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. Author manuscript; available in PMC: 2023 Dec 31.
Published in final edited form as: ACM BCB. 2023 Oct 4;2023:8. doi: 10.1145/3584371.3612968

Table 3:

Select significant block modules extracted through Dual ICA using the PRECISE dataset

Module Conditions Genes (total) Significant Regulons
C18+ x G30+

  1. MeanLFC = +1.78,

  2. Regression Coeff. = +83.5

  3. Wald p-value = 0

 nac_ntrc_wt_cytd (Nac/NtrC) nac_ntrc_bw_delnac_cytd (Nac/NtrC) glnK, amtB, rutABCOEFG, astABCDE,… (189)

  • rpoN (ES=6.095, qval=1.25E-40, overlap= 53.2%)

  • ntrC (ES=7.828, qval=2.08E-28, overlap=90.5%)

  • phoP (ES=3.559, qval=3.82E-06, overlap=36.7%)

  • nac (ES=2.874, qval=0.027, overlap=40.0%)
nac_ntrc_wt_gln (Nac/NtrC) nac_ntrc_bw_delnac_gln (Nac/NtrC)
nac_ntrc_wt_csn (Nac/NtrC) nac_ntrc_bw_delnac_csn (Nac/NtrC)
C18+ x G8−

  • MeanLFC = −0.41,

  • Regression Coeff. = +32.4

  • Wald p-Value = 0

 nac_ntrc_wt_cytd (Nac/NtrC) nac_ntrc_bw_delnac_cytd (Nac/NtrC) gatC_1, gatC_2, gatABZY, mglABC, actP, ydcH,…(246)

  • glcC (ES=3.101, qval=0.0356, overlap=100.0%)

  • crp (ES=2.265, qval=9.39E-19, overlap=22.3%)

  • arcA (ES=2.784, qval=5.54E-11, overlap=29.0%)
nac_ntrc_wt_gln (Nac/NtrC) nac_ntrc_bw_delnac_gln (Nac/NtrC)
nac_ntrc_wt_csn (Nac/NtrC) nac_ntrc_bw_delnac_csn (Nac/NtrC)
C9+ x G9+

  • MeanLFC = −1.68,

  • Regression Coeff. = −59.8

  • Wald p-value = 0

 acid_wt_ph5 (Acid) acid_delgadw_ph5 (Acid) yfdVXE, ydeOP, emrKY, asr,… (92)

  • evgA (ES=5.364, qval=3.68E-06, overlap=70.6%)
acid_delgadx_ph5 (Acid) acid_delgade_ph5 (Acid)