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Phd Student: Machine Learning in Plant Regulatory
Il y a 5 mois
**PhD student: Machine learning in plant regulatory genomics**:
- Employer- VIB- Location- Ghent- Closing date- 2 Jul 2024- Discipline
Life Science
Job Type
Research Assistant
Employment - Hours
Full time
Duration
Permanent
Qualification
Professional certification
Sector
Academia- You need to sign in or create an account to a job.
- Job Details
- Company
**Job Details**:
- Together with your colleagues in the Vandepoele lab, sharing complementary expertise in plant biology, genomics, and informatics, you will focus on **characterizing the regulatory sequences driving context-specific gene expression in different organs, cell types, and stress conditions**. Experimental validation of your computational results will be performed through collaboration with wet lab colleagues in the VIB-UGent Center for Plant Systems Biology.**Relevant publications**
- Obtaining genetics insights from deep learning via explainable artificial intelligence. Novakovsky G, Dexter N, Libbrecht MW, Wasserman WW, Mostafavi S. Nat Rev Genet. 2023 Feb;24(2):125-137. doi: 10.1038/s41576-022-00532-2
- Predicting transcriptional responses to heat and drought stress from genomic features using a machine learning approach in rice. Smet D, Opdebeeck H, Vandepoele K. Front Plant Sci. 2023 Jul 17;14:1212073. doi: 10.3389/fpls.2023.1212073
- MINI-EX: Integrative inference of single-cell gene regulatory networks in plants. Ferrari C, Manosalva Pérez N, Vandepoele K. Mol Plant. 2022 Nov 7;15(11):1807-1824. doi: 10.1016/j.molp.2022.10.016
- Charting plant gene functions in the multi-omics and single-cell era. Depuydt T, De Rybel B, Vandepoele K. Trends Plant Sci. 2023 Mar;28(3):283-296. doi: 10.1016/j.tplants.2022.09.008
Profile
- **Essential**
- You obtained excellent grades in your bachelor and MSc degree (i.e., you belong to the top 25% of your cohort).
- Good programming (Python) and Linux/Unix/command-line skills are a must.
- You have a good understanding of molecular biology and recent RNA and DNA-based -omics profiling methods.
- You have good communication and writing skills and have an excellent knowledge of written and spoken English.
- You are highly motivated, self-critical, you work with rigor, and you work accurately.
- You combine being a team player with a strong sense of autonomy and responsibility.
**Desirable but not required**
- Experience with machine learning (e.g., Scikit-learn/PyTorch/Tensorflow/Keras) is a plus.
- Experience with explainable AI (e.g., SHAP) is a plus.
- Experience with high-performance computing, software containers is a plus.
- Knowledge about plant biology/genomics is a plus.
- Experience with software development tools (e.g., GIT/Nextflow) is a plus.
We offer
- An intellectually stimulating, international and multi-disciplinary research environment
- Access to state-of-the-art tools and (CPU/GPU) infrastructure
- High-quality training to develop hard and soft skills (VIB and UGent Doctoral Schools)
- Opportunities to participate in (inter)national workshops and scientific conferences
- A competitive salary including benefits
The VIB-UGent Center for Plant Systems Biology is a world-leading science institution on the Techlane Campus in Ghent, Belgium. Ghent University is among the top 100 global universities according to several international rankings.
Tentative starting date: August 2024 (to be discussed).- We look forward to welcoming you to our team at the VIB-UGent Center for Plant Systems Biology
- ***
**Company**:
**Company info**
- Website-
- Telephone- 09446611- Location- Rijvisschestraat 120
- Zwijnaarde
- Belgium
- 9052
- BE
