bioNLP-UNAM / related_regulators

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Ignacio Arroyo
2c76304a 1 parent e716af42

Added cluster persistence log plots

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Showing 3 changed files with 336 additions and 3 deletions
1 1
2 -from pdb import set_trace as st 2 +#from pdb import set_trace as st
3 import os 3 import os
4 import matplotlib.pyplot as plt 4 import matplotlib.pyplot as plt
5 +from numpy import log10
5 6
6 7
7 def analyze_pair(group_anlized, gropus_dir, rev, eigenvectors): 8 def analyze_pair(group_anlized, gropus_dir, rev, eigenvectors):
...@@ -102,14 +103,14 @@ for i, p in enumerate(plots): ...@@ -102,14 +103,14 @@ for i, p in enumerate(plots):
102 else: 103 else:
103 width = 2 104 width = 2
104 mark = "" 105 mark = ""
105 - ax1.plot(p['part'], p['n_tfs'], c=cmap(i), linewidth=width, marker=mark, 106 + ax1.plot(p['part'], log10(p['n_tfs']), c=cmap(i), linewidth=width, marker=mark,
106 label=" ".join(p['tfs'][0])) 107 label=" ".join(p['tfs'][0]))
107 108
108 #ax1.scatter(x[40:],y[40:], s=10, c='r', marker="o", label='second') 109 #ax1.scatter(x[40:],y[40:], s=10, c='r', marker="o", label='second')
109 plt.legend(loc='upper right') 110 plt.legend(loc='upper right')
110 plt.title("TF pair persistence through partitions of model resolution") 111 plt.title("TF pair persistence through partitions of model resolution")
111 plt.xlabel("Partition") 112 plt.xlabel("Partition")
112 -plt.ylabel("Number of TFs") 113 +plt.ylabel("Number of TFs (log_10)")
113 plt.show() 114 plt.show()
114 115
115 #print(TFs.keys()) 116 #print(TFs.keys())
......
1 +The analized group = 97
2 +The corresponding TFs: ArgR(0.374), PuuR(-0.39)
3 +
4 +The corresponding eigenvector: (96, u'0.219*"diacetylchitobiose" + 0.209*"beta-d-cellobiose-6\'-p" + -0.185*"ptsh" + 0.164*"lipid" + -0.148*"phosphorylated_ext" + -0.148*"hpr" + 0.142*"i" + -0.142*"isocitrate-dehydrogenase" + 0.140*"6\'-phosphate" + 0.137*"6-phosphate"')
5 +
6 +The analized group = 80
7 +The corresponding TFs: BaeR(0.339), MntR(0.406)
8 +
9 +The corresponding eigenvector: (79, u'-0.297*"serine" + -0.270*"dsdc" + -0.204*"mn(ii)" + -0.166*"arsenite" + -0.157*"serine_ext" + -0.153*"mn(ii)_ext" + 0.151*"mdtabcd-baesr" + 0.151*"mdtabcd-baesr_mrna" + -0.117*"dehydroalanine" + -0.114*"uidabc"')
10 +
11 +The analized group = 74
12 +The corresponding TFs: BetI(0.395), YqhC(-0.56)
13 +
14 +The corresponding eigenvector: (73, u'0.363*"rcho" + -0.362*"lysa" + 0.287*"alcohol" + 0.215*"betaine" + -0.181*"lysa_mrna" + 0.174*"choline" + -0.158*"rna" + 0.153*"aldehyde" + 0.141*"nemr" + 0.141*"nemra-gloa"')
15 +
16 +The analized group = 68
17 +The corresponding TFs: DinJ-YafQ(-0.49), SdiA(0.692)
18 +
19 +The corresponding eigenvector: (67, u'-0.392*"norr" + -0.362*"norvw" + -0.362*"norvw_mrna" + -0.219*"hyacinthin" + 0.157*"ureidoglycolate" + -0.143*"dinj-yafq" + -0.140*"rna" + -0.131*"norr_mrna" + -0.122*"flrd" + 0.121*"betaine"')
20 +
21 +The analized group = 63
22 +The corresponding TFs: DpiA(-0.34), UidR(0.453)
23 +
24 +The corresponding eigenvector: (62, u'0.333*"hyacinthin" + -0.271*"tartrate" + -0.235*"glycerol-3-phosphate" + -0.171*"arsenite" + 0.168*"phenylacetate" + 0.161*"aspartate" + -0.156*"mn(ii)" + -0.133*"2,3-dihydroxycinnamic" + -0.126*"fe+2" + 0.125*"rpos"')
25 +
26 +The analized group = 53
27 +The corresponding TFs: CueR(0.408), CusR(0.522)
28 +
29 +The corresponding eigenvector: (52, u'-0.216*"ribulose" + 0.214*"beta-neu5ac" + 0.199*"n-acetylneuraminate" + 0.147*"short-chain" + -0.147*"nickel" + 0.139*"alpha-neu5ac" + 0.124*"3-keto-l-gulonate" + -0.123*"fe+2" + 0.122*"alcohol" + -0.120*"lactate"')
30 +
31 +The analized group = 52
32 +The corresponding TFs: EnvY(0.408), NanR(0.398)
33 +
34 +The corresponding eigenvector: (51, u'0.376*"ribulose" + 0.204*"dhap" + -0.201*"1,6-diphosphate" + -0.201*"tagatofuranose" + 0.191*"glycoaldehyde" + -0.187*"3-keto-l-gulonate" + 0.182*"lactaldehyde" + -0.173*"rhasr_mrna" + -0.173*"rhasr" + -0.160*"rhar"')
35 +
36 +The analized group = 49
37 +The corresponding TFs: MetR(0.311), RbsR(0.586)
38 +
39 +The corresponding eigenvector: (48, u'0.338*"lactose" + 0.243*"melibiose" + -0.205*"marrab_mrna" + -0.205*"marrab" + 0.193*"lactose_ext" + 0.191*"flda" + 0.183*"lactate" + 0.167*"melibiose_ext" + 0.160*"sgrst-seta" + 0.160*"sgrst-seta_mrna"')
40 +
41 +The analized group = 47
42 +The corresponding TFs: TorR(-0.39), TrpR(-0.57)
43 +
44 +The corresponding eigenvector: (46, u'0.315*"aidb" + 0.230*"sorbitol" + -0.211*"flda" + 0.199*"srlaebd-gutm-srlr-gutq_mrna" + 0.199*"srlaebd-gutm-srlr-gutq" + 0.188*"tryptophan" + 0.144*"carbonate" + 0.140*"marrab_mrna" + 0.140*"marrab" + -0.137*"diacetylchitobiose"')
45 +
46 +The analized group = 44
47 +The corresponding TFs: Ada(0.367), AidB(0.413)
48 +
49 +The corresponding eigenvector: (43, u'-0.437*"ion" + -0.330*"cobalt" + -0.322*"nickel" + -0.250*"nickel_ext" + -0.225*"arsenite" + -0.180*"nikabcder_mrna" + -0.180*"nikabcder" + -0.159*"melibiose" + -0.150*"nikd-nike-nikb-nikc-nika" + -0.139*"ion_ext"')
50 +
51 +The analized group = 43
52 +The corresponding TFs: ArsR(-0.36), NikR(-0.56), RcnR(-0.70)
53 +
54 +The corresponding eigenvector: (42, u'0.373*"flda" + -0.368*"lactate" + -0.187*"with" + -0.175*"peptidoglycan" + -0.173*"glycolate" + 0.171*"sorbitol" + -0.158*"lactate_ext" + -0.157*"nascent" + 0.144*"srlaebd-gutm-srlr-gutq" + 0.144*"srlaebd-gutm-srlr-gutq_mrna"')
55 +
56 +The analized group = 40
57 +The corresponding TFs: FhlA(0.723), HyfR(0.703)
58 +
59 +The corresponding eigenvector: (39, u'-0.267*"puta" + 0.233*"flda" + -0.229*"glutamate-semialdehyde" + -0.229*"5-carboxylate" + -0.229*"pyrroline" + -0.199*"thioredoxin" + -0.198*"proline" + -0.176*"qsebc_mrna" + -0.176*"qsebc" + -0.155*"fumarate"')
60 +
61 +The analized group = 39
62 +The corresponding TFs: BasR(-0.44), PutA(-0.53)
63 +
64 +The corresponding eigenvector: (38, u'0.361*"fructose-6-p" + -0.265*"1,6-diphosphate" + -0.265*"tagatofuranose" + 0.262*"rhasr" + 0.262*"rhasr_mrna" + 0.220*"rhar" + 0.214*"rhamnose" + 0.196*"fumarate" + 0.172*"rhas" + -0.169*"tagaaldol-rxn"')
65 +
66 +The analized group = 38
67 +The corresponding TFs: AlsR(0.390), RhaR(0.500)
68 +
69 +The corresponding eigenvector: (37, u'0.277*"amylose" + 0.211*"fmn" + -0.206*"acid" + 0.195*"flavin" + 0.177*"d-glucose" + 0.174*"1-phosphate" + -0.168*"2,3-dihydroxycinnamic" + -0.165*"carbonate" + 0.162*"maltohexaose" + 0.155*"fumarate"')
70 +
71 +The analized group = 37
72 +The corresponding TFs: MalT(0.398), MhpR(-0.31)
73 +
74 +The corresponding eigenvector: (36, u'0.316*"fmn" + 0.282*"flavin" + -0.274*"amylose" + 0.213*"sulfite" + 0.202*"mononucleotide" + 0.199*"sulfide" + -0.168*"thioredoxin" + -0.158*"d-glucose" + -0.149*"flda" + -0.146*"maltohexaose"')
75 +
76 +The analized group = 36
77 +The corresponding TFs: Cbl(0.548), CysB(0.546)
78 +
79 +The corresponding eigenvector: (35, u'0.338*"7,8-dihydrofolate" + -0.267*"amylose" + -0.223*"rela-mazef_mrna" + -0.223*"rela-mazef" + 0.214*"trna" + -0.183*"hipb-hipa" + 0.162*"methylene-h4pteglu(n)" + -0.148*"hipba" + -0.148*"hipba_mrna" + -0.136*"ppgpp"')
80 +
81 +The analized group = 34
82 +The corresponding TFs: HcaR(-0.35), HypT(0.409), MetJ(0.412)
83 +
84 +The corresponding eigenvector: (33, u'-0.209*"methionine" + 0.207*"ketoglutarate" + 0.172*"rela-mazef" + 0.172*"rela-mazef_mrna" + -0.163*"7,8-dihydrofolate" + 0.154*"biodex" + -0.149*"amylose" + 0.142*"thioredoxin" + 0.141*"hipb-hipa" + 0.136*"lysine"')
85 +
86 +The analized group = 32
87 +The corresponding TFs: AllR(-0.77), CdaR(-0.58)
88 +
89 +The corresponding eigenvector: (31, u'0.262*"hyaabcdef_mrna" + 0.262*"hyaabcdef" + 0.217*"fructuronate" + 0.214*"appcbxa_mrna" + 0.214*"appcbxa" + 0.184*"uidabc_mrna" + 0.184*"uidabc" + 0.171*"flda" + 0.159*"uxur" + -0.155*"methionine"')
90 +
91 +The analized group = 31
92 +The corresponding TFs: AppY(0.558), YdeO(0.502)
93 +
94 +The corresponding eigenvector: (30, u'0.331*"fructuronate" + 0.280*"uidabc_mrna" + 0.280*"uidabc" + 0.241*"uxur" + 0.220*"mannonate" + -0.188*"hyaabcdef_mrna" + -0.188*"hyaabcdef" + 0.182*"uxuab_mrna" + 0.182*"uxuab" + -0.154*"appcbxa"')
95 +
96 +The analized group = 30
97 +The corresponding TFs: ExuR(0.560), UxuR(0.695)
98 +
99 +The corresponding eigenvector: (29, u'0.227*"carbonate" + -0.221*"methionine" + -0.193*"oxygen" + -0.183*"succinate" + -0.174*"fumarate" + 0.151*"aminoacrylate" + 0.151*"glutamine" + -0.148*"hyaabcdef_mrna" + -0.148*"hyaabcdef" + -0.147*"aspartate"')
100 +
101 +The analized group = 29
102 +The corresponding TFs: PepA(0.337), RutR(0.353)
103 +
104 +The corresponding eigenvector: (28, u'0.325*"dhap" + -0.288*"fructose-6-p" + 0.254*"lactaldehyde" + 0.251*"rhasr" + 0.251*"rhasr_mrna" + 0.235*"rhamnose" + 0.196*"rhar" + -0.189*"xylulose-p" + -0.180*"glyceraldehyde-p" + 0.180*"rhas"')
105 +
106 +The analized group = 27
107 +The corresponding TFs: CadC(0.619), GadE-RcsB(0.606)
108 +
109 +The corresponding eigenvector: (26, u'-0.349*"glyceraldehyde-p" + -0.304*"dhap" + -0.247*"1,6-diphosphate" + -0.247*"tagatofuranose" + 0.195*"phosphate" + -0.182*"fructose-6-p" + 0.176*"3-keto-l-gulonate" + 0.170*"ribulose-5-p" + -0.167*"tagaaldol-rxn" + -0.153*"sedoheptulose-7-p"')
110 +
111 +The analized group = 26
112 +The corresponding TFs: AgaR(-0.55), CreB(-0.40)
113 +
114 +The corresponding eigenvector: (25, u'0.402*"poly-beta-1,6-n-acetyl-d-glucosamine" + -0.204*"zinc" + 0.201*"partially" + 0.201*"n-deacetylated" + 0.196*"acetyl-coa" + 0.189*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.175*"zinc_ext" + 0.148*"coenzyme" + -0.141*"fmn" + 0.130*"flda"')
115 +
116 +The analized group = 24
117 +The corresponding TFs: YefM(-0.98), YefM-YoeB(-0.98)
118 +
119 +The corresponding eigenvector: (23, u'-0.717*"zinc" + -0.614*"zinc_ext" + -0.146*"zint" + -0.117*"poly-beta-1,6-n-acetyl-d-glucosamine" + -0.073*"zint_mrna" + -0.066*"acetyl-coa" + -0.058*"n-deacetylated" + -0.058*"partially" + -0.055*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.047*"coenzyme"')
120 +
121 +The analized group = 23
122 +The corresponding TFs: ZntR(-0.94), Zur(-0.94)
123 +
124 +The corresponding eigenvector: (22, u'-0.354*"poly-beta-1,6-n-acetyl-d-glucosamine" + 0.266*"7,8-dihydrofolate" + 0.193*"guanosine-diphosphate" + -0.187*"mazefg_mrna" + -0.187*"mazefg" + -0.177*"n-deacetylated" + -0.177*"partially" + 0.168*"trna" + -0.166*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.157*"glyceraldehyde-p"')
125 +
126 +The analized group = 21
127 +The corresponding TFs: RelB(0.993), RelB-RelE(0.993)
128 +
129 +The corresponding eigenvector: (20, u'0.408*"poly-beta-1,6-n-acetyl-d-glucosamine" + 0.204*"n-deacetylated" + 0.204*"partially" + 0.191*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + 0.187*"7,8-dihydrofolate" + -0.171*"mazefg_mrna" + -0.171*"mazefg" + -0.157*"acetyl-coa" + -0.130*"biodex" + -0.128*"coenzyme"')
130 +
131 +The analized group = 20
132 +The corresponding TFs: NhaR(0.547), OmpR(0.564)
133 +
134 +The corresponding eigenvector: (19, u'-0.616*"tdcabcdefg" + -0.616*"tdcabcdefg_mrna" + -0.132*"tdca" + -0.130*"serine" + -0.112*"serine_ext" + -0.101*"dehydroalanine" + -0.088*"propanoyl-p" + -0.088*"tdce" + -0.088*"threonine_ext" + -0.088*"tdcd"')
135 +
136 +The analized group = 19
137 +The corresponding TFs: TdcA(-0.94), TdcR(-0.94)
138 +
139 +The corresponding eigenvector: (18, u'-0.308*"acetyl-coa" + 0.234*"acpp" + 0.181*"ketoglutarate" + -0.170*"tdcabcdefg_mrna" + -0.170*"tdcabcdefg" + 0.169*"trans" + -0.167*"coenzyme" + -0.129*"hyaabcdef_mrna" + -0.129*"hyaabcdef" + 0.127*"hexadecenoyl-[acp]"')
140 +
141 +The analized group = 18
142 +The corresponding TFs: AtoC(-0.32), PaaX(-0.30)
143 +
144 +The corresponding eigenvector: (17, u'0.372*"flhd-flhc" + 0.372*"flhdc_mrna" + 0.359*"flhdc" + 0.186*"flhc" + 0.186*"flhd" + -0.172*"csgdefg_mrna" + -0.172*"csgdefg" + 0.158*"gltbdf_mrna" + 0.158*"gltbdf" + -0.133*"thioredoxin"')
145 +
146 +The analized group = 15
147 +The corresponding TFs: AlaS(-0.48), IscR(-0.75), OxyR(-0.69)
148 +
149 +The corresponding eigenvector: (14, u'0.375*"gluconate" + -0.343*"xylulose" + -0.286*"ribulose-5-p" + -0.211*"3-keto-l-gulonate" + -0.188*"ribulose" + -0.178*"5p" + -0.170*"xylulose-p" + 0.143*"kdgp" + -0.143*"thioredoxin" + -0.130*"lactaldehyde"')
150 +
151 +The analized group = 13
152 +The corresponding TFs: GalR(0.610), GalS(0.610), HU(0.443)
153 +
154 +The corresponding eigenvector: (12, u'-0.356*"thioredoxin" + 0.267*"udpg" + 0.245*"udp-galactose" + 0.236*"d-glucose" + -0.206*"flda" + 0.200*"1-phosphate" + 0.171*"galactose-1-p" + -0.170*"disulfide" + 0.162*"amylose" + 0.162*"acetyl-coa"')
155 +
156 +The analized group = 12
157 +The corresponding TFs: ArgP(-0.43), DnaA(-0.44), NrdR(-0.34)
158 +
159 +The corresponding eigenvector: (11, u'0.218*"oxygen" + 0.200*"ketoglutarate" + 0.190*"acid" + 0.175*"flda" + 0.158*"thioredoxin" + -0.153*"vitamin" + -0.147*"acpp" + 0.132*"csgdefg_mrna" + 0.132*"csgdefg" + -0.129*"nitrite"')
160 +
161 +The analized group = 9
162 +The corresponding TFs: RcsB-BglJ(-0.52), StpA(-0.53)
163 +
164 +The corresponding eigenvector: (8, u'0.613*"phosphate" + -0.204*"6-phosphate" + 0.176*"acetyl-coa" + 0.171*"beta-d-glucose-6-p" + -0.163*"xylulose" + -0.161*"gluconate" + 0.153*"arbutin-6p" + -0.152*"6-p" + -0.150*"ribulose-5-p" + -0.141*"xylulose-p"')
165 +
166 +iarroyof@bisnaga:~/cooperating_tfs$ python analyze_pair.py
167 +/usr/lib/python2.7/dist-packages/matplotlib/font_manager.py:273: UserWarning: Matplotlib is building the font cache using fc-list. This may take a moment.
168 + warnings.warn('Matplotlib is building the font cache using fc-list. This may take a moment.')
169 +The analized group = 97
170 +The corresponding TFs: ArgR(0.374), PuuR(-0.39)
171 +
172 +The corresponding eigenvector: (96, u'0.219*"diacetylchitobiose" + 0.209*"beta-d-cellobiose-6\'-p" + -0.185*"ptsh" + 0.164*"lipid" + -0.148*"phosphorylated_ext" + -0.148*"hpr" + 0.142*"i" + -0.142*"isocitrate-dehydrogenase" + 0.140*"6\'-phosphate" + 0.137*"6-phosphate"')
173 +
174 +The analized group = 80
175 +The corresponding TFs: BaeR(0.339), MntR(0.406)
176 +
177 +The corresponding eigenvector: (79, u'-0.297*"serine" + -0.270*"dsdc" + -0.204*"mn(ii)" + -0.166*"arsenite" + -0.157*"serine_ext" + -0.153*"mn(ii)_ext" + 0.151*"mdtabcd-baesr" + 0.151*"mdtabcd-baesr_mrna" + -0.117*"dehydroalanine" + -0.114*"uidabc"')
178 +
179 +The analized group = 74
180 +The corresponding TFs: BetI(0.395), YqhC(-0.56)
181 +
182 +The corresponding eigenvector: (73, u'0.363*"rcho" + -0.362*"lysa" + 0.287*"alcohol" + 0.215*"betaine" + -0.181*"lysa_mrna" + 0.174*"choline" + -0.158*"rna" + 0.153*"aldehyde" + 0.141*"nemr" + 0.141*"nemra-gloa"')
183 +
184 +The analized group = 68
185 +The corresponding TFs: DinJ-YafQ(-0.49), SdiA(0.692)
186 +
187 +The corresponding eigenvector: (67, u'-0.392*"norr" + -0.362*"norvw" + -0.362*"norvw_mrna" + -0.219*"hyacinthin" + 0.157*"ureidoglycolate" + -0.143*"dinj-yafq" + -0.140*"rna" + -0.131*"norr_mrna" + -0.122*"flrd" + 0.121*"betaine"')
188 +
189 +The analized group = 63
190 +The corresponding TFs: DpiA(-0.34), UidR(0.453)
191 +
192 +The corresponding eigenvector: (62, u'0.333*"hyacinthin" + -0.271*"tartrate" + -0.235*"glycerol-3-phosphate" + -0.171*"arsenite" + 0.168*"phenylacetate" + 0.161*"aspartate" + -0.156*"mn(ii)" + -0.133*"2,3-dihydroxycinnamic" + -0.126*"fe+2" + 0.125*"rpos"')
193 +
194 +The analized group = 53
195 +The corresponding TFs: CueR(0.408), CusR(0.522)
196 +
197 +The corresponding eigenvector: (52, u'-0.216*"ribulose" + 0.214*"beta-neu5ac" + 0.199*"n-acetylneuraminate" + 0.147*"short-chain" + -0.147*"nickel" + 0.139*"alpha-neu5ac" + 0.124*"3-keto-l-gulonate" + -0.123*"fe+2" + 0.122*"alcohol" + -0.120*"lactate"')
198 +
199 +The analized group = 52
200 +The corresponding TFs: EnvY(0.408), NanR(0.398)
201 +
202 +The corresponding eigenvector: (51, u'0.376*"ribulose" + 0.204*"dhap" + -0.201*"1,6-diphosphate" + -0.201*"tagatofuranose" + 0.191*"glycoaldehyde" + -0.187*"3-keto-l-gulonate" + 0.182*"lactaldehyde" + -0.173*"rhasr_mrna" + -0.173*"rhasr" + -0.160*"rhar"')
203 +
204 +The analized group = 49
205 +The corresponding TFs: MetR(0.311), RbsR(0.586)
206 +
207 +The corresponding eigenvector: (48, u'0.338*"lactose" + 0.243*"melibiose" + -0.205*"marrab_mrna" + -0.205*"marrab" + 0.193*"lactose_ext" + 0.191*"flda" + 0.183*"lactate" + 0.167*"melibiose_ext" + 0.160*"sgrst-seta" + 0.160*"sgrst-seta_mrna"')
208 +
209 +The analized group = 47
210 +The corresponding TFs: TorR(-0.39), TrpR(-0.57)
211 +
212 +The corresponding eigenvector: (46, u'0.315*"aidb" + 0.230*"sorbitol" + -0.211*"flda" + 0.199*"srlaebd-gutm-srlr-gutq_mrna" + 0.199*"srlaebd-gutm-srlr-gutq" + 0.188*"tryptophan" + 0.144*"carbonate" + 0.140*"marrab_mrna" + 0.140*"marrab" + -0.137*"diacetylchitobiose"')
213 +
214 +The analized group = 44
215 +The corresponding TFs: Ada(0.367), AidB(0.413)
216 +
217 +The corresponding eigenvector: (43, u'-0.437*"ion" + -0.330*"cobalt" + -0.322*"nickel" + -0.250*"nickel_ext" + -0.225*"arsenite" + -0.180*"nikabcder_mrna" + -0.180*"nikabcder" + -0.159*"melibiose" + -0.150*"nikd-nike-nikb-nikc-nika" + -0.139*"ion_ext"')
218 +
219 +The analized group = 43
220 +The corresponding TFs: ArsR(-0.36), NikR(-0.56), RcnR(-0.70)
221 +
222 +The corresponding eigenvector: (42, u'0.373*"flda" + -0.368*"lactate" + -0.187*"with" + -0.175*"peptidoglycan" + -0.173*"glycolate" + 0.171*"sorbitol" + -0.158*"lactate_ext" + -0.157*"nascent" + 0.144*"srlaebd-gutm-srlr-gutq" + 0.144*"srlaebd-gutm-srlr-gutq_mrna"')
223 +
224 +The analized group = 40
225 +The corresponding TFs: FhlA(0.723), HyfR(0.703)
226 +
227 +The corresponding eigenvector: (39, u'-0.267*"puta" + 0.233*"flda" + -0.229*"glutamate-semialdehyde" + -0.229*"5-carboxylate" + -0.229*"pyrroline" + -0.199*"thioredoxin" + -0.198*"proline" + -0.176*"qsebc_mrna" + -0.176*"qsebc" + -0.155*"fumarate"')
228 +
229 +The analized group = 39
230 +The corresponding TFs: BasR(-0.44), PutA(-0.53)
231 +
232 +The corresponding eigenvector: (38, u'0.361*"fructose-6-p" + -0.265*"1,6-diphosphate" + -0.265*"tagatofuranose" + 0.262*"rhasr" + 0.262*"rhasr_mrna" + 0.220*"rhar" + 0.214*"rhamnose" + 0.196*"fumarate" + 0.172*"rhas" + -0.169*"tagaaldol-rxn"')
233 +
234 +The analized group = 38
235 +The corresponding TFs: AlsR(0.390), RhaR(0.500)
236 +
237 +The corresponding eigenvector: (37, u'0.277*"amylose" + 0.211*"fmn" + -0.206*"acid" + 0.195*"flavin" + 0.177*"d-glucose" + 0.174*"1-phosphate" + -0.168*"2,3-dihydroxycinnamic" + -0.165*"carbonate" + 0.162*"maltohexaose" + 0.155*"fumarate"')
238 +
239 +The analized group = 37
240 +The corresponding TFs: MalT(0.398), MhpR(-0.31)
241 +
242 +The corresponding eigenvector: (36, u'0.316*"fmn" + 0.282*"flavin" + -0.274*"amylose" + 0.213*"sulfite" + 0.202*"mononucleotide" + 0.199*"sulfide" + -0.168*"thioredoxin" + -0.158*"d-glucose" + -0.149*"flda" + -0.146*"maltohexaose"')
243 +
244 +The analized group = 36
245 +The corresponding TFs: Cbl(0.548), CysB(0.546)
246 +
247 +The corresponding eigenvector: (35, u'0.338*"7,8-dihydrofolate" + -0.267*"amylose" + -0.223*"rela-mazef_mrna" + -0.223*"rela-mazef" + 0.214*"trna" + -0.183*"hipb-hipa" + 0.162*"methylene-h4pteglu(n)" + -0.148*"hipba" + -0.148*"hipba_mrna" + -0.136*"ppgpp"')
248 +
249 +The analized group = 34
250 +The corresponding TFs: HcaR(-0.35), HypT(0.409), MetJ(0.412)
251 +
252 +The corresponding eigenvector: (33, u'-0.209*"methionine" + 0.207*"ketoglutarate" + 0.172*"rela-mazef" + 0.172*"rela-mazef_mrna" + -0.163*"7,8-dihydrofolate" + 0.154*"biodex" + -0.149*"amylose" + 0.142*"thioredoxin" + 0.141*"hipb-hipa" + 0.136*"lysine"')
253 +
254 +The analized group = 32
255 +The corresponding TFs: AllR(-0.77), CdaR(-0.58)
256 +
257 +The corresponding eigenvector: (31, u'0.262*"hyaabcdef_mrna" + 0.262*"hyaabcdef" + 0.217*"fructuronate" + 0.214*"appcbxa_mrna" + 0.214*"appcbxa" + 0.184*"uidabc_mrna" + 0.184*"uidabc" + 0.171*"flda" + 0.159*"uxur" + -0.155*"methionine"')
258 +
259 +The analized group = 31
260 +The corresponding TFs: AppY(0.558), YdeO(0.502)
261 +
262 +The corresponding eigenvector: (30, u'0.331*"fructuronate" + 0.280*"uidabc_mrna" + 0.280*"uidabc" + 0.241*"uxur" + 0.220*"mannonate" + -0.188*"hyaabcdef_mrna" + -0.188*"hyaabcdef" + 0.182*"uxuab_mrna" + 0.182*"uxuab" + -0.154*"appcbxa"')
263 +
264 +The analized group = 30
265 +The corresponding TFs: ExuR(0.560), UxuR(0.695)
266 +
267 +The corresponding eigenvector: (29, u'0.227*"carbonate" + -0.221*"methionine" + -0.193*"oxygen" + -0.183*"succinate" + -0.174*"fumarate" + 0.151*"aminoacrylate" + 0.151*"glutamine" + -0.148*"hyaabcdef_mrna" + -0.148*"hyaabcdef" + -0.147*"aspartate"')
268 +
269 +The analized group = 29
270 +The corresponding TFs: PepA(0.337), RutR(0.353)
271 +
272 +The corresponding eigenvector: (28, u'0.325*"dhap" + -0.288*"fructose-6-p" + 0.254*"lactaldehyde" + 0.251*"rhasr" + 0.251*"rhasr_mrna" + 0.235*"rhamnose" + 0.196*"rhar" + -0.189*"xylulose-p" + -0.180*"glyceraldehyde-p" + 0.180*"rhas"')
273 +
274 +The analized group = 27
275 +The corresponding TFs: CadC(0.619), GadE-RcsB(0.606)
276 +
277 +The corresponding eigenvector: (26, u'-0.349*"glyceraldehyde-p" + -0.304*"dhap" + -0.247*"1,6-diphosphate" + -0.247*"tagatofuranose" + 0.195*"phosphate" + -0.182*"fructose-6-p" + 0.176*"3-keto-l-gulonate" + 0.170*"ribulose-5-p" + -0.167*"tagaaldol-rxn" + -0.153*"sedoheptulose-7-p"')
278 +
279 +The analized group = 26
280 +The corresponding TFs: AgaR(-0.55), CreB(-0.40)
281 +
282 +The corresponding eigenvector: (25, u'0.402*"poly-beta-1,6-n-acetyl-d-glucosamine" + -0.204*"zinc" + 0.201*"partially" + 0.201*"n-deacetylated" + 0.196*"acetyl-coa" + 0.189*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.175*"zinc_ext" + 0.148*"coenzyme" + -0.141*"fmn" + 0.130*"flda"')
283 +
284 +The analized group = 24
285 +The corresponding TFs: YefM(-0.98), YefM-YoeB(-0.98)
286 +
287 +The corresponding eigenvector: (23, u'-0.717*"zinc" + -0.614*"zinc_ext" + -0.146*"zint" + -0.117*"poly-beta-1,6-n-acetyl-d-glucosamine" + -0.073*"zint_mrna" + -0.066*"acetyl-coa" + -0.058*"n-deacetylated" + -0.058*"partially" + -0.055*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.047*"coenzyme"')
288 +
289 +The analized group = 23
290 +The corresponding TFs: ZntR(-0.94), Zur(-0.94)
291 +
292 +The corresponding eigenvector: (22, u'-0.354*"poly-beta-1,6-n-acetyl-d-glucosamine" + 0.266*"7,8-dihydrofolate" + 0.193*"guanosine-diphosphate" + -0.187*"mazefg_mrna" + -0.187*"mazefg" + -0.177*"n-deacetylated" + -0.177*"partially" + 0.168*"trna" + -0.166*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + -0.157*"glyceraldehyde-p"')
293 +
294 +The analized group = 21
295 +The corresponding TFs: RelB(0.993), RelB-RelE(0.993)
296 +
297 +The corresponding eigenvector: (20, u'0.408*"poly-beta-1,6-n-acetyl-d-glucosamine" + 0.204*"n-deacetylated" + 0.204*"partially" + 0.191*"poly-beta-1,6-n-acetyl-d-glucosamine_ext" + 0.187*"7,8-dihydrofolate" + -0.171*"mazefg_mrna" + -0.171*"mazefg" + -0.157*"acetyl-coa" + -0.130*"biodex" + -0.128*"coenzyme"')
298 +
299 +The analized group = 20
300 +The corresponding TFs: NhaR(0.547), OmpR(0.564)
301 +
302 +The corresponding eigenvector: (19, u'-0.616*"tdcabcdefg" + -0.616*"tdcabcdefg_mrna" + -0.132*"tdca" + -0.130*"serine" + -0.112*"serine_ext" + -0.101*"dehydroalanine" + -0.088*"propanoyl-p" + -0.088*"tdce" + -0.088*"threonine_ext" + -0.088*"tdcd"')
303 +
304 +The analized group = 19
305 +The corresponding TFs: TdcA(-0.94), TdcR(-0.94)
306 +
307 +The corresponding eigenvector: (18, u'-0.308*"acetyl-coa" + 0.234*"acpp" + 0.181*"ketoglutarate" + -0.170*"tdcabcdefg_mrna" + -0.170*"tdcabcdefg" + 0.169*"trans" + -0.167*"coenzyme" + -0.129*"hyaabcdef_mrna" + -0.129*"hyaabcdef" + 0.127*"hexadecenoyl-[acp]"')
308 +
309 +The analized group = 18
310 +The corresponding TFs: AtoC(-0.32), PaaX(-0.30)
311 +
312 +The corresponding eigenvector: (17, u'0.372*"flhd-flhc" + 0.372*"flhdc_mrna" + 0.359*"flhdc" + 0.186*"flhc" + 0.186*"flhd" + -0.172*"csgdefg_mrna" + -0.172*"csgdefg" + 0.158*"gltbdf_mrna" + 0.158*"gltbdf" + -0.133*"thioredoxin"')
313 +
314 +The analized group = 15
315 +The corresponding TFs: AlaS(-0.48), IscR(-0.75), OxyR(-0.69)
316 +
317 +The corresponding eigenvector: (14, u'0.375*"gluconate" + -0.343*"xylulose" + -0.286*"ribulose-5-p" + -0.211*"3-keto-l-gulonate" + -0.188*"ribulose" + -0.178*"5p" + -0.170*"xylulose-p" + 0.143*"kdgp" + -0.143*"thioredoxin" + -0.130*"lactaldehyde"')
318 +
319 +The analized group = 13
320 +The corresponding TFs: GalR(0.610), GalS(0.610), HU(0.443)
321 +
322 +The corresponding eigenvector: (12, u'-0.356*"thioredoxin" + 0.267*"udpg" + 0.245*"udp-galactose" + 0.236*"d-glucose" + -0.206*"flda" + 0.200*"1-phosphate" + 0.171*"galactose-1-p" + -0.170*"disulfide" + 0.162*"amylose" + 0.162*"acetyl-coa"')
323 +
324 +The analized group = 12
325 +The corresponding TFs: ArgP(-0.43), DnaA(-0.44), NrdR(-0.34)
326 +
327 +The corresponding eigenvector: (11, u'0.218*"oxygen" + 0.200*"ketoglutarate" + 0.190*"acid" + 0.175*"flda" + 0.158*"thioredoxin" + -0.153*"vitamin" + -0.147*"acpp" + 0.132*"csgdefg_mrna" + 0.132*"csgdefg" + -0.129*"nitrite"')
328 +
329 +The analized group = 9
330 +The corresponding TFs: RcsB-BglJ(-0.52), StpA(-0.53)
331 +
332 +The corresponding eigenvector: (8, u'0.613*"phosphate" + -0.204*"6-phosphate" + 0.176*"acetyl-coa" + 0.171*"beta-d-glucose-6-p" + -0.163*"xylulose" + -0.161*"gluconate" + 0.153*"arbutin-6p" + -0.152*"6-p" + -0.150*"ribulose-5-p" + -0.141*"xylulose-p"')