Reconstructing genome-wide regulatory network of E. coli using transcriptome data and predicted transcription factor activities

Table 1 GTRNetwork Algorithm Combinations.

GTRNetwork Algorithm Variant	TFA prediction	Relevance score	CLR Background correction
E-A-C	EM	APMI	Yes
E-A-N	EM	APMI	No
E-C-C	EM	Cor	Yes
E-C-N	EM	Cor	No
P-A-C	PLS	APMI	Yes
P-A-N	PLS	APMI	No
P-C-C	PLS	Cor	Yes
P-C-N	PLS	Cor	No
S-A-C	SVD	APMI	Yes
S-A-N	SVD	APMI	No
S-C-C	SVD	Cor	Yes
S-C-N	SVD	Cor	No
N-A-C	None	APMI	Yes
N-A-N	None	APMI	No
N-C-C	None	Cor	Yes
N-C-N	None	Cor	No

GTRNetwork algorithms using different combination of TFA prediction algorithm and relevance score based network inference algorithms.

ISSN: 1471-2105