Peter Brazda, PhD

Peter Brazda, PhD

Postdoctoral Researcher

Princess Máxima Center for Pediatric Oncology

Biography

I am a biotechnologist by training with experience in molecular biological research. I have been involved in projects on both prokaryotic, mammalian and human systems in various international research groups.

During my PhD training, I applied advanced biophysical and live cell microscopy methods to investigate the dynamics of nuclear receptors during transcription regulation in eukaryotes.

Joining the TU Delft laboratory of prof. Nynke Dekker as a postdoctoral researcher was a continuation of this path in many ways. We were focusing the dynamics of the replication machinery in live bacteria. ‘Focusing’ is not an empty term here, as we applied cutting-edge super-resolution live cell microscopy to detect and follow the movement of single molecules. I initiated projects on helicase action in transcription-replication encounters.

Being trained in a lab with intense involvement in genomic research (from the nuclear receptor perspective) I became fascinated with large scale genomic methods; their potential in medicine and their rate of progress. Hence, I took the exciting opportunity to join the research group of prof. Henk Stunnenberg at Radboud University and learn/apply single cell transcriptomic profiling, a thriving field of molecular biology. The project we initiated on Pheochromocytoma (a rare adrenal tumor) is now being continued, along with new endeavours on pediatric Acute Myeloid Leukemia (AML) at the Prinses Máxima Center for Pediatric Oncology, the new home of the lab.

Interests
  • Single Cell Transcriptomics
  • Tumor Biology
  • Microscopy / Image Analysis
  • Single Molecule Biophysics
  • Data Science
Education
  • PhD in Molecular Biology, Biophysics

    University of Debrecen

  • MSc in Biology / Biotechnology

    University of Debrecen

Interests

microscopy
molecular biology
tumor biology
data science
music
science outreach

Experience

 
 
 
 
 
Postdoctoral Researcher
Princess Máxima Center for Pediatric Oncology
Jun 2019 – Present Utrecht, The Netherlands
  • Single cell atlas of Pheochromocytoma
  • Transcriptional heterogeneity in pediatric AML
 
 
 
 
 
Postdoctoral Researcher
Radboud University, Institute for Molecular Life Sciences
Jun 2017 – Jun 2019 Nijmegen, The Netherlands
  • Transcriptome profiling in Pheochromocytoma at the single cell level
  • Transcriptomic analysis of early innate immune events after pertussis booster vaccination
 
 
 
 
 
Postdoctoral Researcher
Delft University of Technology, Department of Bionanoscience
Apr 2015 – Jun 2017 Delft, The Netherlands
  • Accessory helicase (UvrD) action in E. coli replication-transcription conflicts with single molecule microscopy
  • The dynamics of E. coli replication termination (Tus) with super-resolution microscopy and large population genomics
 
 
 
 
 
Graduate Student (PhD)
University of Debrecen, Department of Biochemistry and Molecular Biology
Oct 2005 – Mar 2014 Debrecen, Hungary
  • Determination of dynamic properties of nuclear receptors (RAR, RXR, PPAR) during activation, dimerization, chromatin association and coregulator binding via (single-plane illumination) fluorescence correlation spectroscopy ((SPIM-)FCS) and large population genomics (ChIP-seq)
 
 
 
 
 
Undergraduate Researcher
University of Debrecen, Department of Biochemistry and Molecular Biology
Oct 2002 – Oct 2005 Debrecen, Hungary
  • Investigation of the effects of a novel retinoid-x receptor (RXR) antagonist ligand on transcriptional regulation

Publications

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(2022). Extensive patient-to-patient single nuclei transcriptome heterogeneity in pheochromocytomas and paragangliomas. bioRxiv.

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(2022). Longitudinal single-cell transcriptomics reveals distinct patterns of recurrence in acute myeloid leukemia. bioRxiv.

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(2021). Behavioral-transcriptomic landscape of engineered T cells targeting human cancer organoids. bioRxiv.

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(2021). Reprogramming of pro-tumor macrophages by hydroxychloroquine in an abdominally metastasized diffuse midline glioma. medRxiv.

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(2019). Identification and characterization of a novel anti-inflammatory lipid isolated from Mycobacterium vaccae, a soil-derived bacterium with immunoregulatory and stress resilience properties. Psychopharmacology.

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(2019). Simultaneous mapping of molecular proximity and comobility reveals agonist-enhanced dimerization and DNA binding of nuclear receptors. Analytical chemistry.

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(2019). Single cell transcriptome atlas of immune cells in human small intestine and in celiac disease. bioRxiv.

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(2017). Measuring In Vivo Protein Dynamics Throughout the Cell Cycle Using Microfluidics. The Bacterial Nucleoid: Methods and Protocols (Methods in Molecular Biology).

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(2014). Ligand binding shifts highly mobile retinoid X receptor to the chromatin-bound state in a coactivator-dependent manner, as revealed by single-cell imaging. Molecular and cellular biology.

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(2013). Activation enhances DNA-binding of RXR but not the number of binding sites as shown by FCS/ChIP-seq. EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS.

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(2011). Dissecting the role of coregulator exchange and chromatin binding in retinoic acid receptor (RAR) mobility by live cell FCS. EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS.

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(2011). Live-cell fluorescence correlation spectroscopy dissects the role of coregulator exchange and chromatin binding in retinoic acid receptor mobility. Journal of cell science.

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(2011). Retinoids enhance glucocorticoid-induced apoptosis of T cells by facilitating glucocorticoid receptor-mediated transcription. Cell Death & Differentiation.

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(2010). Building Protein Domain Based Composite Biobricks for Mammalian Expression Systems.

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(2009). Nuclear receptor activation viewed via mobility. ACTA PHYSIOLOGICA HUNGARICA.

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(2008). Conformation of the c-Fos/c-Jun complex in vivo: A combined FRET, FCCS, and MD-modeling study. Biophysical journal.

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(2007). A transzkripciós szabályozás dinamikus arca / The dynamic face of transcriptional regulation. Biokemia (in Hungarian).

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(2006). Peroxisome proliferator-activated receptor γ-regulated ABCG2 expression confers cytoprotection to human dendritic cells. Journal of Biological Chemistry.

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(2005). Characterization of a novel retinoid-x receptor antagonist, LG1208: K3-011P. The Febs Journal.

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