54 Publikationen
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2963686Luo X, Kang X, Schönhuth A. Enhancing Long-Read-Based Strain-Aware Metagenome Assembly. Frontiers in Genetics. 2022;13: 868280.PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
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2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2967245Ray S, Lall S, Mukhopadhyay A, Bandyopadhyay S, Schönhuth A. Deep variational graph autoencoders for novel host-directed therapy options against COVID-19. Artificial Intelligence in Medicine. 2022;134: 102418.PUB | DOI | WoS | PubMed | Europe PMC
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2952469Metselaar PI, Mendoza-Maldonado L, Li Yim AYF, et al. Recursive ensemble feature selection provides a robust mRNA expression signature for myalgic encephalomyelitis/chronic fatigue syndrome. Scientific reports. 2021;11(1): 4541.PUB | DOI | WoS | PubMed | Europe PMC
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2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2959624Lahnemann D, Koster J, Fischer U, Borkhardt A, McHardy AC, Schönhuth A. Accurate and scalable variant calling from single cell DNA sequencing data with ProSolo. Nature Communications. 2021;12(1): 6744.PUB | PDF | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2945617Lopez-Rincon A, Mendoza-Maldonado L, Martinez-Archundia M, et al. Machine Learning-Based Ensemble Recursive Feature Selection of Circulating miRNAs for Cancer Tumor Classification. Cancers. 2020;12(7): 1785.PUB | DOI | WoS | PubMed | Europe PMC
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2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2943113Koster J, Dijkstra LJ, Marschall T, Schönhuth A. Varlociraptor: enhancing sensitivity and controlling false discovery rate in somatic indel discovery. Genome biology. 2020;21(1).PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941754Baaijens JA, Van der Roest B, Köster J, Stougie L, Schönhuth A. Full-length de novo viral quasispecies assembly through variation graph construction. Bioinformatics. 2019;35(24):5086-5094.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941756Yin B, Balvert M, van der Spek RAA, et al. Using the structure of genome data in the design of deep neural networks for predicting amyotrophic lateral sclerosis from genotype. Bioinformatics. 2019;35(14):i538-i547.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941760Lopez-Rincon A, Martinez-Archundia M, Martinez-Ruiz GU, Schönhuth A, Tonda A. Automatic discovery of 100-miRNA signature for cancer classification using ensemble feature selection. BMC Bioinformatics. 2019;20(1): 480.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941677Denti L, Previtali M, Bernardini G, Schönhuth A, Bonizzoni P. MALVA: Genotyping by Mapping-free ALlele Detection of Known VAriants. iScience. 2019;18:20-27.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941761Baaijens JA, Schönhuth A. Overlap graph-based generation of haplotigs for diploids and polyploids. Bioinformatics. 2019;35(21):4281-4289.PUB | DOI | WoS | PubMed | Europe PMC
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2019 | Preprint | Veröffentlicht | PUB-ID: 2941764Laehnemann D, Köster J, Szczurek E, et al. 12 Grand Challenges in Single-Cell Data Science. PeerJ. 2019.PUB
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2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941769Ibrahim B, Arkhipova K, Andeweg A, et al. Bioinformatics Meets Virology: The European Virus Bioinformatics Center’s Second Annual Meeting. Viruses. 2018;10(5): 256.PUB | DOI | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941784Baaijens JA, Aabidine AZE, Rivals E, Schönhuth A. De novo assembly of viral quasispecies using overlap graphs. Genome Research. 2017;27(5):835-848.PUB | DOI | WoS | PubMed | Europe PMC
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2017 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941786Ebler J, Schönhuth A, Marschall T. Genotyping inversions and tandem duplications. Bioinformatics. 2017;33(24):4015-4023.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941788Francioli LC, Cretu-Stancu M, Garimella KV, et al. A framework for the detection of de novo mutations in family-based sequencing data. European Journal of Human Genetics. 2016;25(2):227-233.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941793Gregor I, Schönhuth A, McHardy AC. Snowball: strain aware gene assembly of metagenomes. Bioinformatics. 2016;32(17):i649-i657.PUB | DOI | WoS | PubMed | Europe PMC
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2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941790Hehir-Kwa JY, Marschall T, Kloosterman WP, et al. A high-quality human reference panel reveals the complexity and distribution of genomic structural variants. Nature Communications. 2016;7(1): 12989.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941807Palamara PF, Francioli LC, Wilton PR, et al. Leveraging Distant Relatedness to Quantify Human Mutation and Gene-Conversion Rates. The American Journal of Human Genetics. 2015;97(6):775-789.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941797Kloosterman WP, Francioli LC, Hormozdiari F, et al. Characteristics of de novo structural changes in the human genome. Genome Research. 2015;25(6):792-801.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941798Leung WY, Marschall T, Paudel Y, et al. SV-AUTOPILOT: optimized, automated construction of structural variation discovery and benchmarking pipelines. BMC Genomics. 2015;16(1): 238.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941804van Leeuwen EM, Karssen LC, Deelen J, et al. Genome of the Netherlands population-specific imputations identify an ABCA6 variant associated with cholesterol levels. Nature Communications. 2015;6(1): 6065.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941799Patterson M, Marschall T, Pisanti N, et al. WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads. Journal of Computational Biology. 2015;22(6):498-509.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941803van Leeuwen EM, Kanterakis A, Deelen P, et al. Population-specific genotype imputations using minimac or IMPUTE2. Nature Protocols. 2015;10(9):1285-1296.PUB | DOI | WoS | PubMed | Europe PMC
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2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941805Francioli LC, Polak PP, Koren A, et al. Genome-wide patterns and properties of de novo mutations in humans. Nature Genetics. 2015;47(7):822-826.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941816Deelen P, Menelaou A, van Leeuwen EM, et al. Improved imputation quality of low-frequency and rare variants in European samples using the ‘Genome of The Netherlands’. European Journal of Human Genetics. 2014;22(11):1321-1326.PUB | DOI | WoS | PubMed | Europe PMC
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2014 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941810Töpfer A, Marschall T, Bull RA, Luciani F, Schönhuth A, Beerenwinkel N. Viral Quasispecies Assembly via Maximal Clique Enumeration. PLoS Computational Biology. 2014;10(3): e1003515.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941835El-Kebir M, Marschall T, Wohlers I, et al. Mapping proteins in the presence of paralogs using units of coevolution. BMC Bioinformatics. 2013;14(S15): S18.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941837Allhoff M, Schönhuth A, Martin M, Costa IG, Rahmann S, Marschall T. Discovering motifs that induce sequencing errors. BMC Bioinformatics. 2013;14(Suppl 5): S1.PUB | DOI | WoS | PubMed | Europe PMC
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2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941836Marschall T, Hajirasouliha I, Schönhuth A. MATE-CLEVER: Mendelian-inheritance-aware discovery and genotyping of midsize and long indels. Bioinformatics. 2013;29(24):3143-3150.PUB | DOI | WoS | PubMed | Europe PMC
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941839Marschall T, Costa IG, Canzar S, et al. CLEVER: clique-enumerating variant finder. Bioinformatics. 2012;28(22):2875-2882.PUB | DOI | WoS | PubMed | Europe PMC
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2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941840Hajirasouliha I, Schönhuth A, de Juan D, Valencia A, Sahinalp SC. Mirroring co-evolving trees in the light of their topologies. Bioinformatics. 2012;28(9):1202-1208.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941841Singer M, Engström A, Schönhuth A, Pachter L. Determining Coding CpG Islands by Identifying Regions Significant for Pattern Statistics on Markov Chains. Statistical Applications in Genetics and Molecular Biology. 2011;10(1):759.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941842Hafemeister C, Costa IG, Schönhuth A, Schliep A. Classifying short gene expression time-courses with Bayesian estimation of piecewise constant functions. Bioinformatics. 2011;27(7):946-952.PUB | DOI | WoS | PubMed | Europe PMC
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2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2941814Schönhuth A. Generic identification of binary-valued hidden Markov processes. Journal of Algebraic Statistics. 2011;5(1):72-99.PUB
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