Welcome to the Vienna Biocenter Core Facilities

  • Advanced Microscopy
    High resolution optical imaging and spectroscopy techniques / Microscope customization and development.
  • Bioinformatics & Scientific Computing
    We provide unique expertise and services in the areas of bioinformatics and scientific computing to academic and industrial researchers.
  • Electron Microscopy
    To see what no one has seen before!
  • HistoPathology
    We provide expertise and resources for a wide range of histological and pathological studies in mice and a number of other organisms.
  • Empowering your research - get quantitative data on the building blocks of life!
  • Next Generation Sequencing
    Genomics’ most flexible and powerful tool.
  • Plant Sciences
    ... take your plant research to the next level!
  • Preclinical Phenotyping
    State-of-the-art of phenotypic screening of Mouse Behavior, Metabolism & Physiology.
  • Preclinical Imaging
    Ultra high 15.2 T Bruker MR imaging.
  • Protein Technologies
    We provide expertise in recombinant protein technologies and genome engineering.
  • Vienna Drosophila Resource Center
    Drosophila resources for researchers worldwide.
  • Child Care Center
    The Child Care Center hosts not only little researchers from the Vienna Biocenter but also young media kids from the Media Quarter Marx.


Novel Magnetic Nanostructures for Medical Applications (MAGNAMED)

The Horizon 2020 sub-programme MCSA RISE provides support of R&D activities by means of targeted staff exchanges of the partnering organisations. The 14 partners of the project MAGNAMED will exchange their knowledge and expertise in various aspects of bio-imaging methods, which will bring the newest trends in this field to VBCF.

Global profiling of cancer-associated exitron splicing

A joint project of Austrian - Japanese collaboration aims to investigate a link between exitron splicing and cancer so far never explored in different tumours. This project will advance our understanding of the mechanisms of alternative splicing and may lead to the development of novel cancer biomarkers and therapeutic targets. VBCF's role in the project will be providing Next Generation Sequencing services.

FemTECH Praktika for Female students 2016

13 summer/autumn fellowships of female students with the aim of initiating their scientific career. Their main goal is to work on further improvement of our services.

Brillouin Light Scattering Microspectroscopy for Biology and Biomedical Research & Applications (BioBrillouin)

The new COST Action aims at bringing together experts on Brillouin Light Scattering Spectroscopy and establishing a network which will be able to bring this novel technique to the field of life sciences and biomedicine.

Creating synergies between research infrastructures to stimulate innovation in the cross-border region

The project focuses on research infrastructures (RI) in the field of bio- and nanotechnology whose supportive role in both basic and applied science has become an indispensable part of scientific research. The main goal of the project is to prepare and validate a sustainable model of cross-border collaboration (Austria – Czech Republic) of RI that will ensure 1) effective exploitation of complementary equipment and expertise, 2) accessibility and promotion of the cross-border RI for regional users, both academic and industrial.

“I first came to the VBC in 2006 with the intention of staying only three or four years. Nine years later I am still here - the campus just keeps getting better!”

Peggy Stolt-Bergner, Protein Technologies

“VBC - where top expertise and cutting edge scientific infrastructure meets outstanding research and a great atmosphere.”

Jakub Jez, Plant Sciences Facility Head

“The Campus VBC is probably the most vibrant research site in Austria, so anyone interested in research would want to be here.”

Kareem Elsayad, Core Facility Head

“VBCF provides state-of-the-art equipment and dedicated experts. We help you to push your research further.”

Sylvia Badurek, Core Facility Head at Preclinical Phenotyping Facility

Who We Are

The Vienna BioCenter Core Facilities GmbH (VBCF) is a publicly funded non-profit research institute, situated at the Vienna Biocenter. Founded as Campus Science Support Facilities (CSF) in 2011, it was renamed in 2015 to VBCF.

We offer access to state-of-the-art research infrastructure and scientific services. Our customers are academic research institutions and companies in the field of Life Sciences.

VBCF is open to all forms of scientific collaborations.


Horizon 2020 Collaboration Offer

Download Brochure

VBCF Newsletter

VBCF General Cooperation Conditions



We offer cutting edge infrastructure and scientific services to enable our customers to compete at the forefront of science.

Passion for technology and science, continuous training and lifelong learning are what make VBCF staff the highly qualified experts we need to develop and operate our scientific infrastructure to the satisfaction of our customers.

We constantly scout for new and emerging technologies that can better address the research questions of our customers and aim for joint exploration.

We contribute to the most effective and efficient usage of public and private research funds by providing high-quality service and economies of scale through centralization.

VBCF acts as a communication platform and a joint repository of expertise. Technical knowledge and skills are preserved when researchers leave the Vienna Biocenter and are forwarded to the next generation of researchers.

We cooperate with other providers of research infrastructure to make technologies beyond our own portfolio accessible and to improve the quality of our services through benchmarking.

About VBCF

The Vienna Biocenter Core Facilities GmbH (VBCF) is a publicly funded non-profit research institute, situated at the Vienna Biocenter.  VBCF was founded in 2010 as a limited liability company (GmbH) according to Austrian law. VBCF’s stakeholders are:

The operation of VBCF is funded by the Federal Ministry of Science, Research and Economy (bm.wfw) and the City of Vienna, by fees charged for delivered services and by additional research grants.

VBCF operates 11 scientific core facilities and the shared Child Care Center of the Vienna Biocenter as shown in the organization chart below.


Peggy Stolt-Bergner
Authorized Representative of VBCF

Peggy Stolt-Bergner is Managing Director on an interim basis and Head of facility Protein Technologies (ProTech).

since 2014 Authorized Representative of VBCF
since 2011 Head of VBCF Protein Technologies Facility
2006-2011 IMP Fellow, Research Institute of Molecular Pathology
2004-2006 Postdoctoral Fellow, Max Planck Institute of Biophysics,
1999-2004 PhD, Biochemistry and Molecular Pharmacology, Harvard Medical School

Go to the full CV of Peggy Stolt-Bergner.

phone: +43 1 796 23 24 7070
mobile: +43 664 80847 7070
mail: peggy.stolt@@vbcf.ac.at

Andreas Sommer
Authorized Representative of VBCF

Andreas Sommer is Managing Director on an interim basis and Head of facility Next Generation Sequencing (NGS).



since 2018 Authorized Representative of VBCF
since 2011 Head of VBCF Next Generation Sequencing Facility
2009-2011 Co-Head Genomics Unit, IMP - Research Institute of Molecular Pathology
2008-2009 Next generation Sequencing Specialist, IMP
2006-2007 Lab manager, University of Natural Resources and Life Sciences

Go to the full CV of Andreas Sommer.

phone: +43 1 796 23 24 7030
mobile: +43 664 80847 7030
mail: andreas.sommer@@vbcf.ac.at


Barbara Miksch started at the VBCF from the very beginning in 2011 and is responsible for office administration, personnel administration and also external communications. 

phone: +43 1 796 23 24 7000
mail: barbara.miksch@@vbcf.ac.at

Ibolya Kellner joined the VBCF Administration in February 2017 as a controller. Her former work experience is the perfect prerequisite for looking after the VBCF budget. 

phone: +43 1 796 23 24 7011
mail: ibolya.kellner@@vbcf.ac.at

Veronika Murlasits is supporting the Administration, she’s responsible for incoming and outgoing invoices and all other daily business.

phone: +43 1 796 23 24 7012
mail: veronika.murlasits@@vbcf.ac.at



Lada Fialova joined VBCF in March 2015 as grant manager. Her responsibility is to support and facilitate search for grant opportunities, grant applications, and grant management.

phone: +43 1 796 23 24 7013
mail: lada.fialova@@vbcf.ac.at



Michaela Thoß joined the VBCF in March 2018 as a junior grant manager. She supports the grant management of running grants and is responsible for their project management.

phone: +43 1 796 23 24 7014
mail: michaela.thoss@@vbcf.ac.at



Strategic Information Management

The Strategic Information Management (SIM) facility is responsible for a common VBCF IT strategy and centralizes the most important IT tasks of the VBCF. The goal of this facility is to concentrate, merge and plan all IT requirements of the VBCF and setup a service oriented architecture which facilitates the flow of information between the VBCF facilities and administration.

Thomas Micheler is head of Strategic Information Management (SIM) facility since summer 2013. He is responsible for a comprehensive IT strategy and IT controlling for the VBCF. He is the SCRUM master of the SISY (Sample Information SYstem) project.

phone: +43 1 796 23 24 7130
mobil: +43 664 808 47 7130
mail: thomas.micheler@vbcf.ac.at

Bernhard Muehl joined the Strategic Information Management (SIM) facility as software engineer in March 2016. He is responsible for VBCF information systems and belongs to the SCRUM team of the SISY (Sample Information SYstem) project.

phone: +43 1 796 23 24 7133
mail: bernhard.muehl@@vbcf.ac.at

Barbara Wohlmuth joined the Strategic Information Management (SIM) facility as software engineer in August 2016. She is responsible for VBCF information systems and belongs to the SCRUM team of the SISY (Sample Information SYstem) project.

phone: +43 1 796 23 24 7132
mail: barbara.wohlmuth@@vbcf.ac.at

Florian Andersch joined the Strategic Information Management (SIM) facility as software engineer in April 2017. He belongs to the SCRUM team of the SISY (Sample Information SYstem) project.

phone: +43 1 796 23 24 7244
mail: florian.andersch@@vbcf.ac.at

Institutional Collaborations

VBCF has institutional collaborations with national and international research institutions, universities and other organizations with the following goals:

  • Initiation of joint research projects
  • Facilitation of staff exchange and development of joint training programs
  • Improved access to cutting-edge technologies through resource sharing

Core For Life

Core for Life is an excellence initiative of six leading European core facility organizations. The common intention of the members of Core For Life is to collaborate in organizational and operational aspects of core facility management and scientific support of life science research. The Core For Life alliance envisions exploring and using the potential of bundling core facility expertise across institutions and countries.

Website: www.coreforlife.eu
Interview: Nature Med. 2013, 19, 802

NGS-Platform in Vienna

Next-generation sequencing technology is rapidly evolving and transforming both basic biological science and biomedicine. In order to remain competitive, research organizations in Vienna need to actively invest in this technology. The main goal of the proposed Joint Technology Platform for Next Generation Sequencing in Vienna is to avoid unnecessary overlaps and invest into the newest NGS technologies and equipment in a coordinated and cost-efficient way.

MRI-Platform in Vienna

Since 2013 the VBCF, the AIT Austrian Institute of Technology, the University of Veterinary Medicine and the Medical University of Vienna are collaborating to create a translational research platform for preclinical MRI imaging with the best technical, financial and scientific solutions. Through the collaboration of the most experienced scientific institutions in preclinical imaging in the area of Vienna, we aim to intensify MR research and explore the potential of synergetic effects.


Both VBCF and ISTA, the Institute of Science and Technology Austria, have committed themselves to coordinate the purchase of expensive instruments, to increase capacity usage and to bundle core facility expertise across the institutions. In particular VBCF and ISTA will join forces in providing access to state-of-the-art electron microscopy to their research groups.


In 2012, VBCF established a collaboration with AGES, the Austrian Agency for Health and Food Safety. Both institutions operate large-scale plant growth facilities with complementary technical specifications. The goal of the collaboration is the realization of research and development projects in life science by mutual use of technical scientific infrastructure, personnel, know-how, and operating resources.

Correlated Multimodal Imaging Node Austria (CMI)

The Correlated Multimodal Imaging Node Austria (CMI) is the official Austrian Euro-BioImaging (EuBI) initiative. EuBI is a research infrastructure project of the ESFRI Roadmap that aims at creating a pan-European network of advanced imaging facilities with open access to state-of-the-art imaging technology for all European life scientists. CMI was founded as a consortium of eight universities and research institutes in and around Vienna to establish a state-of-the-art multimodal imaging hub and Austrian EuBI node. As a centralized imaging platform with both highly specialized and holistic imaging approaches, it offers basic and high-end cutting-edge imaging technologies, numerous multimodal correlated imaging pipelines, and various support services to researchers on a national and international level. Imaging techniques at CMI span the entire resolution range of interest for preclinical and biological studies, and provide complementary sample information about structure, function and molecular composition. The more than 30 imaging techniques allow both in- and ex-vivo imaging and molecular analysis on the same specimen.

Please find out more here www.bioimaging-austria.at.


CEITEC is a scientific centre in the fields of life sciences, advanced materials and technologies whose aim is to establish itself as a recognized centre for basic as well as applied research. CEITEC offers a state-of-the-art infrastructure and great conditions to employ excellent researchers. It is a consortium whose partners include the most prominent universities and research institutes in Brno, Czech Republic: Masaryk University, Brno University of Technology, Mendel University in Brno, University of Veterinary and Pharmaceutical Sciences in Brno, Veterinary Research Institute and Institute of Physics of Materials of the Academy of Sciences of the Czech Republic. CEITEC works closely with the Region of South Moravia and the City of Brno to help increase local innovative capacity.

Basic overview: 6 partners, 7 research programs, 61 research groups, 557 researchers (2015), 25.000 m2 of new laboratories, 10 core facilities

website: http://www.ceitec.eu/core-facility/list/


The Austrian Plant Phenotyping Network (APPN), initiated by VBCF PlantS in 2017, is an Austrian network of biologists, breeders, technology developers, imaging experts, statisticians and bioinformaticians working in the field of plant phenotyping.

The APPN aims to unite the Austrian plant phenotyping community in order to facilitate research collaborations, development of plant phenotyping infrastructure and methodologies, staff training, staff exchange and networking activities. The goal is to increase the visibility and impact of plant phenotyping and to facilitate communication between stakeholders in academia, industry, government, and the general public. The initiative intends to support the ESFRI-EMPHASIS project and to reach a legal status by the end of 2017.

Austrian Plant Phenotyping Network (APPN): www.appn.at


Masters Thesis in Brillouin microspectroscopy for biological/biomedical applications (full time, m/f)
We are inviting applications for a 12 Month Masters thesis at the VBCF Advanced Microscopy Facility to assist in the realization of a novel Brillouin Microspectroscopy platform.

Praktikum in Advanced Microscopy (2-6 months)
We have several optics & programming projects suitable for Biology/Biomedica, Computer-science, Physical-science, Physical-science/Mathematics students.


E-Mail: contact@@vbcf.ac.at

Phone: +43 1 796 23 24 7000

Metabolomics (METABOL)


Biological research in the post-genomic era has become largely dependent on technologies allowing the large scale analysis of biological systems and processes. One of these approaches, metabolomics, aims for the comprehensive and quantitative analysis of small biomolecules such as sugars, lipids or nucleic acids in biological samples. Together with genomics and proteomics, this emerging technology will allow to obtain a global view on biological systems and processes. The goal of the Metabolomics Facility is to deliver state-of-the-art quantitative and qualitative analysis of small organic compounds to users’ groups form both academia and industry. This task is provided by employing diverse methodologies based on liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS). 


The facility will offer targeted analysis of user-defined compounds by targeted LC-MS/MS, including the respective methods development. In addition, we will offer several panels of already characterized targets to assess changes in various biochemical pathways. This approach can be used for exploratory studies and will be extended in the future to untargeted analysis of samples.


Thomas Köcher
Head of Metabolomics Facility (METABOL)

Vienna Biocenter Core Facilities GmbH 
Dr. Bohr-Gasse 3, 1030 Vienna
+43-1-79044 - 4283


Contact: Andreas Sommerandreas.sommer@@vbcf.ac.at, Head of CF Next Generation Sequencing, +43 1 796 2324 7030


Duration: May 2017 – April 2020



  • Maria Kalyna, BOKU (principal investigator)
  • Andreas Sommer, VBCF (national partner)
  • Akila mayeda, Institute for Comprehensive medical Science (ICMS), Fujita Health University Division, Toyoake, Aichi, Japan

Funded by: FWF


Programme: FWF Joint projetcs Austria - Japan


Total project costs (Austrian part): 395.000 EUR


Project summary:


Alternative splicing allows one gene to produce more than one protein. In many genes, protein information embedded in regions called exons is interrupted by introns, which have to be removed. During alternative splicing, size of some exons changes, or exons can be skipped, therefore an altered protein can be produced. Tight control of alternative splicing has paramount importance as evidenced by linkage of abnormal alternative splicing to numerous human diseases including cancer. Exon skipping is the most frequent alternative splicing event in human; therefore studies of cancer-associated alternative splicing have been well focused on detection and characterization of this type of event.

Recently, we have discovered an unusual type of alternative splicing that we named exitron (exonic intron) splicing. Exitrons are internal regions of protein-coding exons and have features of both exons and introns. Strikingly, exitron splicing occurs in many important human protein-coding genes including those involved in cancer. Moreover, we found aberrant exitron splicing events in breast cancer. These findings suggest an overlooked role for exitron splicing in disease.

In this proposal, we aim to investigate a link between exitron splicing and cancer so far never explored in different tumours. To this end we will perform computational analyses of multiple data sets derived from various tumours to systematically identify abnormally spliced exitrons. We will confirm computational predictions by experiments with cancer cell lines. Next, using both computational and experimental means we will investigate splicing regulatory elements and splicing factors implicated in aberrant exitron splicing in cancer. Taken together, this project will advance our understanding of the mechanisms of alternative splicing and may lead to the development of novel cancer biomarkers and therapeutic targets.

VBCF User Survey 2016

Novel magnetic nanostructures for medical applications (MAGNAMED)

Duration: 4 years

Funded by: EU

Programme: Horizon 2020

Sub-programme: Marie Skłodowska-Curie Actions, Research & Innovation Staff Exchanges


·         UNIVERSIDAD DEL PAIS VASCO, Spain (coordinator),

·         IMG PHARMA BIOTECH SL, Spain

·         Nanovex Biotechnologies SL, Spain



·         UNIVERSIDADE DO PORTO, Portugal





·         The University of Texas at San Antonio (USA)

·         CEDENNA (Chile)





Total project costs: 846.000 EUR

Project summary:

MAGNAMED designs, fabricates, and assesses novel magnetic nanostructures (MNS) with unique spin configurations for innovative diagnostics and therapy techniques. An early stage detection and an effective treatment are keystones to reduce cancer mortality. Current clinical procedures fail to detect small concentration of tumoral biomarkers. Magnetic nanoparticles (MNP), like beads, have attracted much attention for their capability to improve cancer detection limits and treatment technologies. However, there are several limitations to the use of MNP. As an emerging alternative, MNS are being explored. Unlike MNP, MNS (e.g. nanodisks) present a planar shape with novel properties for diagnosis: high magnetic moment and large size, which can significantly improve the sensor sensitivity, and for therapy: due to their planar shape, alternate magnetic fields provoke a magneto-mechanical action on the cell membrane that triggers cell death. The efficiency of MNS in these two medical applications has not been investigated yet for MNS at the nanometer scale.

The challenge of this project is to produce MNS with nanometer dimensions suitable for medical applications. Several lithography techniques will be used to fabricate MNS in vortex and antiferromagnetic spin configurations covering a broad size range (40 to 4000 nm). After functionalization, MNS will be exploited in:

(i)                  Diagnostics, using giant magnetoresistance (GMR) sensors for the detection of tumoral biomarkers (dermicidin and carcinoembryonic antigen), and

(ii)                Therapy, effectiveness of tumoral cell annihilation by the magneto-mechanical action of MNS will be evaluated in vitro assays of melanoma and colorectal cancer cells.

MAGNAMED is a cross-sectoral and interdisciplinary project involving Physics, Chemistry and Medicine. Findings will have a medium-term impact on the European strategy for early stage detection of cancer and a long-term impact on the development of novel and groundbreaking therapeutics techniques.

Brillouin Light Scattering Microspectroscopy for Biology and Biomedical Research & Applications

Contact: Kareem Elsayad, Head of CF Advanced Microscopy, +43 1 796 2324 7110


Duration: March 2017 – February 2021


Partners: VBCF (Action main Proposer), 28 other proposers from 11 countries


Funded by: EU


Programme: COST


Total project costs: ca 130.000 EUR/year


Project summary:

The action “Brillouin Light Scattering Microspectroscopy for Biological and Biomedical Research & Applications” (BioBrillouin), will establish a collaborative network of leading researchers and instrument developers working in the field of Brillouin Light Scattering Spectroscopy (BLSS) applied to the life sciences and health related problems. BLSS uses visible or infrared light from a laser source(s) to probe the mechanics of a material through light scattering from thermally induced acoustic modes, or phonons. It gives access to the viscoelasticity and structure of matter in a nondestructive contactless way. When coupled to optical (confocal) microscopy, it has proven to be particularly well suited for biomedical applications. Though an established tool in condensed matter physics, only more recently has BLSS seen promising applications in the life sciences and medical diagnostics. This can largely be attributed to advances in instrument (spectrometer) design coupled with increasing interest in the biomechanics of cells and tissues and their relation to disease, underlying genetics and biochemistry. Unlike other mechanical and rheological measurement techniques, BLSS probes mechanical properties in the GHz frequency range, and thus offers a new ‘window’ for the investigation of microscopic scale biomechanical information. There are now a significant and increasing number of researchers actively working in BLSS for biomedical research in Europe. It is the aim of this COST action to bring together, for the first time, the diverse community working in the field, which includes instrument developers, physicists, chemists, biologists and clinicians, with the core aim to stimulate collaboration, promote technological advancement and pave the way towards routine life science research and clinical applications.

FEM tech Praktika for Female Students 2016

Funded by: BMVIT, via FFG

Duration: 1 – 6 months

Programme summary:

FEMtech fellowships for female students aims at initiating their career in the field of life sciences and technology (research, technology and development). The students get overview of the professional work in a company or at a research organization and get the first personal experience with research & developmental activities.

For the overview of the FEMtech fellowships 2016 see the table below:

Project acronyme


Core Facility


Duration (months)

Funding (EUR)


Katharina Keuenhof

Electron Microscopy

Thomas Heuser



Cancer Metabolomics

Anna Schoeberl


Thomas Koecher



Medical Brillouin

Franziska Gantner

Advanced Microscopy

Kareem Elsayad



MRI of glioblastoma

Raphaela Hoefl

Preclinical Imgaging

Jelena Zinnanti



MRI of glioblastoma

Cornelia Granl

Preclinical Imgaging

Lydia Zopf



Data analysis

Alicia Serrano Drozdowskyj

Bioinformatics & Scientific Computing

Attila Gyenesei



LSFM Internship

Angela Koffler

Advanced Microscopy

Edmundo Sanchez



BEVS Optimization

Sarah Meitz

Protein Technologies

Peggy Stolt-Bergner



Protein Tracking

Barbara Wolmuth

Strategic Information Management

Thomas Micheler



HT plant phenotyping

Stefanie Koemeda

Plant Sciences

Jakub Jez



RNAi line genotyping

Anna Pap

Vienna Drosophila Resource Center

Lisa Meadows




Bettina Sajtos

Preclinical Phenotyping

Sylvia Badurek



preclin. phenotyping

Lejla Mastalic

Preclinical Phenotyping

Sylvia Badurek












Creating synergies between research infrastructures to stimulate innovation in the cross-border region

Contact: Lada Fialova, Grant Manager, +43 1 796 2324 7013

Duration: 01. 09. 2016 – 31. 08. 2019

Partners: VBCF, ISTA Austria, CEITEC Masaryk University, Czech Republic, CEITEC Brno University of Technology, Czech Republic, Faculty Hospital of St. Anne, Czech Republic

Funded by: ERDF (European Regional Development Fund)

Total project costs: 1 495 000 EUR

Project summary:

Life sciences and technology rely increasingly on support from research infrastructures with specialized equipment and highly-skilled experts, and this trend is increasing and inevitable. The project contributes to the joint challenge of the cross-border region “Research and innovation” through creation of new synergies to increase institutional capacities.

The focus of the project will be on exploiting the potential of synergistic collaborations of the cross-border research infrastructures (RI) on the technology and management levels. The results of these collaborations will increase the quality and range of provided RI services, development of new applications and devices, and expand access to RIs to users throughout the cross-border region. The project will coherently contribute to development of the regional research and bio- and nanotech sector through innovation of RI by the offering of top innovative services, which will increase the region’s competitiveness in research. 

The two most prominent centers operating biomedical and technology RI in the AT – CZ cross-border region are Vienna Biocenter Core Facilities, GmbH in Vienna (VBCF) and Central European Institute of Technology in Brno (CEITEC). We have analysed instrumentation and expertises of the matching RIs and identified major obstacles and opportunities specific for these cross-border region RIs that need to be tackled and exploited, respectively, to boost the quality of research and services performed. The primary target groups will be researchers, RI operators, and biotech and nanotech companies.  The main outputs will be:

  • Improved knowledge on managing RI and expertise in providing cutting-edge services
  • Innovated research devices and services through joint use of cross-border complementary equipment
  • Enabled access of RI for external users from CZ-AT programme region
  • Increased involvement in the use of the RI by users coming from less-urbanised areas  

These outputs will be reached through RI staff exchange and trainings, innovative joint research projects taking advantage of complementary cross-border expertises, and workshops and an open access program to promote these services. These actions could not take place without cross-border cooperation, as they rely on infrastructure and expertise at each site that cannot be replicated at the other. This collaboration represents a unique opportunity to create a competitive advantage in the cross-border region. By taking other partners on board, namely FNUSA-ICRC and IST Austria we want to extend the close cooperation between VBCF and CEITEC to these institutes as well.

SISY - Sample Information SYstem

SISY is a database webframework which was developed by the SIM team of VBCF. The system offers a solution for organizing and tracking any sample processed in a facility or scientific group. The inventory feature of SISY helps lab teams to keep an overview about the sample storage and enables lab members to find their samples easily.

SISY is the root project of SIMs Sample Information Systems and contains currently of following 3 subprojects:

  • SISYcore
    the core for all SISY projects which contains all generic model and controller files. The database strucuture of the system is defined in SISYcore.
  • SCCF LIMS - Stem Cell Core Facility Lab Information System
    is a sample information system for the Stem Cell Core Facility (SCCF) of IMBA.
  • iMOBS -  integrative Management of Biological Samples
    is a joint project of IMP (group Zuber, group Obenauf) and VBCF (facility SIM) to administrate samples of scientific groups at IMP/IMBA.


The current version of SISY offers following features:

Sample Management

  • Specification / Implementation Sample ID (find standardized names)
  • Specification sample data (basic and additional information)
  • Create/Update/Delete sample
  • Import sample data using upload feature (csv file)
  • Handling of sample copies (=vials)
  • Sample tracking (status changes, passage numbers, sample history)

Inventory Management

  • Implementation of freezer / tower / shelf / position
  • Update freezer information
  • Assign sample to freezer position
  • “Batch entry” assign multiple samples to multiple freezer positions
  • Search for next free position
  • Simple visualization of a box
  • Freezer tracking (with date, user, position, action)

Label Management

  • Print feature for labels
  • QR codes to identify samples/vials
  • Different label sizes for different purposes (tubes, plates)

User Management

  • Connection to local user management system (LDAP, MS Active Directory)
  • Simple user/role/group administration (Create/Update/Delete)
  • Authorization system (Sample/Group)
  • Permission system for different data types (samples, vials, freezer, boxes, ..)


  • Overview Samples / Freezer Positions



SCCF LIMS - SCCF Lab Information System

The SCCF LIMS project is a cooperation of IMBA and VBCF.

The database webapplication consists of 3 main parts:

  • SCCF JIRA – the user frontend of the system (frontend for customers)
  • SCCF LIMS – the platform for SCCF lab members (frontend for users)
  • SISYcore - the data storage of the application (controller, database/PostgreSQL)


Here are some screenshots of SCCF LIMS ...

Main Page
Sample Search
Sample Detail
Inventory Management
Sample Action I
Sample Action II




iMOBS - integrative Management of Biological Samples

iMOBS is a joint project of IMP (group Zuber, group Obenauf) and VBCF (facility SIM). The goal of this project is the development of a web-based database application to administrate samples of scientific groups at IMP/IMBA.

The database webapplication consists of 3 main parts:

  • iMOBS – the platform for scientific groups of IMP (frontend)
  • SISYcore - the data storage of the application (controller, database/PostgreSQL)


Here are some screenshots of iMOBS ...

Login Page
Main Page
Sample Search
Sample Details
Browse Inventory
Search Inventory




Hardware supported by SISY project

Currently following hardware components are supported by SISY projects ...

Microsoft Surface
Toshiba B-FV4T
Toshiba B-EX4T
Gryphon I GBT4400 2D




Technical Specification

Supported browsers ...

  • Chrome 51+
  • Firefox 46+
  • Edge 25
  • Internet Explorer 11

Technologies used ...

  • Java SDK 1.8.0_111
  • Tomcat 8.5.15
  • Postgre SQL 9.4.1212
  • Spring Core 4.3.9
  • Spring Security 4.1.4
  • Spring Data 1.10.11
  • Hibernate Core (+ Entity Manager) 5.0.12
  • Hibernate Persistence JPA2 1.0.0
  • JSTL 1.2
  • Apache Tiles 3.0.1




Join the SISY project?

SIM Team (Thomas, Barbara, Bernhard, Jan and Florian)

Contact me ...

Thomas Micheler

CIO | Core Facility Head SIM

+43 664 80847 7130