Tag Archives: bioinformatics

Symposium on Big Data in Mental Health


For anyone interested in data analytics, the BRC-MH at KCL and the Maudsley are organising a symposium on Big Data in Mental Health on July 23rd at ORTUS, Denmark Hill.

Talks will include Maneesh Juneja, Chris Hollis from MindTech, Will Spooner from Eagle Genomics and speakers from the University of Oxford, KCL and the SLaM.

More details available on the website: http://core.brc.iop.kcl.ac.uk/events/big-data-in-mental-health/

Registration on Eventbrite: https://www.eventbrite.co.uk/e/big-data-in-mental-health-biomedical-research-tickets-11667875931


Cancer Bioinformatics Jobs in London

Couple of London-based Bioinformatics positions available:

Senior Bioinformatician in the  Gene Function Team, Inst. of Cancer Research, Chelsea, London led by Professor Alan Ashworth.

The Gene Function Laboratory currently houses over 30 scientists and runs a wide-ranging portfolio of projects including basic cancer biology and drug development programmes. As part of these projects, the laboratory interacts with a diverse range of collaborators, contract research organisations, pharmaceutical companies and funding charities.

We are seeking an experienced and motivated Senior Bioinformatician to support high- throughput cell-based screening and Next Generation Sequencing based projects within the Breakthrough Centre. The successful post holder will perform statistical analyses and quality control reporting on screen data, using publicly available packages and commercial software to facilitate the prompt and efficient transfer of data into scientific publications. The postholder will also perform next generation sequencing data analysis including read alignment and variant calling.

Experience in the analysis of RNA interference or cell-based drug screens is essential, as is the ability to apply existing third-party tools to the analysis of Next Generation Sequencing and microarray data sets.

Applicants should hold a PhD or equivalent qualification in a relevant subject, have scripting experience in R and Perl and will ideally hold a post-graduate qualification in bioinformatics.

The starting salary will be in the range £40,725 – £43,119 p.a. inclusive and the position will be offered initially on a fixed-term contract of one year.

Informal enquiries are welcome and can be made to Dr Chris Lord (chris.lord@icr.ac.uk). Please note – this address is for enquiries only and you should not send your application to this email address; CV, pdf copies of your best 3 publications over the last 5 years and covering letter must be submitted online at http://www.icr.ac.uk/jobsearch. Job Ref. No. 1279843

Closing date: 16 October 2012

Postdoctoral Research Fellow Position available in Cancer Bioinformatics at  UCL Cancer Institute and CR-UK London Research Institute

A fellowship position is available in the UCL Cancer Institute and CR-UK London Research Institute in the Swanton laboratory
To study mechanisms of cancer genome instability, intratumour heterogeneity and drug resistance using genome wide cancer sequencing and trasncriptomic datasets in breast cancer, funded by the BCRF, building on recent work (Gerlinger et al New England Journal of Medicine 2012 and Yap and Swanton Science Translational Medicine 2012). Potential candidates will be expected to have an interest in oncology and translational research and be proficient in ‘R’ or equivalent and have a strong statistical background. Competitive London PDRF salary will be offered to the successful applicant.

Please make informal inquiries with a CV and covering letter to charles.swanton@cancer.org.uk

Bioinformatics PhDs at KCL

Bioinformatics / Clinical Informatics PhD Topics at the Institute of Psychiatry, King’s College London. Closing date for applications is 12/12/12

Contact corinne.farrugia@kcl.ac.uk for further details / application pack and see this website for more details of each project

  • Epigenetics and gene expression in Alzheimer’s
  • Investigating Unreported Adverse Effects of Psychiatric Drugs through Data-Mining of Electronic Health Records and Integration of Clinical and Genomic Data
  • Drug repositioning: the application of old drugs to new diseases/targets
  • Text mining and machine learning to identify temporal patterns in co-morbidity networks derived from clinical data
  • Integrative translational ‘omics with a special focus on mental health : bioinformatics analyses for large scale omic data integration, biomarker discovery, drug repositioning and screening for new therapeutic targets
  • A Multi-agent paradigm for Integrating Cellular Networks
  • Applying machine learning methods to develop predictive models of treatment success for patients with chronic fatigue syndrome
  • Biomarkers of pre-clinical Alzheimer’s disease

Imperial College Centre for Integrative Systems Biology and Bioinformatics Seminar Series

All are welcome to the following CISBIO seminars – venues as listed:

Monday Feb 13th, 4.30pm
7th Floor common room
Sir Ernst Chain Building – Wolfson Laboratories (formerly Biochemistry)

Dr Guido Sanguinetti,
University of Edinburgh

Latent switching models of transcriptional regulation

Abstract: I will review the use of a class of continuous-time models of transcriptional regulation. This consist of a system of (ordinary or stochastic) differential equations whose coefficients depend on a latent, discrete state Markov Jump process. The interpretation we will propose is that the DEs describe the dynamics of expression of a set of genes, while the latent processes describe activation states of transcription factor proteins. I will describe the approach to inference, and present results on a number of real data sets.


Monday 5th March, 4 pm
G34 Lecture Theatre, SAF (Sir Alexander Fleming) building

Dr Nick Le Novère
EMBL – European Bioinformatics Institute

This or that – Allosteric Calcium Sensors and Synaptic Plasticity


Monday 12th March, 4pm
G34 Lecture Theatre, SAF (Sir Alexander Fleming) building

Dr Mario Caccamo
The Genome Analysis Centre (TGAC)

Computational analysis of next generation sequencing (provisional title)


Monday 26th March, 4.30pm
Rm 122, SAF (Sir Alexander Fleming) building

Prof Jürg Bähler,
University College London

Quantitative Analysis of Fission Yeast Transcriptomes and Proteomes


21/02/2012 Translational Bioinformatics Seminar

BRC Methodology Collaboration: Translational Bioinformatics Seminar
21st Feb 12.30-17.00

If you would like to attend, please email comp-bio@kcl.ac.uk with subject “register”

Download Flyer

Lecture Theatre,
30th Floor, Tower Wing,
Guy’s Campus,
King’s College London,
London Bridge
London SE1 9RT


12.30: Buffet Lunch

13.00: Prof. Tom Coolen – What you see is not what you get: how sampling affects macroscopic features of biological networks

13.30: Dr. Davide Bacciu – Learning Bayesian Network skeletons with high-dimensional and large-sample size data

14.00: Prof. Alfonso Valencia – Computational challenges in Personalized Medicine

14.30: Tea Break

15.00: Dr. Eric Yang – Combining Disparate Clinical Datasets for Integrated Analysis

3.30: Dr. Paolo Vigneri – The Untouchables: mapping critical residues in the BRC-ABL catalytic domain to understand TKI resistance in Chronic Myeloid Leukemia

16.00: Prof. Peter Coveney – Computational Biomedicine: A Challenge for the Twenty-First Century

16.30: Dr. Nour Shublaq – Getting Personal through Translational Bioinformatics: The Future Now

17:00: Visit to local pub, or move to Lecture Theatre 1, New Hunt’s House, KCL (SE1 1UL) for the next talk in the King’s International Lecture Series: Prof. Mark Musen – Becoming a meta-physician: better clinical information for the future of healthcare


J. Craig Venter Inst are looking for a Cloud Systems Engineer:


The position requires a developer for deploying bioinformatics applications on cloud environments (EC2, Eucalyptus, Openstack), mostly coding against the cloud APIs but also having a strong foundation in Linux sysadmin skills in order to maintain JCVI’s private cloud cluster, and wiliness to join and contribute new ideas as part of a research team.

Linked Life Data

Linked Life Data is a platform for semantic data integration through RDF warehousing and efficient reasoning that helps to resolve conflicts in the data.