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The remaining sequences after TGICL clustering were defined as tentative transcripts.
Sensitivity and specificity of a clustering were defined as the respective averages of all cluster's sensitivities and specificities in a clustering.
The detected RNAPII gene body occupancy (RPKM > 1) and clustering were defined as previously described from the RNAPII ChIP-seq datasets of all four differentiation stages of HKC1.
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The next level of clustering was defined by the microarray platform used for the studies.
The distance function used in clustering is defined as follows.
23 Within individuals, clustering was defined by the correlation between the first and second birth.
For the purposes of TEDS-M, clusters were defined as "programs".
Clusters were defined by an average linkage clustering method.
Gene clusters were defined through an automatic hierarchical clustering algorithm with manual interventions.
Membrane areas further than 500 nm from the edge of clusters were defined as extrasynaptic.
Distinct clusters were defined based on the significance level calculated as above.
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