Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.2.8.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85123	0.381
27DAP/17DAP	4.5339	0.474
39DAP/27DAP	0.99368	0.82
41DAP/39DAP	1.29487	0.696
42DAP/41DAP	1.49892	0.685
43DAP/42DAP	0.89461	0.827
47DAP/43DAP	1.33318	0.689
52DAP/47DAP	1.02181	0.95
57DAP/52DAP	1.04384	0.985

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90508	0.101
17DAP/reference	1.1062	0.148
27DAP/reference	0.98995	0.741
39DAP/reference	1.18594	0.058
41DAP/reference	1.12255	0.421
42DAP/reference	0.93055	0.157
43DAP/reference	1.06642	0.34
47DAP/reference	0.8933	0.06
52DAP/reference	0.89528	0.131
57DAP/reference	0.8078	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80825	0.336
27DAP/17DAP	1.00703	1
39DAP/27DAP	0.99877	1
41DAP/39DAP	1.08364	0.896
42DAP/41DAP	1.01884	1
43DAP/42DAP	1.35684	0.162
47DAP/43DAP	1.09787	0.713
52DAP/47DAP	0.91137	0.702
57DAP/52DAP	1.46102	0.093
57DAP/7DAP	1.57062	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91779	0.168
17DAP/reference	1.09438	0.199
27DAP/reference	1.38715	0.012
39DAP/reference	1.05552	1
41DAP/reference	0.8647	0.107
42DAP/reference	0.83775	0.06
43DAP/reference	0.97522	0.459
47DAP/reference	0.73169	0.101
52DAP/reference	0.79439	0.057
57DAP/reference	1.0743	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06555	0.787
17DAP/reference	1.0297	0.708
27DAP/reference	1.02294	1
39DAP/reference	0.90698	0.265
41DAP/reference	0.892	0.16
42DAP/reference	0.97171	0.482
43DAP/reference	1.25242	0.142
47DAP/reference	1.07064	0.4
52DAP/reference	1.25295	0.156
57DAP/reference	1.36121	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90151	0.197
17DAP/reference	1.06722	0.712
27DAP/reference	1.19193	0.07
39DAP/reference	1.01883	0.987
41DAP/reference	1.08378	0.502
42DAP/reference	0.91227	0.087
43DAP/reference	0.81018	0.179
47DAP/reference	0.96569	0.478
52DAP/reference	0.77665	0.134
57DAP/reference	0.73388	0.047

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30885	0.966
26DAP/20DAP	0.99878	1
34DAP/26DAP	0.82124	0.642
51DAP/34DAP	0.80701	0.101
52DAP/51DAP	1.23727	0.704
53DAP/52DAP	1.01063	0.862
55DAP/53DAP	1.07602	0.981
57DAP/55DAP	0.92613	0.652
62DAP/57DAP	1.55829	0.622
68DAP/62DAP	0.96941	0.863
68DAP/14DAP	1.04549	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.26195	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04517	N/A
Mature Green Tomato/Ripe Tomato	0.2063	N/A
Immature Eggplant/Mature Eggplant	0.73574	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	0.9775	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.49799	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	0.6916	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.89012	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	0.83668	0.916
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	N/A	N/A
IL2-6/WTpooled	1.36202	0.46
IL7-5/WTpooled	1.86061	N/A
IL7-3/WTpooled	1.06942	1
IL12-4/WTpooled	0.84977	1
IL1-4/WTpooled	1.77732	0.426
WT/WTpooled	1.0619	0.911

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	0.91455	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.718	N/A
DC3000/delta hrp 6h	0.86036	0.95
DC3000/delta hrp 12h	1.03382	1
DC3000/delta hrp 24h	0.63849	0.037

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	0.51352	0.21

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.82418	0.661
Exp 60h	0.74263	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98387	1
Var 0h	0.80756	0.933
Var 12h I row2-row1	0.87131	0.514
Var 12h NI row2-row1	1.06525	1
Var 36h I row2-row1	0.97775	1
Var 36h NI row2-row1	0.88928	0.61
Var 60h I row2-row1	1.04019	1
Var 60h NI row2-row1	0.9655	1
Time course 0hI-0hNI	0.95215	0.687
Time course 12hI-12hNI	0.99274	0.991
Time course 36hI-36hNI	0.91466	0.071
Time course 60hI-60hNI	0.42715	0.005

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)	1.06485	0.541
transgenic ySAMdc/azygous control (breaker)	0.75232	0.173
transgenic ySAMdc/azygous control (red)	1.02115	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08119	0.1

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)	0.64602	0.172
Manapal/WT (break)	0.93896	1
Manapal/WT (red)	0.68123	0.181