CF Bioinformatics

The facility provides bioinformatics support to FLI scientists – in particular if the analysis of experimental data requires complex algorithms, advanced statistics or high performance computational power for processing, due to its large scale (e.g., data from CF DNA Sequencing or CF Proteomics).

A bioinformatics project is initialized via discussion between users and the Facility staff on the envisioned data structure and analysis goals. This initial step should ideally be an integral part of the design of the experimental work to follow. Bioinformatics solutions are realized by application of established methods and pipelines, as well as by the implementation or development of new software tools and approaches.

Services (a selection):

  • Differential expression analyses of RNA-seq, proteomics or metabolomics experiments
  • Chromatin-related experiment analysis:ChIP-seq, ATAC-seq
  • (Epi)genetic variant discovery and genotype analysis
  • Gene set / pathway enrichment analysis
  • DNA and protein sequence analyses and database mining
  • Consultation and training on bioinformatics and biostatistics
FLI: High-performance storage systems

Contact

Karol Szafranski
CF Manager
+49 3641 65-6804
karol.szafranski@leibniz-fli.de

Overview CF Bioinformatics

Overview CF Bioinformatics
  • Expression analyses of human, mouse, fly, killifish and planarian RNA or protein samples
  • Characterization of somatic mutations in the human and mouse hematopoietic systems
  • Development of software tools for expression and mutation analysis
  • PacBio-based microbial genome assembly and annotation
  • Improvements of the N. furzeri genome sequence with PacBio data
  • Organization of special interest group meetings for statistics and R scripting (R Club)

Internal users:
  Download (doc)  Bioinformatics Project Form

External users:
Please inquire.

Team

Name Phone Email Position
Karol Szafranski +49 3641 656804 karol.szafranski@leibniz-fli.de Core Facility Manager
Ramadurai Ramachandran +49 3641 656222 ramadurai.ramachandran@leibniz-fli.de Staff Scientist
Philipp Koch +49 3641 656053 philipp.koch@leibniz-fli.de Postdoc
Robert Schwarz --- Master Student
Steve Hoffmann +49 3641 656810 steve.hoffman@leibniz-fli.de Scientific Supervisor

For publications of individual CF members:  publications search