreeMap-accurate Maximum Likelihood placement of environmental DNA sequences into taxonomic and functional reference phylogenies
M Stark, SA Berger, A Stamatakis, C von Mering
BMC genomics 11 (1), 461, 2010
1162010
RAxML-Light: a tool for computing terabyte phylogenies
A Stamatakis, AJ Aberer, C Goll, SA Smith, SA Berger, ...
Bioinformatics 28 (15), 2064-2066, 2012
1122012
Efficient pc-fpga communication over gigabit ethernet
N Alachiotis, SA Berger, A Stamatakis
2010 10th IEEE International Conference on Computer and Information …, 2010
852010
Placing environmental next-generation sequencing amplicons from microbial eukaryotes into a phylogenetic context
M Dunthorn, J Otto, SA Berger, A Stamatakis, F Mahé, S Romac, ...
Molecular biology and evolution 31 (4), 993-1009, 2014
592014
Multiple ITS Haplotypes in the Genome of the Lichenized Basidiomycete Cora inversa (Hygrophoraceae): Fact or Artifact?
R Lücking, JD Lawrey, PM Gillevet, M Sikaroodi, M Dal-Forno, SA Berger
Journal of Molecular Evolution 78 (2), 148-162, 2014
262014
Accuracy of morphology-based phylogenetic fossil placement under maximum likelihood
SA Berger, A Stamatakis
ACS/IEEE International Conference on Computer Systems and Applications …, 2010
232010
A versatile UDP/IP based PC↔ FPGA communication platform
N Alachiotis, SA Berger, A Stamatakis
2012 International Conference on Reconfigurable Computing and FPGAs, 1-6, 2012
222012
Coupling SIMD and SIMT architectures to boost performance of a phylogeny-aware alignment kernel
N Alachiotis, SA Berger, A Stamatakis
BMC bioinformatics 13 (1), 196, 2012
172012
Morphology-based phylogenetic binning of the lichen genera Graphis and Allographa (Ascomycota: Graphidaceae) using molecular site weight calibration
SA Berger, A Stamatakis, R Lücking
Taxon 60 (5), 1450-1457, 2011
172011
Accuracy and performance of single versus double precision arithmetics for maximum likelihood phylogeny reconstruction
SA Berger, A Stamatakis
International Conference on Parallel Processing and Applied Mathematics, 270-279, 2009
172009
Parallel structural graph clustering
M Seeland, SA Berger, A Stamatakis, S Kramer
Joint European Conference on Machine Learning and Knowledge Discovery in …, 2011
132011
Accelerating phylogeny-aware short DNA read alignment with FPGAs
N Alachiotis, SA Berger, A Stamatakis
2011 IEEE 19th Annual International Symposium on Field-Programmable Custom …, 2011
132011
A generic vectorization scheme and a gpu kernel for the phylogenetic likelihood library
F Izquierdo-Carrasco, N Alachiotis, S Berger, T Flouri, SP Pissis, ...
2013 IEEE International Symposium on Parallel & Distributed Processing …, 2013
122013
Hyperfine clock transitions of bismuth donors in silicon detected by spin-dependent recombination
PA Mortemousque, S Berger, T Sekiguchi, C Culan, RG Elliman, KM Itoh
Physical Review B 89 (15), 155202, 2014
112014
Evolutionary placement of short sequence reads on multi-core architectures
A Stamatakis, Z Komornik, SA Berger
ACS/IEEE International Conference on Computer Systems and Applications …, 2010
92010
PaPaRa 2.0: a vectorized algorithm for probabilistic phylogeny-aware alignment extension
SA Berger, A Stamatakis
Heidelberg Institute for Theoretical Studies, 2012
82012
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Articles 1–20