BioinformaticsOnline

The Wellcome Trust Sanger Institute leads the world in genomic research, with an expanding scientific programme dedicated to understanding gene function in health & disease.

Now is an exciting time for the study of human genetic variation. We are entering a new era in which genes responsible for common human diseases can be identified by testing several hundred thousand markers across the human genome and the variation in and around such genes can be examined in detail. As a world leader in human genomics and genome informatics, the Wellcome Trust Sanger Institute is now applying large-scale genotyping, sequencing and related technologies to the identification and study of genes underlying complex traits.

Rothamsted Research is the leading UK Research Institute focusing on the science underpinning the sustainability of arable crops and includes research on model plants such as Arabidopsis and the pathogens and insects that affect agricultural systems. An increasing amount of our research uses molecular genetic, genomic and metabolomic techniques. Because of recent strategic investments in crop science and bioenergy crop research, we are expanding our team of bioinformatics scientists in the Department of Biomathematics and Bioinformatics to take advantage of the increasing volume and complexity of data that is being collected.

We are looking for a Scientific Programmer to join us at the European Molecular Biology Laboratory – European Bioinformatics Institute (EMBL-EBI) at the prestigious Wellcome Trust Genome Campus in Hinxton, Cambridgeshire. We are a leading international provider of cutting-edge research, service and training in the field of Bioinformatics.

The Wellcome Trust Sanger Institute uses large-scale sequencing, informatics and analysis of genetic variation to understand gene function in health and disease and to generate resources of lasting value.

The Sanger website regularly takes in the order of 12 million hits each week and supports over twenty Sanger hosted websites.

As a web developer in the Web team you will be involved in maintaining this world class web service and ensure that the institute's data resources are made available across the world via the numerous Sanger hosted websites. The successful candidate will work as part of the team and be involved in the ongoing development and implementation of high quality, user friendly web interfaces to support the scientific web services.

SCRI is Scotland’s leading institute for research on plants and their interactions with the environment, particularly in managed eco-systems. Our mission is to conduct excellent research in plant and environmental sciences. Our vision is to deliver innovative products, knowledge and services that enrich the life of the community and address the public goods of sustainability and high quality and healthy food.

I'm just starting to learn and use R (and BioConductor) for quite a fair chunk of analysis on my PhD. I'd definitely recommend R if you need to do any major stats/maths work.

However, when setting things up on Ubuntu, I came into a few problems here and there, so I thought I'd just share the workarounds with you all in case someone else starts to struggle...

This is a repost and update of an old blog entry on one of my personal sites. I'm planning on cleaning out the site sometime soon, so I thought this would make a good new home for the tutorial...

This quick walk-through will help you to install the PostgreSQL database server and the PgAdmin administration application on Ubuntu Linux, and also set up the server so it allows access to other PC's on your network.

If you're not sure what GnuPlot is, here's a quick introduction, courtesy of gnuplot.info:

Gnuplot is a portable command-line driven interactive data and function plotting utility for UNIX, IBM OS/2, MS Windows, DOS, Macintosh, VMS, Atari and many other platforms.

Gnuplot supports many types of plots in either 2D and 3D. It can draw using lines, points, boxes, contours, vector fields, surfaces, and various associated text. It also supports various specialized plot types.

Basically, it's a pretty useful utility for plotting data - great! Now let's get on with how you use it.

First things first. Lets find out if GnuPlot is installed on your system. If you are running windows or OS X then, unless you have installed it, it won't be there. On linux, depending upon your system, you may or may not have it - run the following at the command-line to see if you have it (as always - ignore the numbers, they are just there to indicate line numbering):

Our mission at the British Antarctic Survey is to undertake a world-class programme of scientific research, addressing key issues of global or fundamental importance that require access to the Antarctic or related regions.
Based in Cambridge, you will assist in the development and application of bioinformatics tools to analyse data from the environmental genomics, ecophysiology and biodiversity projects. Your role will include developing the infrastructure for the archiving and analyses of data, as well as building and installing software plus testing, and you will also actively liaise between IT support and biologists.

This is the first in what is going to be a (fingers crossed) long line of tutorials and tips and tricks that users of this site find and use throughout the course of their days. Anyway - lets get on with the rest of the story!

rsync is a Unix command-line based remote update protocol. Basically what this means is that it is an intelligent file transfer protocol - the intelligent part being that it allows the transfer of just the differences between two sets of files. Sounds technical... but it's not really that complicated and can be very useful. Here's a couple of potential use cases: