Biology - Martin Fitzpatrick

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Biology

A collection of 7 posts

Heart rate sensors

Photoplethysmography, because that's a real word

1D 1H NMR data processing

1D 1H NMR data processing

1D 1H NMR is a commonly applied to metabolomic studies, being well suited to untargeted analysis of complex biofluids. It has been successfully applied to the classification and diagnosis of a number of diseases including [ref]. There are a number of important steps that must be applied prior 1D 1H

Getting Started with Pathomx

This is quick start-up guide for new users of Pathomx. Following it should give you everything that you need to know to start using Pathomx right away. Pathomx aims to offer a powerful, extensible analysis and processing platform while being as simple to use as possible to the casual user.

Measuring cell fluorescence using ImageJ

Determining the level of cellular fluorescence from fluorescence microscopy images in ImageJ

Dot Blot Analysis with ImageJ

Analyzing a dot blot in ImageJ by background subtraction and measuring the integrated density of each dot. This dot blot image is available in the File/Open Samples menu in ImageJ 1.33s or later. This method usually requires background correction of the image, which can be done using the

Analyzing public GEO datasets with Pathomx

This short demo shows analysis of a publicly available GEO dataset using Pathomx, with a workflow build using the new visual editor (available in the next release). You can download the example dataset from here. Pathomx is an open-source workflow-based scientific analysis application. Source code is available here with packaged

Pathomx: Example Analysis

Short demo of an experimental analysis of metabolomic (NMR) data using Pathomx. Metabolomic test dataset produced from THP-1 cells grown under normal and hypoxic conditions. Spectra (2D 1H JRES) have been pre-processed and quantified using the BML-NMR service. The video shows an example analysis from processed data through to metabolic