Master Thesis

vor 3 Monaten


Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

Contract limitations

limited contract
- Contact

**Your contact for any questions you may have about the job**:
Diversity and Inclusion

The UFZ has a strong commitment to **diversity** and actively supports **equal opportunities** for all employees regardless of their origin, religion, ideology, disability, age or sexual identity.

The UFZ

The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and the long-term protection of our natural resources.

The job

Chemical databases are vital in various scientific fields, including toxicology, pharmacology, and environmental science. These databases utilize a variety of chemical identifiers -such as CAS numbers, InChI, SMILES, DTXSID, and Norman SusDat ID- to catalog chemical substances. However, the diversity of these identifiers introduces significant challenges, including inconsistencies, ambiguities, and potential issues that complicate data integration and analysis.

In this Master's thesis, the primary goal will be to provide a graph database solution for the identifier problem. An initial step will involve analyzing potential issues resulting from diverse chemical identifiers to get familiar with the topic. Following this, the focus will shift to implementing the proposed solution, ensuring more accurate and consistent chemical data management.

Once the issues are understood and addressed, the next step will be to develop a knowledge graph that holds identifiers and names, which will then be stored in a graph database. Graph databases offer a powerful solution for modeling complex relationships and hierarchies among chemical identifiers, making it easier to manage and resolve any remaining ambiguities. The student will develop a graph database schema, example queries for resolving identifier-related issues, and document how to interact with the graph database using the usual neo4j browser interface (via Cypher).

The student will be based in the Bio-Data Science Group of the Computational Biology and Chemistry Department at the UFZ, collaborating with the database management team. The start date for the work is flexible, the position is expected to last for six months and will be supervised at the site in Leipzig.

Your tasks
- **Identifying and collecting inconsistencies, ambiguities** related to the diversity of chemical identifiers (e.g., DTXSID, Norman SusDat ID, InChI, CAS numbers)
- ** Developing a knowledge graph** (schema) of the selected identifiers and their relations
- ** Fill graph DB according to developed graph database schema** with data from various public sources
- ** Testing the issues** from the beginning for their solutions with the developed graph database, providing documentation and access to a browser-based interface to the graph DB

We offer
- Excellent supervision that supports your personal and professional development
- Exciting insights into the work of a leading research institute
- The chance to work in interdisciplinary, international teams and benefit from a wide range of perspectives
- The opportunity to contribute and actively shape your own ideas and impulses
right from the start
- Modern technical equipment and IT service to optimally support your work

**Profile**:

- Enrolled Master's student in Computer Science, Mathematics, Bioinformatics, or a related field
- Excellent programming skills in Python or R
- Strong interest in graph database technologies
- Experience with graph databases (e.g., Neo4j) are a plus
- Experience in database management and cheminformatics tools is beneficial
- Knowledge about chemical identifiers (e.g., CAS numbers, InChI) and their challenges is an advantage
- Independent and structured way of working
- Proficiency in English

Application deadline: 15.11.2024
- More information about jobs at the UFZ:
**Family Support****:
**International Office****:
**Accessibility****:
**Diversity, Equity & Inclusion**:


  • Master Thesis

    vor 3 Monaten


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Topic: Revealing the Hidden World of Nocturnal Pollinators through AI-enabled camera traps Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: Diversity and Inclusion The UFZ has a strong commitment to **diversity** and actively supports **equal opportunities** for all employees regardless of...


  • Leipzig, Deutschland Cell Therapy and Immunology Vollzeit

    **What you will do** For the joint Master Thesis, we aim for the selective functionalization of a carbon nanotube-based biosensor and investigation of the transistor characteristics upon exposure to liquid environments. This includes the optimization of functionalization routes for different probes and the study of surface properties. The device...

  • Master Thesis

    vor 1 Woche


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and...


  • Leipzig, Deutschland EXXETA Vollzeit

    **Bei Exxeta fordern wir das traditionelle Konzept von Beratung und Tech heraus. Über 1200 Kolleg:innen an verschiedenen Standorten schaffen jeden Tag gemeinsam digitale Lösungen, verändern Märkte und Mindsets - angetrieben von unserer Leidenschaft für Technologie, unserem Teamspirit und dem Drang, echten Impact zu schaffen. Hightech with a heartbeat...

  • Master Thesis

    vor 4 Monaten


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Topic: Automating Knowledge Capture: From Data Collection to Graph Database Storage Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: Prof. Dr. Jana Schor Bio-Data Science Group The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent...


  • Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in...

  • Master Thesis

    vor 3 Monaten


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Topic: Empowering AI Conversations with Chemical and Biodiversity Knowledge Graphs Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: Prof. Dr. Jana Schor Bio-Data Science Group The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent...

  • Master Thesis

    vor 3 Monaten


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Topic: Seamless Integration of Chemical and Biodiversity Data for Insightful Visuals Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: Prof. Dr. Jana Schor Bio-Data Science Group The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent...

  • Master Thesis

    vor 4 Monaten


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Topic: Developing a RAG-Powered LLM Chatbot: From Knowledge Graphs to Conversations Contract limitations limited contract - Contact **Your contact for any questions you may have about the job**: Prof. Dr. Jana Schor Bio-Data Science Group The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent...


  • Leipzig, Deutschland Cell Therapy and Immunology Vollzeit

    The Fraunhofer Institute for Cell Therapy and Immunology IZI researches and develops special problem solutions at the interfaces of medicine, life sciences and engineering. At Fraunhofer IZI, the Bioinformatics Unit is looking for a Master’s student to work on a thesis project at the Leipzig site. The group uses computer-aided methods combined with...


  • Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    Contact **Your contact for any questions you may have about the job**: Diversity and Inclusion The UFZ has a strong commitment to **diversity** and actively supports **equal opportunities** for all employees regardless of their origin, religion, ideology, disability, age or sexual identity. The UFZ The Helmholtz Centre for Environmental Research (UFZ)...

  • Master Thesis

    vor 2 Wochen


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and...

  • Master Thesis

    vor 2 Wochen


    Leipzig, Deutschland Helmholtz-Zentrum für Umweltforschung UFZ Vollzeit

    The UFZ The Helmholtz Centre for Environmental Research (UFZ) with its 1,100 employees has gained an excellent reputation as an international competence centre for environmental sciences. We are part of the largest scientific organisation in Germany, the Helmholtz association. Our mission: Our research seeks to find a balance between social development and...


  • Leipzig, Deutschland Deutsches Zentrum für integrative Biodiversitätsforschung (iDiv) Halle-Jena-Leipzig Vollzeit

    **Master Thesis**: **Topic: Revealing the Hidden World of Nocturnal Pollinators through AI-enabled camera traps**: **The job**: Plant-pollinator interactions are crucial for the pollination of most plants and play a vital role in maintaining biodiversity. While most research focuses on diurnal pollinators like bees and butterflies, moths (Lepidoptera) are...

  • Working Student

    vor 7 Monaten


    Leipzig, Deutschland SpinLab - The HHL Accelerator Vollzeit

    **SpinLab - The HHL Accelerator** supports entrepreneurial teams in growing and launching innovative companies. Located in Leipzig's inspiring Baumwollspinnerei, we offer startups access to infrastructure (co-working space and technology), coaching and mentoring, as well as our international network of successful founders, established market players and...