Research

Camilla Ryan

Bioinformatician
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Profile photo of Dr Camilla Ryan

Biography

Personal Pronouns: She/Her

Contact details:

camilla.ryan@earlham.ac.uk

  • +44 1603 450 832

ORCiD

 

 

I am a core funded postdoctoral researcher working in the De Vega group and I specialise in bioinformatics.

Currently I am working on the genome assemblies for Urochloa decumbens, a tropical forage, and red clover (Trifolium pratense). The aim is to use the latest technology to generate chromosome-level genome assemblies that can be used to construct pangenomes.

These pangenomes will allow us to study the different plant populations in greater detail enabling the genetic analysis of complex traits and efficient breeding.

My previous research has centred around the application of genetic and genomic data to understand and conserve biodiversity. These research themes were key in my PhD project ‘Better tools, better resources, better conservation: Integrating genome data into the conservation of the pink pigeon Nesoenas mayeri’ (joint EI and UEA student).

During this project I applied whole genome sequencing to understand the levels of genomic diversity within captive and wild pink pigeon population. I also developed software to identify individuals suitable for genetic rescue using only studbook data and software to process RAD sequencing data.  

Over the course of my career I have also studied African plants, Samango monkeys, Ryeland sheep, Grevy’s zebra and ancient DNA.

 

NBRI

Thomas Brabbs

Senior Scientist
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Biography

Contact details:

  • +44 1603 450 928

thomas.brabbs@earlham.ac.uk

ORCiD

 

I am a senior scientist in the Technical Genomics Group. I develop methods and workflows for liquid handling automation of genomics and nucleic acid extraction. These have included automating LITE, which is a low-cost genome sequencing technique, and a stand-alone magnetic bead cleanup method. I also provide technical support to other team members when using the liquid handling robots.

Before joining the team, I worked as a postdoctoral researcher in Anthony Hall’s group at EI developing new methods for hexaploid wheat genomics research and previously to this as a postdoctoral researcher at KeyGene N.V. where I developed a cost-effective DNA methylation screen of large plant populations. I completed a PhD at the University of York where I characterised the role of the Arabidopsis MORC6 in the RNA-directed DNA methylation pathway.

Event Scientific training

Software Carpentry Workshop 2017

Our goal is to help scientists become more productive by teaching them basic computing skills like program design, version control, testing and task automation.

Start date: 26 April 2017
End date: 27 April 2017
Time: 08h00 - 17h00
Venue: Earlham Institute
Organiser: Emily Angiolini
Registration deadline: 21 April 2017
Cost: £60.00

About the event

Important information
Please note, you will be required to bring your own laptop for the purposes of this workshop.

What is this workshop about?
Our goal is to help scientists become more productive by teaching them basic computing skills like program design, version control, testing and task automation. In this two-day bootcamp, short tutorials will alternate with hands-on practical exercises. Participants will be encouraged both to help one another, and to apply what they have learned to their own research problems during and between sessions.

What are the objectives of the course?
You will learn to:

  • use the shell to do more in less time
  • automate your tasks and pipelines
  • write structured programs
  • use Git to manage and share information
  • how (and how much) to test programs

Target Audience
The course is aimed at researchers in the life science and computational science disciplines at all career stages. We particularly encourage students and post-doctoral scientists to attend, but the course is open to everyone.

Prerequisites
This is aimed at trainees with very little or no prior knowledge of programming.

Register today.

Registration deadline: 21 April 2017

Participation: First come, first served

Event Science

BBSRC UK Multiscale Biology Network Meeting

The aim of this workshop is to bring together key experts and early-stage scientists working on host-microbe interactions, including pathogen infections, commensals and microbiome level studies.

Start date: 24 April 2017
End date: 25 April 2017
Time: 09h30 - 12h30
Venue: Earlham Institute
Registration deadline: 31 March 2017
Cost: Free

About the event

The aim of this workshop is to bring together key experts and early-stage scientists working on host-microbe interactions, including pathogen infections, commensals and microbiome level studies, to share novel scientific ideas on the multiscale investigation of host-microbe interactions and to provide an exciting opportunity to establish and improve cross-disciplinary and UK-wide collaborations.

After kick off with three keynote speakers on current challenges, the program provides structured study groups to discuss

1) novel methodological approaches;

2) potential future projects requiring participants from different disciplines;

3) the best ways to get funding for such multi-disciplinary projects. We will facilitate these goals with short presentations and brainstorming opportunities in coordinated team works, and with panel discussion with representatives of key relevant funding agencies and charities.

Detailed program is coming soon.

Register today.

Registration deadline: 31 March 2017

Participation: Open to all

Event Science

2nd Interdisciplinary Signaling Workshop (ISW)

A four-day workshop designed to promote interdisciplinary collaborations and networking between cell signaling researchers from many different fields and backgrounds.

Start date: 17 July 2017
End date: 21 July 2017
Time: 08h00 - 17h00
Venue: Hotel Visegrád, 2025 Visegrád, Rév u. 15., Hungary
Registration deadline: 31 May 2017
Cost: €450 - 1140, depending on registration date, career stage, and discounts

About the event

A four-day workshop designed to promote interdisciplinary collaborations and networking between cell signaling researchers from many different fields and backgrounds, in particular between bench and computational. The event follows on from the successful 1st Interdisciplinary Signaling Workshop organised in Visegrad in 2014.

Morning sessions include talks from invited experts and selected from other participants. These are complemented by afternoon and evening sessions of small-group project work, social and cultural activities, and poster sessions. The workshop brings together participants to work and socialise in the beautiful surroundings of the Renaissance city of Visegrad, using sessions and activities specifically designed to promote interactions between participants. This provides a special and unconventional context for building bridges between researchers from different disciplines, and supporting the professional development in particular of early career researchers in this field to help them become more adept at working in and building interdisciplinary collaborations.

Register today.

Registration deadline: 31 May 2017

Participation: Open to all

Event Science

Bioinformatics and Wheat Genomics workshop

Under the Researcher Links scheme offered within the Newton Fund, the British Council and South African National Research Foundation will be holding a Bioinformatics and Wheat Genomics workshop in South Africa.

Start date: 26 June 2018
End date: 28 June 2017
Time: 08h30 - 17h00
Venue: Worcester, South Africa
Enquiries:

wheatgenomics@jic.ac.uk

Registration deadline: 15 March 2017
Cost: Free (places limited)

About the event

What is the workshop about?

Under the Researcher Links scheme offered within the Newton Fund, the British Council and South African National Research Foundation will be holding a workshop on Bionformatics and Wheat Genomics in Worcester, South Africa on 26 – 28 June 2017. The workshop is being coordinated by Dr Diane Saunders and Dr Renée Prins, and will have contributions from other leading researchers who will act as mentors. We are now inviting Early Career Researchers (see application form for eligibility criteria) from the UK and South Africa to apply to attend this workshop.

All travel and accommodation expenses will be covered by the Newton Fund Researcher Links programme. Please see here for more details on the initiative and the eligibility criteria. If you fit the criteria please complete the application form which should be returned to wheatgenomics@jic.ac.uk before/on the deadline of 15th March 2017 (12h00 UK time).

You can also visit yellowrust.com

Target Audience

Early career researchers

Eligibility criteria

Application form

Register today.

Registration deadline: 15 March 2017

Participation: Open application with selection process

Event Scientific training

Train the Trainer

This course will provide you with the knowledge and practical skills to develop and deliver effective training.

Start date: 27 February 2017
End date: 01 March 2017
Time: 09h30 - 17h00
Venue: Earlham Institute
Enquiries:

training@earlham.ac.uk

Registration deadline: 14 February 2017

About the event

What’s the course about?

Effective training courses should be engaging, well-structured, and tuned to the needs of your trainees. There is a wealth of theory available to support the development and delivery of effective training; from learning styles and taxonomies of knowledge, to course structure and people skills. Understanding and utilising that theory and practicing those skills will help to ensure that you and your trainees both enjoy and draw the maximum benefit from your time together.

What will it cover?

Day 1 - Training theory

  • A definition of training
  • Building knowledge
  • Learning styles

Day 2 - Trainer skills

  • The traits of a trainer
  • Managing trainees
  • Giving feedback

Day 3 - Course design

  • From aims to assessment
  • Flipping and e-Learning
  • Getting feedback

Register today.

Registration deadline: 14 February 2017

Participation: Invite only

Research

Yuxuan Lan

Postdoctoral Research Scientist
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Profile photo of Yuxuan Lan

Biography

Contact details

  • +44 1603 450 001

yuxuan.lan@earlham.ac.uk

Yuxuan currently works in Wilfried Haerty’s group as a postdoc. Her work focuses on the analysis of long and short read data arising from single cell sequencing with the aim of characterising the impact of cellular heterogeneity (somatic mutations, different cell types) on gene and transcript regulation in mouse and human.

Previously Yuxuan was a postdoctoral research scientist in the Core Bioinformatics Group. Her focus was on single cell RNA-seq, including the development and running of data QC pipelines and data analysis, both with close collaboration with the Macaulay Group. She was also involved in data QC for the Technical Genomics at Earlham Institute.

She has also worked in Anthony Hall’s group, studying epigenetics in wheat; and in Richard Leggett’s group on Nanopore selective sequencing.

She has an undergraduate degree in Electronic Engineering, and a MSc and PhD in Computing Sciences. 

Before joining Earlham Institute, Yuxuan was a senior research associate at the School of Computing Sciences, University of East Anglia, working in area of computer lipreading, audio-visual speech processing and machine learning.

Event Science

Norwich Single Cell Symposium 2017

A day of talks and discussion on the development and application of new technologies to decode life at the single cell level.

Start date: 08 May 2017
End date: 08 May 2017
Time: 09h00 - 17h00
Venue: Earlham Institute
Organiser: Iain Macaulay
Enquiries:

training@earlham.ac.uk

Registration deadline: 23 April 2017
Cost: £40

About the event

Click here for our Single Cell Symposium 2019 event.

Developments in single cell genomics technologies have enabled the dissection of biological processes in unprecedented detail, with broad ranging applications in the study of microbial genomics as well as plant and human health and disease. Technologies enabling the analysis of 100s-1000s of single cells in individual experiments are becoming routine, and the diversity of techniques available to analyse the genomes, epigenomes and transcriptomes of single cells continues to increase at pace.

The Norwich Single Cell Symposium aims to bring researchers curious about single cell genomics together with external speakers presenting advanced single cell research, to highlight the developing single cell capabilities available at Earlham Institute and to act as a platform to catalyse future development and application of single cell genomics approaches in the region.

This one-day event will feature talks from external and internal speakers, covering topics including:

  • Technology development in Single Cell Genomics
  • Single Cell Genomics in Developmental Biology
  • Single Cell Genomics in Health and Disease
  • Applications of Single Cell Genomics in Plant Sciences
  • Analysis of Single Cell Genomics Data

Register today.

Registration deadline: 23 April 2017

Participation: First come, first served

Event Science

ELIXIR-UK Town Meeting

Learn more about the UK’s contribution to ELIXIR, the European Infrastructure for life science data.

Start date: 01 February 2017
End date: 01 February 2017
Time: 13h00 - 18h00
Venue: Jane Rogers Seminar Room, Earlham Institute
Organiser: Emily Angiolini
Registration deadline: 27 January 2017
Cost: Free

About the event

The meeting will present ELIXIR and its UK node ELIXIR-UK to a wide academic audience. ELIXIR’s aim is to ensure efficient and seamless data sharing across Europe and with the rest of the world. Its membership now comprises 19 member states and EMBL and it increasingly represents the major contributions each of them make to the life science data ecosystem (from human genetic and genomic data to agriculture-related resources). The aim of the meeting is to explain ELIXIR and ELIXIR’s vision, and describe some of the ongoing activities relating to training and plant data. The meeting will finish with a wide-ranging discussion and mixer session to help clarify, ask questions and develop links.

Register today.

Registration deadline: 27 January 2017

Participation: First come, first served