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Author Details

Knut Reinert
Institut fur Informatik, Freie Universitat Berlin
1998
101
37
PMIDPaper TitleJournal TitlePublished Year
36869850Linear: a framework to enable existing software to resolve structural variants in long reads with flexible and efficient alignment-free statistical models.Brief Bioinform2023
37259161Hierarchical Interleaved Bloom Filter: enabling ultrafast, approximate sequence queries.Genome Biol2023
37294786Mistle: bringing spectral library predictions to metaproteomics with an efficient search index.Bioinformatics2023
36622018A multi-view latent variable model reveals cellular heterogeneity in complex tissues for paired multimodal single-cell data.Bioinformatics2023
34991448LaRA 2: parallel and vectorized program for sequence-structure alignment of RNA sequences.BMC Bioinformatics2022
35801930Needle: a fast and space-efficient prefilter for estimating the quantification of very large collections of expression experiments.Bioinformatics2022
32717040SCORE: Smart Consensus Of RNA Expression-a consensus tool for detecting differentially expressed genes in bacteria.Bioinformatics2021
33808372Profiling of Sub-Lethal in Vitro Effects of Multi-Walled Carbon Nanotubes Reveals Changes in Chemokines and Chemokine Receptors.Nanomaterials (Basel)2021
34786019The Collaborative Research Center FONDA.Datenbank Spektrum2021
34601556RLM: fast and simplified extraction of read-level methylation metrics from bisulfite sequencing data.Bioinformatics2021
34773979Testing assembly strategies of Francisella tularensis genomes to infer an evolutionary conservation analysis of genomic structures.BMC Genomics2021
34337360Raptor: A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.iScience2021
33147627Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research.Brief Bioinform2021
32457701Rapid and Culture Free Identification of <i>Francisella</i> in Hare Carcasses by High-Resolution Tandem Mass Spectrometry Proteotyping.Front Microbiol2020
31975601EPIFANY: A Method for Efficient High-Confidence Protein Inference.J Proteome Res2020
32747713Concentration and chemical form of dietary zinc shape the porcine colon microbiome, its functional capacity and antibiotic resistance gene repertoire.ISME J2020
32657362ganon: precise metagenomics classification against large and up-to-date sets of reference sequences.Bioinformatics2020
32246826GenMap: ultra-fast computation of genome mappability.Bioinformatics2020
32469863Ranbow: A fast and accurate method for polyploid haplotype reconstruction.PLoS Comput Biol2020
31248401VARSCOT: variant-aware detection and scoring enables sensitive and personalized off-target detection for CRISPR-Cas9.BMC Biotechnol2019
29099941Formula Feeding Predisposes Neonatal Piglets to Clostridium difficile Gut Infection.J Infect Dis2018
30423080DREAM-Yara: an exact read mapper for very large databases with short update time.Bioinformatics2018
29726911Generic accelerated sequence alignment in SeqAn using vectorization and multi-threading.Bioinformatics2018
27498275In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.J Proteomics2017
28367376SLIMM: species level identification of microorganisms from metagenomes.PeerJ2017
28541403Flexbar 3.0 - SIMD and multicore parallelization.Bioinformatics2017
28559010OpenMS - A platform for reproducible analysis of mass spectrometry data.J Biotechnol2017
28888961The SeqAn C++ template library for efficient sequence analysis: A resource for programmers.J Biotechnol2017
27796452Development and optimisation of a generic micro LC-ESI-MS method for the qualitative and quantitative determination of 30-mer toxic gliadin peptides in wheat flour for food analysis.Anal Bioanal Chem2017
26968893From the desktop to the grid: scalable bioinformatics via workflow conversion.BMC Bioinformatics2016
27964746Alternate-locus aware variant calling in whole genome sequencing.Genome Med2016
27805770High-performance liquid chromatography with electrospray ionization ion mobility spectrometry: Characterization, data management, and applications.J Sep Sci2016
27575624OpenMS: a flexible open-source software platform for mass spectrometry data analysis.Nat Methods2016
26831908CIDANE: comprehensive isoform discovery and abundance estimation.Genome Biol2016
25282642LocalAli: an evolutionary-based local alignment approach to identify functionally conserved modules in multiple networks.Bioinformatics2015
25987567IMSEQ--a fast and error aware approach to immunogenetic sequence analysis.Bioinformatics2015
25939052Alignment of Next-Generation Sequencing Reads.Annu Rev Genomics Hum Genet2015
26026931Evaluation of drug-induced neurotoxicity based on metabolomics, proteomics and electrical activity measurements in complementary CNS in vitro models.Toxicol In Vitro2015
25649620Methods for the detection and assembly of novel sequence in high-throughput sequencing data.Bioinformatics2015
25604327Workflows for automated downstream data analysis and visualization in large-scale computational mass spectrometry.Proteomics2015
24336806NetCoffee: a fast and accurate global alignment approach to identify functionally conserved proteins in multiple networks.Bioinformatics2014
25456598Ultrahigh-performance liquid chromatography-ultraviolet absorbance detection-high-resolution-mass spectrometry combined with automated data processing for studying the kinetics of oxidative thermal degradation of thyroxine in the solid state.J Chromatogr A2014
25028727Gustaf: Detecting and correctly classifying SVs in the NGS twilight zone.Bioinformatics2014
25028723Journaled string tree-a scalable data structure for analyzing thousands of similar genomes on your laptop.Bioinformatics2014
25161220Fiona: a parallel and automatic strategy for read error correction.Bioinformatics2014
25161219Lambda: the local aligner for massive biological data.Bioinformatics2014
24712884Genome alignment with graph data structures: a comparison.BMC Bioinformatics2014
23358824Fast and accurate read mapping with approximate seeds and multiple backtracking.Nucleic Acids Res2013
24000925The duplication-loss small phylogeny problem: from cherries to trees.J Comput Biol2013
23394260Rapid and comprehensive impurity profiling of synthetic thyroxine by ultrahigh-performance liquid chromatography-high-resolution mass spectrometry.Anal Chem2013
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Collaborators

Oliver Kohlbacher
Max Planck Institute for Developmental Biology
Co-authored papers 16
Christian G Huber
University of Salzburg
Co-authored papers 9
Anne-Katrin Emde
Variant Bio Inc.
Co-authored papers 8
Eugene W Myers
Max Planck Institute of Molecular Cell Biology and Genetics
Co-authored papers 7
Karin A Remington
The J. Craig Venter Institute.
Co-authored papers 6
Granger G Sutton
J. Craig Venter Institute
Co-authored papers 6
Arthur L Delcher
Center for Computational Biology, Johns Hopkins School of Medicine
Co-authored papers 6
Mark D Adams
Case Western Reserve University School of Medicine
Co-authored papers 6
Saul Kravitz
Co-authored papers 6
Ian Dew
Co-authored papers 6
Clark Mobarry
Co-authored papers 6
Zhongwu Lai
Oncology R&D
Co-authored papers 5
Deborah Nusskern
Euclid Diagnostics LLC
Co-authored papers 5
Xiangqun H Zheng
Zibo First Hospital
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Aaron L Halpern
Illumina Inc.
Co-authored papers 5
J C Venter
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Timo Sachsenberg
Institute for Bioinformatics and Medical Informatics, University of Tubingen
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Manuel Holtgrewe
Berlin Institute of Health
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Peter Li
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Fei Zhong
Case Western Reserve University.
Co-authored papers 4
Zhiping Gu
Xuzhou Kuangshan Hospital
Co-authored papers 4
Tobias Rausch
University of Heidelberg
Co-authored papers 4
Bixiong Chris Shue
Co-authored papers 4
Yong Liang
Michigan State University
Co-authored papers 3
Lisa Doup
Co-authored papers 3
Carlos C Evangelista
Co-authored papers 3
Tim Howland
Co-authored papers 3
Mark Yandell
University of Utah
Co-authored papers 3
Eli Venter
Vanderbilt University, Columbia University Medical Center
Co-authored papers 3
N V Mil'shina
Co-authored papers 3
Release 1.2