Computational protocol: Spermine synthase deficiency causes lysosomal dysfunction and oxidative stress in models of Snyder-Robinson syndrome

Similar protocols

Protocol publication

[…] Specimens were imaged using an Olympus IX81 confocal microscope coupled with ×10, ×20 air lens or ×40, ×60, ×100 oil immersion objectives. Images were processed using FluoView 10-ASW software (Olympus) and analyzed using ImageJ software. Specifically, histogram plots in Fig.  and Supplementary Fig.  are analyzed using ImageJ Plot Profile and surface plots in Fig.  and Supplementary Fig.  are plotted using ImageJ Interactive 3D Surface Plot plugin. [...] Multiple sequence alignment was performed using ClustalW. The following sequences are used: Homo sapiens (NP_004586.2), Mus musculus (NP_033240.3), Gallus gallus (NP_001025974.1), Danio rerio (NP_571831.1), Drosophila melanogaster (NP_729798.1), Saccharomyces cerevisiae (NP_013247.1). RNA-Seq expression levels were obtained from FlyBase GBrowse. […]

Pipeline specifications

Software tools Clustal W, GBrowse
Databases FlyBase
Application RNA-seq analysis
Organisms Drosophila melanogaster, Homo sapiens
Diseases Nervous System Malformations, Nervous System Diseases, Lysosomal Storage Diseases, Citrullinemia, Genetic Diseases, X-Linked
Chemicals Polyamines, Spermidine