Lab News

Welcome to Xiaojing

Xiaojing received her Ph.D. from Weill Cornell Graduate School of Medical Science in 2020, working with Dr. Scott Keeney on the mechanism to regulate meiotic...

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Xiaojing received her Ph.D. from Weill Cornell Graduate School of Medical Science in 2020, working with Dr. Scott Keeney on the mechanism to regulate meiotic DSB formation. Xiaojing joined the Corn Lab in March 2021 with interests in studying DNA damage repair and implementation of therapeutic gene editing.  

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Welcome to Danielle

Danielle received her Ph.D. from Brandeis University in 2021 where she worked with Dr. James Haber to characterize the mechanisms of gene editing via single...

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Danielle received her Ph.D. from Brandeis University in 2021 where she worked with Dr. James Haber to characterize the mechanisms of gene editing via single strand template repair. Danielle joined the Corn lab in April 2021 and her interests lie in further understanding the mechanisms of DNA damage and utilizing these insights to develop tools to edit the genome.

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Moritz awarded a PhD fellowship

Moritz was awarded a Boehringer Ingelheim Fonds (BIF) PhD Fellowship for his project to understand cell type-specific DNA repair preferences during genome...

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Moritz was awarded a Boehringer Ingelheim Fonds (BIF) PhD Fellowship for his project to understand cell type-specific DNA repair preferences during genome editing. The Boehringer Ingelheim Fonds supports the most talented young researchers worldwide whose PhD or MD projects are aimed at experimentally elucidating basic phenomena of human life. Congratulations to Moritz!

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Welcome to Elia

Elia received his Bachelor’s degree in Biology from ETH Zurich in 2020. He joined the Corn Lab as a Master student in Molecular & Cellular Biology...

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Elia received his Bachelor’s degree in Biology from ETH Zurich in 2020. He joined the Corn Lab as a Master student in Molecular & Cellular Biology in March 2021. His research interests include blood diseases, genome engineering, functional genomics, DNA repair mechanisms and CRISPR based research.   

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Welcome to Alexandra

Alexandra received her Bachelor’s degree in 2018 from the Technical University (TU) of Darmstadt. In February 2021 she joined the Corn Lab and is currently...

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Alexandra received her Bachelor’s degree in 2018 from the Technical University (TU) of Darmstadt. In February 2021 she joined the Corn Lab and is currently investigating separation-of-function mutations of several genes involved in the Fanconi Anemia (FA) pathway.

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Welcome to Diego

Diego López León received his Master’s degree in Biomedical Sciences from the Faculty of Medicine at the University of Berne in 2013. In his Master thesis, ...

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Diego López León received his Master’s degree in Biomedical Sciences from the Faculty of Medicine at the University of Berne in 2013. In his Master thesis, he focused on bone marrow stromal cells and their role in CML in the lab of Prof. Adrian Ochsenbein at the DKF/ Inselspital Berne. After that, he worked as Research Assistant at the University of Fribourg, exploring the biology of cytotoxic T-cells and cytotoxic proteins against pathogenic bacteria. Diego joined the Corn lab as a technical expert in February 2021, working on HSCs gene editing. His research interests include gene editing on monogenic diseases, as well as the potential use of CRISPR/Cas9 system to treat cancer.

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Welcome to Sebastian

Sebastian joined the Corn lab as a PhD student in March 2021. He received his MSc in Biochemistry from ETH Zurich in December 2020 with his work on the therapeutic...

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Sebastian joined the Corn lab as a PhD student in March 2021. He received his MSc in Biochemistry from ETH Zurich in December 2020 with his work on the therapeutic potential of CRISPR Base- and Prime-Editors for the genetic disease Fanconi Anemia (FA).

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PnB Designer – fast help with prime and base editing

The Coronavirus lockdowns this spring disrupted many projects and students. But when life gives you lemons, make lemonade. In our lab, almost everyone took...

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The Coronavirus lockdowns this spring disrupted many projects and students. But when life gives you lemons, make lemonade. In our lab, almost everyone took the stay-at-home orders as motivation to learn some coding. Sebastian Siegner, a Masters’ student at the time and now recently joined for a full Ph.D., had been working on proof-of-concept experiments for therapeutic base editing and prime editing. But he was frustrated with designing base editor gRNAs and newly-described prime editor pegRNAs by hand. So he used the lockdown to write PnB Designer, which is a fast and scalable helper to design your prime and base editing experiments. Check out the paper in BMC Bioinformatics.

PnB designer can be used to design base editing gRNAs and prime editing pegRNAs in both single-edit and batch mode. You can design against arbitrary DNA sequences (copy/paste your sequence as input), or you can enter genomic coordinates of your favorite gene in your favorite genome. Several species are currently supported, from human to plant. For base editors, just choose which nucleotide change you want to make and the software will take into account both the mutation and editing window to figure out the best editor to use. For prime editing, you can test all kinds of reverse transcriptase template (RTT) and primer binding site (PBS) lengths with a click of a button. The output is a table of possible gRNAs/pegRNAs, ordered by a heuristic score.

Sebastian tested PnB Designer by designing pegRNAs to model most of the human disease-associated mutations in ClinVar using prime editing. He even varied RTT and PBS length for each of these 96,000+ mutations, figuring out good parameters to keep pegRNAs at a reasonable length while still modelling ~80% of all variants.

This was a challenging but exciting side-project for Sebastian’s Masters’ degree. He wrote PnB Designer independently during the lockdown, and the rest of the lab acted as beta testers to provide suggestions. Congrats to Sebastian on your first paper, which is already being used by several people in the Zurich area. PnB Designer is completely free to use and is hosted by the Functional Genomics Center Zurich.

 

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Congratulations to Mandy on the ETH Pioneer Fellowship

Mandy has just been awarded the Pioneer Fellowship which will allow her to transform her fundamental research into a startup focused on new treatments for ...

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Mandy has just been awarded the Pioneer Fellowship which will allow her to transform her fundamental research into a startup focused on new treatments for blood disorders. The Pioneer Fellowship is hosted by the ETH Innovation & Entrepreneurship Lab.

 

 

 

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Welcome to Kazuto Yoshimi who joined the lab as an academic guest

Kazuto is an Assistant Professor at the University of Tokyo in Japan. He received the JSPS grant for the Promotion of Joint International Research to study ...

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Kazuto is an Assistant Professor at the University of Tokyo in Japan. He received the JSPS grant for the Promotion of Joint International Research to study mechanisms of CRISPR-Cas3 mediated genome editing in human cells. He joined the Corn lab in November 2020 and his stay for the research is scheduled for a period of 12 months.

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Questions and/or comments about Corn Lab and its activities may be addressed to:

JACOB.CORN@BIOL.ETHZ.CH

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