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Consulting, data analysis and data upload services

Proteins are important research entities as they are the executive biomolecules in cells, tissues and organs. Thereby proteomics comprises the identification, quantification and spatial resolution of many proteins in complex samples in parallel. Proteomics experiments with focus on clinical research are indispensable for a comprehensive understanding of biological functions and diseases that are socio-economically highly relevant for ageing societies such as neurodegenerative disorders, metabolic diseases and cancer. In this context, the service center BioInfra.Prot has deep expertise and experience with proteomics tools, standards and analyses with focus on clinical as well as human proteomics and provides high-quality bioinformatics services for these disciplines. We offer not only software and workflows , but also various consulting services to support users in bioinformatics or statistical questions in the field of proteomics. Our consulting services include:

Data standardization and conversion service

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Standard formats are represented in all areas of science. There are also certain standard formats in proteomics, which are intended to simplify uniform and structured work.  This service supports users in questions regarding the choice of the appropriate format and in the conversion of their data. It is also indispensable within good scientific practice to make data available to the public. This is achieved by raw data repositories like PRIDE. Thereby, data gain a better visibility in the proteomic community and a better cross-linking to other databases like UniProt or NeXtprot. In addition, the data is stored centrally and loss of data on private servers is prevented.  Furthermore, uploading data to such a repository is part of a FAIR-compliant data management and has become the standard procedure for many journals to allow later reanalysis.


The portfolio of our consulting service includes:

  • Consulting about ontologies, data standard formats, converters and upload tools in proteomics
  • Data conversion service
  • Support to upload data in proteomic repertories, esp.  PRIDE.
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Bioinformatical consulting and analysis of proteomics data

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We offer a bioinformatical consulting service concerning the application of our own tools as well as other proteomics software. Researchers will be advised in data handling, managing large amounts of data as well as choosing and using suitable data and workflow-specific software tools. Moreover we define frequently needed proteomics-specific data analysis pipelines for workflow environments like KNIME  or Galaxy and make them easily available. Beyond the expert advice given by our  bioinformaticians, we also offer to conduct the respective analyses as agreed.


The portfolio of our services includes, but is not limited to:

  • Application of our own tools
  • Application of other proteomics software
  • Choosing and using suitable data and workflow-specific software tools
  • Data handling
  • Managing large amounts of data
  • Definition of frequently needed proteomics-specific data analysis pipelines for workflow environments
  • Algorithm development
  • Software development
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Statistical consulting and analysis of proteomics data

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The statistical consulting offered by de.NBI’s service-center BioInfra.Prot can support you in various aspects of your proteomics analyses. We assist in the planning of your study, in the choice of appropriate analysis methods and/or the interpretation and presentation of obtained results. Beyond the expert advice given by our biostatistican, we also offer to conduct the respective analyses and create graphics for your publication.


The portfolio of our services includes, but is not limited to:

  • Sample size estimation and study planning
  • Normalization and quality control
  • Differential analysis
  • Biomarker studies
  • Clustering
  • Classification
  • Survival analysis
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