Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.49999	0.019
27DAP/17DAP	1.06531	0.939
39DAP/27DAP	2.52071	0.173
41DAP/39DAP	1.60989	0.758
42DAP/41DAP	0.49173	0.397
43DAP/42DAP	1.01001	0.906
47DAP/43DAP	0.87775	0.58
52DAP/47DAP	2.37732	0.081
57DAP/52DAP	1.12743	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01881	1
17DAP/reference	0.9531	0.298
27DAP/reference	0.98385	0.694
39DAP/reference	0.92607	0.24
41DAP/reference	0.93942	0.201
42DAP/reference	0.93842	0.048
43DAP/reference	0.92433	0.148
47DAP/reference	0.84505	0.012
52DAP/reference	0.86266	0.139
57DAP/reference	0.97483	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59739	0.05
27DAP/17DAP	1.03829	0.909
39DAP/27DAP	1.75688	0.496
41DAP/39DAP	1.97703	0.049
42DAP/41DAP	0.69767	0.069
43DAP/42DAP	1.12802	0.627
47DAP/43DAP	0.88798	0.637
52DAP/47DAP	1.78978	0.1
57DAP/52DAP	1.44103	0.091
57DAP/7DAP	1.23292	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30471	0.066
17DAP/reference	0.98654	0.518
27DAP/reference	0.8394	0.051
39DAP/reference	1.16013	0.371
41DAP/reference	0.93839	0.122
42DAP/reference	1.01662	1
43DAP/reference	1.19894	0.05
47DAP/reference	1.33242	0.027
52DAP/reference	1.29139	0.098
57DAP/reference	1.27096	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96851	0.669
17DAP/reference	0.93299	0.357
27DAP/reference	0.94744	0.327
39DAP/reference	1.07733	0.281
41DAP/reference	1.09785	0.642
42DAP/reference	1.0046	0.723
43DAP/reference	1.0503	1
47DAP/reference	1.00755	1
52DAP/reference	1.01522	0.882
57DAP/reference	0.847	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29389	0.072
17DAP/reference	0.93378	0.381
27DAP/reference	1.01797	0.903
39DAP/reference	0.80396	0.026
41DAP/reference	0.90859	0.293
42DAP/reference	0.9551	0.445
43DAP/reference	0.9076	0.171
47DAP/reference	0.95495	0.357
52DAP/reference	1.18391	0.335
57DAP/reference	0.99179	0.572

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83217	0.379
26DAP/20DAP	0.71092
34DAP/26DAP	0.95779	0.944
51DAP/34DAP	0.85244
52DAP/51DAP	0.95719	1
53DAP/52DAP	1.01589	0.961
55DAP/53DAP	1.05413	1
57DAP/55DAP	0.75764	0.286
62DAP/57DAP	0.8441	0.871
68DAP/62DAP	1.4919	0.539
68DAP/14DAP	1.11673	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34873	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.054	0.029
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.16187	0.224
Mature Eggplant/Ripe Tomato	0.08151	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05994
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	1.1022
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	0.80583	0.447
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.21627
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.51345	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9846
DC3000/delta hrp 6h	2.51139
DC3000/delta hrp 12h	0.80956	1
DC3000/delta hrp 24h	1.91107	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.41946	0.042
DC3000 delta B/DC3000 delta AB	1.06783	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.34604	1
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	1.06719	1
Var 0h	0.91201	1
Var 12h I row2-row1	1.05025	0.736
Var 12h NI row2-row1	1.23476	1
Var 36h I row2-row1	1.15087	0.309
Var 36h NI row2-row1	0.83767	0.706
Var 60h I row2-row1	1.25963	0.543
Var 60h NI row2-row1	0.82002	0.292
Time course 0hI-0hNI	1.0965	0.799
Time course 12hI-12hNI	1.87672	0.006
Time course 36hI-36hNI	3.80847	0.004
Time course 60hI-60hNI	2.75241	0.009

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)	2.1516	0.286
transgenic ySAMdc/azygous control (breaker)	0.25274	0.131
transgenic ySAMdc/azygous control (red)	1.65155	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95016	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89906	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60949	1
Manapal/WT (break)	0.71397	1
Manapal/WT (red)	0.3751	0.181