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Network-Based Isoform Quantification with RNA-Seq Data for Cancer Transcriptome Analysis

Fig 2

Transcript interaction neighborhood.

In this toy example, transcript Tik has four neighbor transcripts {Tg1 a, Tg2 b, Tg3 c, Tg4 d}, which are transcripts from g1, g2, g3 and g4, respectively. The neighborhood expression ϕik of Tik is then calculated as the average of its neighbor transcripts’ expressions and further normalized by transcript length, represented as the vector product between π and S*,(i,k) normalized by the number of neighbors ∑S*,(i,k) and the transcript length lik in the figure.

Fig 2

doi: https://doi.org/10.1371/journal.pcbi.1004465.g002