Scripting

Sometimes a biological assay is so fresh, that there is no software available to analyse the data properly. Instead of manual calculation, for example using Microsoft Excel, we can prepare you a script, which could do very specific calculations on the fly. An example we did, is the automatic calculation of Cell-Cell interaction kinetics from fluorescence data derived from videos made in a microscopic chamber. The data manipulation included fitting of two distinct kinetic equations to the original data consecutively. While the manual calculation in Microsoft Excel for one event took hours of working time, the script outputs the result (values and figures showing the actual fitting to the equations) in seconds. The final output will be adapted to your needs. It might be a pdf file summarizing all important observations or the resulting results are appended to a database for further manipulation. Or both?

Consultancy

Do you need a second opinion on your data analysis? Or on an analysis somebody else did? You do have a specific question on algorithms you are using or want to use? You are producing a software and you need professionals to test the performance, usability or functionality? Please don´t hesitate to contact us, we are happy to share our expertise with you.

Re-Analysis of public available data

Hundreds of thousand samples are available in public repositories. In Gene Expression Omnibus (NCBI GEO) there are more than 1.7 Mio samples available for download. While most of those samples are from microarray experiments, the amount of next generation sequencing datasets is growing exponentially. We do think (or do we know?) that this data is a treasure chest. Some experiments had been analysed with very specific focus, some have been analysed poorly and some too early. We find you experiments which might be very similar to experiments you would do. And we analyse them based on your focus and based on latest algorithm and most importantly based on the latest annotation. How many results had been disregarded since they had been just annotated as ESTs (expressed-sequence tags)? How many of those are now properly annotated as known gene and therefore giving new clues?
And we are not taking about analysing one experiment alone. If you are interested in specific cell types (for example immunological cell types), we can compile results for you. You are interested in specific gene sets? We can extract them from hundreds of experiments, calculating expression status, trends, correlations and more. The possibilities are endless.

Oxford Nanopore data

You wish you had some? We too. Please contact us if you need oxford nanopore data analysed. We have some preliminary experience using the public data we found and are eager to get some more in our hands.