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Projects (former)

Algorithm Engineering for Genome Comparison

Knut Reinert

    DFG SPP 1307 There are two main research goals in the proposed project: (1) To design, analyze, implement, and experimentally validate efficient and versatile genome comparison algorithms based upon suitable computation models and (2) to integrate all required algorithmic ...

Algorithm Engineering for High Throughput Sequencing Data

Knut Reinert

During the last five years modern sequencing technologies have brought a super-exponential growth of sequencing capacities. With the current sequencing technologies it is possible to sequence up to 30 billion nucleotides per day. The tremendous growth threatens to swamp the available data archives ...

BioStore

Knut Reinert, David Weese

    The VIP  BioStore project addresses the current bottleneck in NGS based data analysis. It is meant to be a catalyst for bringing state-of-the-art algorithmic research to a broader community of developers and at the same time enable researchers in the biomedical sciences to ...

BlueIon

Knut Reinert

  BlueIon Ziel ist die Entwicklung eines neuartigen Detektors BlueION für die Hochleistungsflüssigkeitschromatographie (HPLC) bzw. die schnelle Ultra-HPLC (UHPLC). HPLC und UHPLC werden in der Routineanalytik zum Nachweis von sehr geringen Substanzmengen in komplexen flüssigen Mischungen ...

de.NBI - CIBI (03/2015-12/2021)

Prof. Knut Reinert

Progress in medicine and life sciences becomes more and more dependent on complex workflows for data analysis. The immensely increasing amount of data that scientists are faced with demands a continuous improvement in these workflows as well as efficient algorithms and tools. CIBI ...

Ess-B.A.R.

Prof. Knut Reinert

Im Verbundprojekt Ess-B.A.R. werden konkrete Lösungsansätze erarbeitet, die zu einer Verbesserung des Schutzes der Gesellschaft bei außergewöhnlichen biologischen Gefahrenlagen beitragen. Dies geschieht im Rahmen eines anwendungsorientierten Forschungsvorhabens in interdisziplinärer ...

iGenVar

Prof. Knut Reinert

Determination of individual genomic variation from short- and long-read sequencing technologies Current sequencing technologies make if feasible to determine an individual's genome sequence and to identify possible disease causing variants. Most notably, structural variations can be identified ...

SeqAn IPCC

Prof. Knut Reinert

The analysis of sequencing data is demanding because of the enormous data volume and the need for fast turnaround time, accuracy, reproducibility, and data security. This requires a large variety of expertise: Algorithm design, strong implementation skills for analyzing big data on standard ...

LIVE-DREAM

Prof. Knut Reinert

Live Analysis of Pathogen NGS Data using Dynamic Compressible Indices Next Generation Sequencing (NGS) has evolved as a main workhorse not only for molecular biology, but has also increasingly been used in clinical settings. For instance, unbiased, open-view pathogen diagnostics or personalized ...

lncRNA-finding

Prof. Annalisa Marsico, Prof. Knut Reinert

Non-coding RNAs (ncRNAs), transcripts that do not code for proteins, started receiving a lot of attention in the last decade, thanks to several high-throughput genome-wide sequencing efforts which showed that, whereas less than 2% of the genome encodes proteins, at least 75% is actively ...

MARINA

Knut Reinert

        MARINA  (Managing Risks of Nanomaterials) is a large-scale integrating collaborative project concerned with health and safety issues related to ENM. Understanding and mitigating the risks of nanomaterials to human health and the environment is a global challenge, and ...

Predict IV

Knut Reinert

      Predict IV (Collab. large-scale integrating project) The goal of Predict IV is the profiling of the toxicity of new drugs: A non animal-based approach integrating toxico-dynamics and biokinetics. Our group, as a partner, develops algorithms for iTRAQ labeled MS ...