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Computer Science

D-Index
42
Citations
7781
World Ranking
8355
National Ranking
405

Overview

Bertil Schmidt is affiliated with Johannes Gutenberg University of Mainz in Germany. Their research spans fields such as Biochemistry, Genetics and Molecular Biology, and Computer Science, with a significant focus on subfields including Molecular Biology, Artificial Intelligence, Computer Networks and Communications, Hardware and Architecture, as well as Computer Vision and Pattern Recognition.

Their work covers a variety of topics within bioinformatics and computational biology, including:

  • Genomics and Phylogenetic Studies
  • Algorithms and Data Compression
  • Machine Learning in Bioinformatics
  • Advanced Data Storage Technologies
  • Gene expression and cancer classification
  • RNA and protein synthesis mechanisms
  • Cancer Genomics and Diagnostics

Frequent co-authors collaborating with Bertil Schmidt include:

  • Weiguo Liu
  • Zekun Yin
  • Xiaohui Duan
  • Lifeng Yan
  • Andreas Hildebrandt

The scientist has contributed to a range of publication venues, with multiple papers published especially in:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • BMC Bioinformatics
  • Bioinformatics
  • IEEE Transactions on Parallel and Distributed Systems
  • Drug Discovery Today

Among recent papers authored or co-authored by Bertil Schmidt are:

  • Deep learning in next-generation sequencing, 2020, Drug Discovery Today
  • From GPUs to AI and quantum: three waves of acceleration in bioinformatics, 2024, Drug Discovery Today

Other influential papers from the related domain but led by different authors include:

  • A big data approach to metagenomics for all-food-sequencing, 2020, BMC Bioinformatics
  • MetaTransformer: deep metagenomic sequencing read classification using self-attention models, 2023, NAR Genomics and Bioinformatics
  • Convolutional neural network prediction of molecular properties for aerosol chemistry and health effects, 2022, Natural Sciences

Best Publications

  • CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units

    Yongchao Liu;Douglas L Maskell;Bertil Schmidt

  • Musket: a multistage k-mer spectrum-based error corrector for Illumina sequence data.

    Yongchao Liu;Jan Schröder;Bertil Schmidt

  • CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions.

    Yongchao Liu;Adrianto Wirawan;Bertil Schmidt

  • MSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities.

    Yongchao Liu;Bertil Schmidt;Douglas L. Maskell

  • CUDASW++ 2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions

    Yongchao Liu;Bertil Schmidt;Douglas L Maskell

  • Streaming Algorithms for Biological Sequence Alignment on GPUs

    Liu Weiguo;B. Schmidt;G. Voss;W. Muller-Wittig

  • CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows–Wheeler transform

    Yongchao. Liu;Bertil. Schmidt;Douglas Leslie. Maskell

  • Accelerating molecular dynamics simulations using Graphics Processing Units with CUDA

    Weiguo Liu;Bertil Schmidt;Gerrit Voss;Wolfgang Müller-Wittig

  • SHREC: A short-read error correction method

    Jan Schröder;Heiko Schröder;Simon J. Puglisi;Ranjan Sinha

  • Using reconfigurable hardware to accelerate multiple sequence alignment with ClustalW

    Tim Oliver;Bertil Schmidt;Darran Nathan;Ralf Clemens

  • Bio-sequence database scanning on a GPU

    Weiguo Liu;Bertil Schmidt;Gerrit Voss;Andre Schroder

  • Next-generation sequencing: big data meets high performance computing.

    Bertil Schmidt;Andreas Hildebrandt

  • Long read alignment based on maximal exact match seeds

    Yongchao Liu;Bertil Schmidt

  • Hyper customized processors for bio-sequence database scanning on FPGAs

    Tim Oliver;Bertil Schmidt;Douglas Maskell

  • MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA

    Yongchao Liu;Bertil Schmidt;Douglas L. Maskell

  • CUDA-BLASTP: Accelerating BLASTP on CUDA-Enabled Graphics Hardware

    Weiguo Liu;Bertil Schmidt;Wolfgang Muller-Wittig

  • Reconfigurable architectures for bio-sequence database scanning on FPGAs

    T.F. Oliver;B. Schmidt;D.L. Maskell

  • CUDA-MEME: Accelerating motif discovery in biological sequences using CUDA-enabled graphics processing units

    Yongchao Liu;Bertil Schmidt;Weiguo Liu;Douglas L. Maskell

  • Parallelized short read assembly of large genomes using de Bruijn graphs

    Yongchao Liu;Bertil Schmidt;Douglas L Maskell

  • Molecular dynamics simulations on commodity GPUs with CUDA

    Weiguo Liu;Bertil Schmidt;Gerrit Voss;Wolfgang Müller-Wittig

Frequent Co-Authors

Douglas L. Maskell
Douglas L. Maskell Nanyang Technological University
Chee Keong Kwoh
Chee Keong Kwoh Nanyang Technological University
Vladimir Brusic
Vladimir Brusic University of Nottingham Ningbo China
Thomas Hankeln
Thomas Hankeln Johannes Gutenberg University of Mainz
Srinivas Aluru
Srinivas Aluru Georgia Institute of Technology
Vipin Chaudhary
Vipin Chaudhary University at Buffalo, State University of New York
Stefan Kramer
Stefan Kramer Johannes Gutenberg University of Mainz
Simon J. Puglisi
Simon J. Puglisi University of Helsinki
Guangwen Yang
Guangwen Yang Tsinghua University
David Ellinghaus
David Ellinghaus Kiel University

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