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103 results for Marschall,+Tobias

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ArticlesPeer ReviewedFull Text
GraphAligner: rapid and versatile sequence-to-graph alignment
Author / Creator:Rautiainen, Mikko ; Marschall, Tobias
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2020-09, Vol.21 (1), p.253-253, Article 253
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ArticlesPeer ReviewedFull Text
Haplotype-aware diplotyping from noisy long reads
Author / Creator:Ebler, Jana ; Haukness, Marina ; Pesout, Trevor ; Marschall, Tobias ; Paten, Benedict
Publisher:England: BioMed Central
Journal title:Genome Biology, 2019-06, Vol.20 (1), p.116-116, Article 116
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ArticlesPeer ReviewedFull Text
SNP and indel frequencies at transcription start sites and at canonical and alternative translation initiation sites in the human genome
Author / Creator:Neininger, Kerstin ; Marschall, Tobias ; Helms, Volkhard
Publisher:United States: Public Library of Science
Journal title:PloS one, 2019-04, Vol.14 (4), p.e0214816-e0214816
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ArticlesPeer ReviewedFull Text
Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes
Author / Creator:Shafin, Kishwar ; Pesout, Trevor ; Lorig-Roach, Ryan ; Haukness, Marina ; Olsen, Hugh E. ; Bosworth, Colleen ; Armstrong, Joel ; Tigyi, Kristof ; Maurer, Nicholas ; Koren, Sergey ; Sedlazeck, Fritz J. ; Marschall, Tobias ; Mayes, Simon ; Costa, Vania ; Zook, Justin M. ; Liu, Kelvin J. ; Kilburn, Duncan ; Sorensen, Melanie ; Munson, Katy M. ; Vollger, Mitchell R. ; Monlong, Jean ; Garrison, Erik ; Eichler, Evan E. ; Salama, Sofie ; Haussler, David ; Green, Richard E. ; Akeson, Mark ; Phillippy, Adam ; Miga, Karen H. ; Carnevali, Paolo ; Jain, Miten ; Paten, Benedict
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2020-09, Vol.38 (9), p.1044-1053
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Mapping and phasing of structural variation in patient genomes using nanopore sequencing
Author / Creator:Cretu Stancu, Mircea ; van Roosmalen, Markus J. ; Renkens, Ivo ; Nieboer, Marleen M. ; Middelkamp, Sjors ; de Ligt, Joep ; Pregno, Giulia ; Giachino, Daniela ; Mandrile, Giorgia ; Espejo Valle-Inclan, Jose ; Korzelius, Jerome ; de Bruijn, Ewart ; Cuppen, Edwin ; Talkowski, Michael E. ; Marschall, Tobias ; de Ridder, Jeroen ; Kloosterman, Wigard P.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2017-11, Vol.8 (1), p.1326-13, Article 1326
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Chromosome-scale, haplotype-resolved assembly of human genomes
Author / Creator:Garg, Shilpa ; Fungtammasan, Arkarachai ; Carroll, Andrew ; Chou, Mike ; Schmitt, Anthony ; Zhou, Xiang ; Mac, Stephen ; Peluso, Paul ; Hatas, Emily ; Ghurye, Jay ; Maguire, Jared ; Mahmoud, Medhat ; Cheng, Haoyu ; Heller, David ; Zook, Justin M. ; Moemke, Tobias ; Marschall, Tobias ; Sedlazeck, Fritz J. ; Aach, John ; Chin, Chen-Shan ; Church, George M. ; Li, Heng
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2021-03, Vol.39 (3), p.309-312
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Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads
Author / Creator:Porubsky, David ; Ebert, Peter ; Audano, Peter A. ; Vollger, Mitchell R. ; Harvey, William T. ; Marijon, Pierre ; Ebler, Jana ; Munson, Katherine M. ; Sorensen, Melanie ; Sulovari, Arvis ; Haukness, Marina ; Ghareghani, Maryam ; Lansdorp, Peter M. ; Paten, Benedict ; Devine, Scott E. ; Sanders, Ashley D. ; Lee, Charles ; Chaisson, Mark J. P. ; Korbel, Jan O. ; Eichler, Evan E. ; Marschall, Tobias
Publisher:New York: Nature Publishing Group US
Journal title:Nature biotechnology, 2021-03, Vol.39 (3), p.302-308
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Haplotype threading: accurate polyploid phasing from long reads
Author / Creator:Schrinner, Sven D. ; Mari, Rebecca Serra ; Ebler, Jana ; Rautiainen, Mikko ; Seillier, Lancelot ; Reimer, Julia J. ; Usadel, Björn ; Marschall, Tobias ; Klau, Gunnar W.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2020-09, Vol.21 (1), p.252-252, Article 252
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ArticlesPeer ReviewedFull Text
Varlociraptor: enhancing sensitivity and controlling false discovery rate in somatic indel discovery
Author / Creator:Köster, Johannes ; Dijkstra, Louis J. ; Marschall, Tobias ; Schönhuth, Alexander
Publisher:England: BioMed Central
Journal title:Genome Biology, 2020-04, Vol.21 (1), p.98-98, Article 98
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ArticlesPeer ReviewedFull Text
Dense and accurate whole-chromosome haplotyping of individual genomes
Author / Creator:Porubsky, David ; Garg, Shilpa ; Sanders, Ashley D. ; Korbel, Jan O. ; Guryev, Victor ; Lansdorp, Peter M. ; Marschall, Tobias
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2017-11, Vol.8 (1), p.1293-10, Article 1293
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ArticlesPeer ReviewedFull Text
Constructing founder sets under allelic and non-allelic homologous recombination
Author / Creator:Bonnet, Konstantinn ; Marschall, Tobias ; Doerr, Daniel
Publisher:England: BioMed Central
Journal title:Algorithms for molecular biology, 2023-09, Vol.18 (1), p.15-15, Article 15
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ArticlesPeer ReviewedFull Text
Correction: Constructing founder sets under allelic and non-allelic homologous recombination
Author / Creator:Bonnet, Konstantinn ; Marschall, Tobias ; Doerr, Daniel
Publisher:England: BioMed Central Ltd
Journal title:Algorithms for molecular biology, 2023-12, Vol.18 (1), p.20-20, Article 20
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ArticlesPeer ReviewedFull Text
Graphasing: phasing diploid genome assembly graphs with single-cell strand sequencing
Author / Creator:Henglin, Mir ; Ghareghani, Maryam ; Harvey, William T. ; Porubsky, David ; Koren, Sergey ; Eichler, Evan E. ; Ebert, Peter ; Marschall, Tobias
Publisher:England: BioMed Central
Journal title:Genome Biology, 2024-10, Vol.25 (1), p.265-265, Article 265
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A diploid assembly-based benchmark for variants in the major histocompatibility complex
Author / Creator:Chin, Chen-Shan ; Wagner, Justin ; Zeng, Qiandong ; Garrison, Erik ; Garg, Shilpa ; Fungtammasan, Arkarachai ; Rautiainen, Mikko ; Aganezov, Sergey ; Kirsche, Melanie ; Zarate, Samantha ; Schatz, Michael C. ; Xiao, Chunlin ; Rowell, William J. ; Markello, Charles ; Farek, Jesse ; Sedlazeck, Fritz J. ; Bansal, Vikas ; Yoo, Byunggil ; Miller, Neil ; Zhou, Xin ; Carroll, Andrew ; Barrio, Alvaro Martinez ; Salit, Marc ; Marschall, Tobias ; Dilthey, Alexander T. ; Zook, Justin M.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2020-09, Vol.11 (1), p.4794-4794, Article 4794
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ArticlesPeer ReviewedFull Text
Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspring data
Author / Creator:Serra Mari, Rebecca ; Schrinner, Sven ; Finkers, Richard ; Ziegler, Freya Maria Rosemarie ; Arens, Paul ; Schmidt, Maximilian H.-W. ; Usadel, Björn ; Klau, Gunnar W. ; Marschall, Tobias
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2024-01, Vol.25 (1), p.26-26, Article 26
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Inversion polymorphism in a complete human genome assembly
Author / Creator:Porubsky, David ; Harvey, William T. ; Rozanski, Allison N. ; Ebler, Jana ; Höps, Wolfram ; Ashraf, Hufsah ; Hasenfeld, Patrick ; Paten, Benedict ; Sanders, Ashley D. ; Marschall, Tobias ; Korbel, Jan O. ; Eichler, Evan E.
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2023-04, Vol.24 (1), p.100-100, Article 100
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ArticlesPeer ReviewedFull Text
Viral Quasispecies Assembly via Maximal Clique Enumeration
Author / Creator:Töpfer, Armin ; Marschall, Tobias ; Bull, Rowena A. ; Luciani, Fabio ; Schönhuth, Alexander ; Beerenwinkel, Niko
Publisher:United States: Public Library of Science
Journal title:PLoS computational biology, 2014-03, Vol.10 (3), p.e1003515
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Temporal phosphoproteomics reveals circuitry of phased propagation in insulin signaling
Author / Creator:Turewicz, Michael ; Skagen, Christine ; Hartwig, Sonja ; Majda, Stephan ; Thedinga, Kristina ; Herwig, Ralf ; Binsch, Christian ; Altenhofen, Delsi ; Ouwens, D. Margriet ; Förster, Pia Marlene ; Wachtmeister, Thorsten ; Köhrer, Karl ; Stermann, Torben ; Chadt, Alexandra ; Lehr, Stefan ; Marschall, Tobias ; Thoresen, G. Hege ; Al-Hasani, Hadi
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2025-02, Vol.16 (1), p.1570-19
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ArticlesPeer ReviewedFull Text
An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms
Author / Creator:Marschall, Tobias ; Rahmann, Sven
Publisher:Basel: MDPI AG
Journal title:Algorithms, 2011-12, Vol.4 (4), p.285-306
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Pangenome-based genome inference allows efficient and accurate genotyping across a wide spectrum of variant classes
Author / Creator:Ebler, Jana ; Ebert, Peter ; Clarke, Wayne E. ; Rausch, Tobias ; Audano, Peter A. ; Houwaart, Torsten ; Mao, Yafei ; Korbel, Jan O. ; Eichler, Evan E. ; Zody, Michael C. ; Dilthey, Alexander T. ; Marschall, Tobias
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2022-04, Vol.54 (4), p.518-525
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Showing 1 to 20 of 103 results

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GraphAligner: rapid and versatile sequence-to-graph alignment

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Haplotype-aware diplotyping from noisy long reads

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SNP and indel frequencies at transcription start sites and at canonical and alternative translation initiation sites in the human genome

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Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes

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Mapping and phasing of structural variation in patient genomes using nanopore sequencing

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Chromosome-scale, haplotype-resolved assembly of human genomes

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Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads

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Haplotype threading: accurate polyploid phasing from long reads

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Varlociraptor: enhancing sensitivity and controlling false discovery rate in somatic indel discovery

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Dense and accurate whole-chromosome haplotyping of individual genomes

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Constructing founder sets under allelic and non-allelic homologous recombination

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Correction: Constructing founder sets under allelic and non-allelic homologous recombination

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Graphasing: phasing diploid genome assembly graphs with single-cell strand sequencing

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A diploid assembly-based benchmark for variants in the major histocompatibility complex

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Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspring data

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Inversion polymorphism in a complete human genome assembly

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Viral Quasispecies Assembly via Maximal Clique Enumeration

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Temporal phosphoproteomics reveals circuitry of phased propagation in insulin signaling

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An Algorithm to Compute the Character Access Count Distribution for Pattern Matching Algorithms

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Pangenome-based genome inference allows efficient and accurate genotyping across a wide spectrum of variant classes

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