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Figure 1 | BMC Bioinformatics

Figure 1

From: ISAAC - InterSpecies Analysing Application using Containers

Figure 1

ISAAC core concepts – Let t a,b be the transcript coding for the protein p a,b and g a be the gene coding for the transcript t a,b . A user creates the snapshot a in the container I for species A and uploads a file containing three genes, namely g1, g2 and g3. From snapshot a, the user creates two child snapshots b and c (the contents of the snapshot a are replicated to the snapshots b and c). In the snapshot b the user adds the proteins p1,1 and p4,1 (due to the transitive rule, t1,1, t4,1 and g4 are also added) and the transcripts t1,2 and t2,1 and removes the gene g3. In the snapshot c the genes are extended, this means their transcripts and proteins are added. From snapshot c the child snapshot d is created. All proteins of the interaction network containing all proteins which directly interact with all proteins in the snapshot c, namely p1,1, p1,2, p3,1, p4,1, p5,1 and p5,2 are added. Again, corresponding transcripts and genes are added automatically. Next, the snapshot e in the container II for species B is created and the orthologous genes of snapshot d are imported. From snapshot e the user creates the child snapshot f and adds the genes g8 and g9 and removes the gene g7. Finally, the snapshot g is created in the container I and the orthologous genes of snapshot f are included.

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