Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97864	0.779
27DAP/17DAP	1.09798	0.859
39DAP/27DAP	1.13959	0.841
41DAP/39DAP	1.09135	0.822
42DAP/41DAP	1.20963	0.913
43DAP/42DAP	1.0781	1
47DAP/43DAP	1.1787	0.746
52DAP/47DAP	0.90942	0.675
57DAP/52DAP	1.27844	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98207	0.63
17DAP/reference	0.94066	0.597
27DAP/reference	1.1988	0.146
39DAP/reference	0.93783	0.276
41DAP/reference	1.26032	0.111
42DAP/reference	1.10397	0.13
43DAP/reference	0.69801	0.073
47DAP/reference	1.17666	0.069
52DAP/reference	1.26359	0.053
57DAP/reference	1.86252

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29613	0.068
27DAP/17DAP	0.91158	0.614
39DAP/27DAP	0.97073	0.768
41DAP/39DAP	1.08457	1
42DAP/41DAP	1.17411	0.487
43DAP/42DAP	0.71762	0.022
47DAP/43DAP	1.03108	0.906
52DAP/47DAP	0.84454	0.099
57DAP/52DAP	1.04056	0.984
57DAP/7DAP	0.81743	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99318	0.682
17DAP/reference	0.94674	0.108
27DAP/reference	0.96637	0.325
39DAP/reference	0.84803	0.039
41DAP/reference	0.95418	0.489
42DAP/reference	0.80619	0.046
43DAP/reference	0.96944	0.421
47DAP/reference	1.13244	0.571
52DAP/reference	1.12622	0.266
57DAP/reference	1.07116	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92701	0.412
17DAP/reference	1.01452	0.999
27DAP/reference	1.058	1
39DAP/reference	1.00242	0.682
41DAP/reference	1.09994	0.562
42DAP/reference	1.03487	1
43DAP/reference	0.87027	0.196
47DAP/reference	1.06842	0.4
52DAP/reference	0.96691	0.38
57DAP/reference	0.86085	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94634	0.23
17DAP/reference	0.99023	0.751
27DAP/reference	0.94551	0.465
39DAP/reference	0.95362	0.199
41DAP/reference	0.93369	0.167
42DAP/reference	0.92389	0.287
43DAP/reference	1.17577	0.079
47DAP/reference	1.2164	0.077
52DAP/reference	1.08744	0.614
57DAP/reference	1.25607	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95677	1
26DAP/20DAP	1.1081	0.608
34DAP/26DAP	0.83274	0.356
51DAP/34DAP	1.09212	0.759
52DAP/51DAP	0.97918	1
53DAP/52DAP	1.32553	0.085
55DAP/53DAP	0.90551	0.35
57DAP/55DAP	1.4151	0.13
62DAP/57DAP	0.82498	0.28
68DAP/62DAP	1.30646	0.095
68DAP/14DAP	1.19807	0.87

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76494	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.65176	0.16
Mature Green Tomato/Ripe Tomato	1.23589	0.149
Immature Eggplant/Mature Eggplant	1.42935	0.05
Ripe Pepper/Ripe Tomato	1.47716	0.256
Mature Eggplant/Ripe Tomato	1.94981	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12076	1
1-1-2/M82	1.04317	1
12-2/M82	0.85549	0.955
12-4/M82	0.75655	0.25
1-3/M82	1.68164	0.248
2-1-1/M82	0.99791	1
2-1/M82	1.08623	1
2-6/M82	1.06492	0.505
3-2/M82	1.05952
4-1-1/M82	0.97935	1
4-1/M82	0.79011	1
4-3-2/M82	0.90564	1
4-3/M82	1.15629	1
5-3/M82	1.04238	1
6-2/M82	1.16369	1
6-3/M82	1.07531	1
7-1/M82	0.99802	1
7-2/M82	1.12405	1
9-3-2/M82	1.22255	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90969	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90867
IL12-4/WTpooled	1.0012	1
IL1-4/WTpooled	0.96885	0.444
WT/WTpooled	1.08882	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.04359	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.15756	1
DC3000/delta hrp 12h	0.95389	1
DC3000/delta hrp 24h	0.83624	0.319

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09579	0.073
DC3000 delta B/DC3000 delta AB	1.06433	0.462

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06403	0.254
Exp 36h	0.97516	0.943
Exp 60h	1.05999	1

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.01676	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96096	0.705
Var 12h NI row2-row1	1.01823	1
Var 36h I row2-row1	1.21529	0.368
Var 36h NI row2-row1	1.1486	1
Var 60h I row2-row1	0.84911	0.292
Var 60h NI row2-row1	0.97813	1
Time course 0hI-0hNI	0.92081	0.475
Time course 12hI-12hNI	0.99602	1
Time course 36hI-36hNI	1.00517	1
Time course 60hI-60hNI	0.94882	0.319

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.99211	0.862
transgenic ySAMdc/azygous control (breaker)	0.84804	0.173
transgenic ySAMdc/azygous control (red)	1.0878	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19938	0.317

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78297	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20807	0.14
Manapal/WT (break)	1.18844	0.183
Manapal/WT (red)	1.25979	0.222