PRESENTATION OF THE COMPANY

GenXPro is specialized in Next-Generation-Sequencing (NGS) based analysis and bioinformatics. Founded in 2005, we have developed a broad spectrum of techniques and methods based on NGS and provide a full service, including bioinformatics statistical analyses and presentation of the data. Our service portfolio also includes metagenomics and metatranscriptomics. In 2008 we have invented the “TrueQuant” method, which is based on barcoding each DNA-molecule prior to PCR amplification. As each barcode-template combination is statistically unique, PCR-duplicates can be identified and eliminated from the dataset to prevent PCR-bias. Our customers are from all fields of life sciences but mainly from agro- and medical institutions and companies worldwide. Recently, we are concentrating our efforts to offer services for precision medicine in cancer treatment. This year we have launched a transcriptome sequencing kit based on our TrueQuant method for high resolution gene expression analysis and low-bias data called “MACE” (Massive Analysis of cDNA Ends).

Website: http://genxpro.info/about_us/

ROLE IN THE PROJECT

Sub-project 10: Development of bioinformatics tools for the analysis of MACE data

Sub-project 11: Development of innovative tools for rapid phenotypic characterisation of intraspecific diversity

STAFF INVOLVED

  Björn ROTTER

 

Education

• 2000-2004: PhD. Thesis at the “Institut national de la santé et de la recherche médicale”(INSERM), the French national institute for medical research, Hôpital Bichat and the Université Paris VII in Paris, France, under Dr. Marie-Christine Lecomte, about “Functional analyses of the central region of alphaII-spectrin”.

• 1997-2000: Studies of Biology at the J.W.Goethe Universität of Frankfurt and Master Theses at the Institut Nationale de la Recherche Agronomique (INRA) at Montpellier, France about “QTL analysis for drought tolerance in Barley” under Dr. Dominique This and Dr. Kurt Weising.

• 1995-1996: External year at the “College of New Jersey”, Trenton, USA.

• 1993-1995: Studies of Biology and Intermediate Exams at the J.W.Goethe Universität of Frankfurt.

Professional experience

Since 2005:

Co-founder of GenXPro GmbH, Chief Scientific Officer. In 2008, invention of the “TrueQuant” method for the elimination of PCR-bias in NGS-data. In 2009, development of the “MACE” Technique (“Massive Analysis of cDNA Ends”) in combination with TrueQuant. Besides the scouting, development and adaptation of new techniques, a part of my work consists of organization and presentation of our company, customer consulting as well as business development and marketing as part of the management board. Currently I am involved in the adaptation of single-cell sequencing, high-throughput sample preparation methods and the development of a bioinformatics pipeline for precision medicine in different tumors.

Publications:

• Afonso-Grunz F, Hoffmeier K, Müller S, Westermann AJ, Rotter B, Vogel J, Winter P, Kahl G Dual 3’Seq using deepSuperSAGE uncovers transcriptomes of interacting Salmonella enterica Typhimurium and human host cells.BMC Genomics. 2015 Apr 19;16:323.

• Müller S, Raulefs S, Bruns P, Afonso-Grunz F, Plötner A, Thermann R, Jäger C, Schlitter AM, Kong B, Regel I, Roth WK, Rotter B, Hoffmeier K, Kahl G, Koch I, Theis FJ, Kleeff J, Winter P, Michalski CW. Next-generation sequencing reveals novel differentially regulated mRNAs, lncRNAs, miRNAs, sdRNAs and a piRNA in pancreatic cancer. Mol Cancer. 2015 Apr 25;14(1):94.

• Nold-Petry CA, Lo CY, Rudloff I, Elgass KD, Li S, Gantier MP, Lotz-Havla AS, Gersting SW, Cho SX, Lao JC, Ellisdon AM, Rotter B, Azam T, Mangan NE, Rossello FJ, Whisstock JC, Bufler P, Garlanda C, Mantovani A, Dinarello CA, Nold MF. IL-37 requires the receptors IL-18Ra and IL-1R8 (SIGIRR) to carry out its multifaceted anti-inflammatory program upon innate signal transduction.Nat Immunol. 2015 Mar 2

• Mazzocca A, Dituri F, De Santis F, Filannino A, Lopane C, Betz RC, Li YY, Mukaida N, Winter P, Tortorella C, Giannelli G, Sabbà C.
  Lysophosphatidic Acid Receptor LPAR6 Supports the Tumorigenicity of Hepatocellular Carcinoma. Cancer Res. 2015 Feb 1;75(3):532-43. doi: 10.1158/0008-5472.CAN-14-1607.

• Müller S, Rycak L, Afonso-Grunz F, Winter P, Zawada AM, Damrath E, Scheider J, Schmäh J, Koch I, Kahl G, Rotter B.
  APADB: a database for alternative polyadenylation and microRNA regulation events Database (Oxford). 2014 Jul 22;2014.

• Müller S, Rycak L, Winter P, Kahl G, Koch I, Rotter B. omiRas: a Web server for differential expression analysis of miRNAs derived from small RNA-Seq data.Bioinformatics. 2013 Aug 23. http://tools.genxpro.net/omiras/

Contact: rotter@genxpro.de

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This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska Curie grant agreement n° 641984