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Natalie Stanford
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We are running a de.nbi workshop in May on the occasion of the 10th
anniversary of SABIO-RK (

The workshop also provides introductions to COPASI ( and to SEEK, a data- and model management system for life sciences

Registration is open until 9th of May: 

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For those of you interested in data and model management in interdisciplinary life-sciences. Write a blog post, work with cool people (like me). Go on...we'll have fun!

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Interested in data and model management in life-sciences? Join our webinar series (details below) 
FAIRDOM webinars – facing your data management challenges with you!

Are you a student, researcher, project investigator, lab manager, institution, publisher, data provider or anyone else interested in data and model management in interdisciplinary life-sciences?

Join our new webinar series launching Mon 25th Jan 2pm-2.45pm GMT. Our guest speaker for the first session will be Steven Wiley.

To find our more about the webinar visit our webinar page.

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Internship - Analysis of single cell transcriptomes for epicardium-derived vascular tissues

We are looking for a Master student to analyse the transcriptomes of single cells within the context of cardiac regenerative medicine. The project is part of a collaboration between the group of Sanjay Sinha, from the Stem Cell Institute, and the group of Nicolas Le Novere, from the Babraham Institute, both located in Cambridge, UK. Most of the work will take place at the Babraham Institute, although it is anticipated that the student will spend time in the Sinha lab on a regular basis.

The epicardium has been shown in animal models to produce coronary vascular smooth muscle cells and cardiac fibroblasts but it is unclear whether epicardium is also able to supply coronary endothelial cells and cardiomyocytes. The team of Sanjay Sinha has the capability to generate human epicardium in vitro from ES and IPS cells. Characterising this engineered epicardium and its differentiation potential is important to understand the development of cardiac vessels and also provide material for regenerative medicine.

Using RNA-Seq data from bulk tissues and single cells, the student will help to compare the engineered epicardium to embryonic and adult epicardium harvested from human samples. They will characterise and compare the different cell subpopulations and seek specific markers.

Iyer D, Gambardella L, Bernard W, Serrano F, Mascetti V, Pederson R, Talasila A, Sinha S. Robust derivation of epicardium and its differentiated smooth muscle cell progeny from human pluripotent stem cells. Development 2015; 142: 1528­‐41
Cheung C, Bernardo AS, Pedersen RA and Sinha S. Directed differentiation of embryonic origin-specific vascular smooth muscle subtypes from human pluripotent stem cells. Nature Protocols 2014;9:929-38

We are looking for a motivated bioinformatics master student, who likes team work and interact with both experimental and computational biologists. Good knowledge of molecular and cellular biology is essential. A background in bioinformatics is required. If possible, the student will have had training with R and some exposure to the analysis of next generation sequencing data and differential expression analysis. They will have access to a compute farm and familiarity with Linux environment is necessary.  

The duration of the internship is anticipated to be between 4 and 6 months.

For more details, contact Nicolas Le Novere,

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How good are you at guesstimating correlation coefficients from scatter plots? Test yourself with this game made by one of our group members Omar Wagih.   

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