Analysis of genes having pattern GCN4 in their upstream region

There is about 151 genes out of 6312 (2.39 percent) having the given pattern in their 300bp upstream region. Gene expression is deemed significantly altered if it has a p-value less than given acording to the gene specific error model of Hughes et Al. (Cell 2000)

The p-value column in the table is adjusted with Holm method to represent tablewise p-value.

The color coding is as follows:

Tablewise p-value
Testwise p-value

0.01
2.101e-05

0.05
0.000105

Experiment
p=0.0250
p=0.0500

#Signif
Signif.w. Pattern
Ratio
Corr
p-value
#Signif
Signif.w. Pattern
Ratio
Corr
p-value

anp1
384
37
4.028
0.1213
1.441e-11
541
44
3.4
0.1157
1.757e-11

arg80
5
2
16.72
0.06938
0.06505
8
3
15.68
0.08195
0.0119

ase1 (**12)
141
14
4.15
0.07502
0.0004815
244
22
3.769
0.0875
6.411e-06

bul1
35
4
4.777
0.04441
0.3892
61
7
4.797
0.05904
0.03169

ckb2
178
24
5.636
0.1241
3.973e-10
257
30
4.88
0.1257
3.054e-11

clb2
164
27
6.882
0.1508
1.372e-13
243
32
5.505
0.1416
1.71e-13

erg2
556
46
3.458
0.1203
2.208e-12
751
53
2.95
0.1129
8.499e-12

gas1
248
17
2.865
0.05968
0.007855
335
22
2.745
0.06537
0.00143

gcn4
72
23
13.35
0.208
0
92
29
13.18
0.2321
0

gln3
73
12
6.871
0.09975
8.39e-06
110
12
4.56
0.07464
0.0007866

gyp1
27
5
7.741
0.06938
0.01375
68
7
4.303
0.05431
0.0652

hda1
74
20
11.3
0.1759
6.906e-14
122
29
9.936
0.1967
0

hir2
32
1
1.306
0.003681
18.4
68
8
4.918
0.06434
0.01127

hpt1
23
6
10.9
0.09396
0.0004542
30
9
12.54
0.125
1.154e-06

imp2' (**12)
29
8
11.53
0.1122
1.244e-05
66
13
8.234
0.1167
2.821e-07

isw2
90
8
3.716
0.05153
0.0878
134
13
4.055
0.0709
0.001312

jnm1
12
4
13.93
0.0885
0.003185
30
9
12.54
0.125
1.15e-06

npr2
47
10
8.894
0.1073
6.77e-06
69
12
7.27
0.1035
4.453e-06

rad57
91
17
7.809
0.1293
3.133e-09
155
19
5.124
0.1029
3.531e-07

rtg1
214
27
5.274
0.1258
8.228e-11
292
35
5.01
0.1388
1.033e-13

rts1
144
19
5.515
0.1084
1.024e-07
213
22
4.318
0.09759
5.354e-07

sgs1
87
11
5.285
0.07968
0.0004111
132
16
5.067
0.09348
6.712e-06

sir2
47
10
8.894
0.1073
6.746e-06
91
23
10.57
0.1814
0

swi4
710
51
3.003
0.1124
1.524e-11
943
59
2.615
0.1068
3.614e-11

ubr1
61
12
8.223
0.112
1.074e-06
107
25
9.767
0.1806
0

vps8
62
16
10.79
0.1529
7.718e-11
95
24
10.56
0.1853
0

yap1
55
8
6.08
0.07486
0.002236
80
11
5.748
0.08456
0.0001745

yel008w
53
21
16.56
0.2244
0
75
24
13.38
0.2127
0

yer083c
276
21
3.181
0.07362
0.0002215
407
32
3.287
0.09466
1.607e-07

CMD1 (tet promoter)
376
29
3.224
0.0883
1.604e-06
523
35
2.797
0.08534
1.719e-06

yhl029c
201
31
6.447
0.1551
0
273
37
5.665
0.1558
0

yhr011w (**14)
601
33
2.295
0.06663
0.0004757
777
36
1.937
0.05591
0.007462

ymr010w
24
4
6.967
0.05791
0.07734
59
8
5.668
0.0713
0.003837

ymr031w-a
273
39
5.972
0.166
0
389
43
4.621
0.1458
0

ymr237w
7
3
17.91
0.08833
0.007214
24
9
15.68
0.1421
1.429e-07

AUR1 (tet promoter)
159
28
7.361
0.1605
0
233
31
5.562
0.1403
3.408e-13

ERG11 (tet promoter)
1641
62
1.579
0.0549
0.005022
1980
72
1.52
0.05618
0.002658

PMA1 (tet promoter)
390
26
2.787
0.0725
0.0001698
578
32
2.314
0.06617
0.0005715

Experiment	p=0.0250					p=0.0500
	#Signif	Signif.w. Pattern	Ratio	Corr	p-value	#Signif	Signif.w. Pattern	Ratio	Corr	p-value
anp1	384	37	4.028	0.1213	1.441e-11	541	44	3.4	0.1157	1.757e-11
arg80	5	2	16.72	0.06938	0.06505	8	3	15.68	0.08195	0.0119
ase1 (**12)	141	14	4.15	0.07502	0.0004815	244	22	3.769	0.0875	6.411e-06
bul1	35	4	4.777	0.04441	0.3892	61	7	4.797	0.05904	0.03169
ckb2	178	24	5.636	0.1241	3.973e-10	257	30	4.88	0.1257	3.054e-11
clb2	164	27	6.882	0.1508	1.372e-13	243	32	5.505	0.1416	1.71e-13
erg2	556	46	3.458	0.1203	2.208e-12	751	53	2.95	0.1129	8.499e-12
gas1	248	17	2.865	0.05968	0.007855	335	22	2.745	0.06537	0.00143
gcn4	72	23	13.35	0.208	0	92	29	13.18	0.2321	0
gln3	73	12	6.871	0.09975	8.39e-06	110	12	4.56	0.07464	0.0007866
gyp1	27	5	7.741	0.06938	0.01375	68	7	4.303	0.05431	0.0652
hda1	74	20	11.3	0.1759	6.906e-14	122	29	9.936	0.1967	0
hir2	32	1	1.306	0.003681	18.4	68	8	4.918	0.06434	0.01127
hpt1	23	6	10.9	0.09396	0.0004542	30	9	12.54	0.125	1.154e-06
imp2' (**12)	29	8	11.53	0.1122	1.244e-05	66	13	8.234	0.1167	2.821e-07
isw2	90	8	3.716	0.05153	0.0878	134	13	4.055	0.0709	0.001312
jnm1	12	4	13.93	0.0885	0.003185	30	9	12.54	0.125	1.15e-06
npr2	47	10	8.894	0.1073	6.77e-06	69	12	7.27	0.1035	4.453e-06
rad57	91	17	7.809	0.1293	3.133e-09	155	19	5.124	0.1029	3.531e-07
rtg1	214	27	5.274	0.1258	8.228e-11	292	35	5.01	0.1388	1.033e-13
rts1	144	19	5.515	0.1084	1.024e-07	213	22	4.318	0.09759	5.354e-07
sgs1	87	11	5.285	0.07968	0.0004111	132	16	5.067	0.09348	6.712e-06
sir2	47	10	8.894	0.1073	6.746e-06	91	23	10.57	0.1814	0
swi4	710	51	3.003	0.1124	1.524e-11	943	59	2.615	0.1068	3.614e-11
ubr1	61	12	8.223	0.112	1.074e-06	107	25	9.767	0.1806	0
vps8	62	16	10.79	0.1529	7.718e-11	95	24	10.56	0.1853	0
yap1	55	8	6.08	0.07486	0.002236	80	11	5.748	0.08456	0.0001745
yel008w	53	21	16.56	0.2244	0	75	24	13.38	0.2127	0
yer083c	276	21	3.181	0.07362	0.0002215	407	32	3.287	0.09466	1.607e-07
CMD1 (tet promoter)	376	29	3.224	0.0883	1.604e-06	523	35	2.797	0.08534	1.719e-06
yhl029c	201	31	6.447	0.1551	0	273	37	5.665	0.1558	0
yhr011w (**14)	601	33	2.295	0.06663	0.0004757	777	36	1.937	0.05591	0.007462
ymr010w	24	4	6.967	0.05791	0.07734	59	8	5.668	0.0713	0.003837
ymr031w-a	273	39	5.972	0.166	0	389	43	4.621	0.1458	0
ymr237w	7	3	17.91	0.08833	0.007214	24	9	15.68	0.1421	1.429e-07
AUR1 (tet promoter)	159	28	7.361	0.1605	0	233	31	5.562	0.1403	3.408e-13
ERG11 (tet promoter)	1641	62	1.579	0.0549	0.005022	1980	72	1.52	0.05618	0.002658
PMA1 (tet promoter)	390	26	2.787	0.0725	0.0001698	578	32	2.314	0.06617	0.0005715