Table: Compilation of literature that supports the designation of circadian core nodes. The first column gives the names of the genes that were considered to be circadian core genes in our analysis. The second column provides any alternative gene names, and the third column lists literature references that support the designation of the corresponding gene as being part of the circadian core. (XLSX 54 kb
Adaptive rank truncated product (ARTP)-based analysis of single circadian genes: primary analysis (a...
Figure: Yeast cell-cycle network 1 data and inferred LEM ODE simulations. After running LEM on the y...
Table: Comparison of LEM to existing algorithms on the unsigned directed-edge classification problem...
Supplementary Tables. Table S1. List of core circadian genes according to Anafi et al. [9], Wallach ...
Supplementary Figures. Figure S1. The distribution of promoter elements among the master list genes....
Figure: Network diagram for in silico 24. The network consists of a five-node core network with 95 a...
Figure: Network diagram for in silico 23. The network consists of a three-node core network with 97 ...
Table: Comparison of methods using MCC scores for the 100-node networks. Scores are reported for the...
Table: Comparison of methods using AUC-ROC and AUPR scores for the 100-node networks. Scores are rep...
Complete score table from the meta-analysis for all the 1000 master list genes with individual hits ...
Circadian rhythm core genes and significant regulation. Core circadian clock genes as reviewed by Ke...
Table: Compilation of literature that supports regulatory interactions in yeast cell-cycle networks ...
Figure: Ranking of all possible regulations in yeast cell-cycle network 1 by LEM. Each column is a l...
Table: Comparison of LEM to existing algorithms on both in silico benchmark datasets and in vivo dat...
<p>(A) List of exemplar core clock genes used as example models of core clock components. (B–E) Metr...
Adaptive rank truncated product (ARTP)-based analysis of single circadian genes: primary analysis (a...
Figure: Yeast cell-cycle network 1 data and inferred LEM ODE simulations. After running LEM on the y...
Table: Comparison of LEM to existing algorithms on the unsigned directed-edge classification problem...
Supplementary Tables. Table S1. List of core circadian genes according to Anafi et al. [9], Wallach ...
Supplementary Figures. Figure S1. The distribution of promoter elements among the master list genes....
Figure: Network diagram for in silico 24. The network consists of a five-node core network with 95 a...
Figure: Network diagram for in silico 23. The network consists of a three-node core network with 97 ...
Table: Comparison of methods using MCC scores for the 100-node networks. Scores are reported for the...
Table: Comparison of methods using AUC-ROC and AUPR scores for the 100-node networks. Scores are rep...
Complete score table from the meta-analysis for all the 1000 master list genes with individual hits ...
Circadian rhythm core genes and significant regulation. Core circadian clock genes as reviewed by Ke...
Table: Compilation of literature that supports regulatory interactions in yeast cell-cycle networks ...
Figure: Ranking of all possible regulations in yeast cell-cycle network 1 by LEM. Each column is a l...
Table: Comparison of LEM to existing algorithms on both in silico benchmark datasets and in vivo dat...
<p>(A) List of exemplar core clock genes used as example models of core clock components. (B–E) Metr...
Adaptive rank truncated product (ARTP)-based analysis of single circadian genes: primary analysis (a...
Figure: Yeast cell-cycle network 1 data and inferred LEM ODE simulations. After running LEM on the y...
Table: Comparison of LEM to existing algorithms on the unsigned directed-edge classification problem...