Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16234	0.83
27DAP/17DAP	1.28685	0.854
39DAP/27DAP	1.38659	0.615
41DAP/39DAP	1.03625	0.879
42DAP/41DAP	1.22857	1
43DAP/42DAP	1.11092	0.937
47DAP/43DAP	0.95305	0.736
52DAP/47DAP	1.636	0.518
57DAP/52DAP	0.84594	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56382	0.036
17DAP/reference	0.89701
27DAP/reference	0.98977	0.763
39DAP/reference	0.45488	0.004
41DAP/reference	1.03706	1
42DAP/reference	1.03875	1
43DAP/reference	N/A	N/A
47DAP/reference	1.01929
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0414	1
27DAP/17DAP	0.96599	0.887
39DAP/27DAP	0.62113	0.036
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.21363	0.852
43DAP/42DAP	0.76266	0.246
47DAP/43DAP	0.73092	0.166
52DAP/47DAP	1.16149
57DAP/52DAP	0.13808
57DAP/7DAP	0.02886	0.159

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04221	0.91
17DAP/reference	0.91514	0.167
27DAP/reference	0.82229	0.025
39DAP/reference	0.98248	0.474
41DAP/reference	0.8272	0.111
42DAP/reference	0.9341	0.355
43DAP/reference	0.77917	0.051
47DAP/reference	0.55292	0.066
52DAP/reference	0.77509	0.046
57DAP/reference	0.69331	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87235
17DAP/reference	2.49681
27DAP/reference	1.10745
39DAP/reference	0.81159
41DAP/reference	0.95512	0.557
42DAP/reference	N/A	N/A
43DAP/reference	1.16772	0.479
47DAP/reference	1.16013	0.061
52DAP/reference	0.36213
57DAP/reference	1.01576

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19113	0.103
17DAP/reference	1.33077	0.125
27DAP/reference	0.86342	0.257
39DAP/reference	0.93857	0.43
41DAP/reference	0.83637	0.185
42DAP/reference	0.81775	0.108
43DAP/reference	0.91346	0.348
47DAP/reference	N/A	N/A
52DAP/reference	0.71521	0.169
57DAP/reference	0.75906	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.98088	0.966
26DAP/20DAP	1.08676	1
34DAP/26DAP	1.49837	0.059
51DAP/34DAP	1.02571	0.957
52DAP/51DAP	3.77937
53DAP/52DAP	0.47869
55DAP/53DAP	1.24427	0.79
57DAP/55DAP	0.39792
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.95582	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70274	0.243
IL2-6/WTpooled	0.71329	0.473
IL7-5/WTpooled	0.96351	1
IL7-3/WTpooled	0.95674	1
IL12-4/WTpooled	0.79597	0.581
IL1-4/WTpooled	0.87813	0.562
WT/WTpooled	1.0625	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	0.95044	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	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.6873	1
Manapal/WT (red)	1.18187	1