Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.14.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19158	0.561
27DAP/17DAP	2.0368	0.804
39DAP/27DAP	1.79506	0.579
41DAP/39DAP	1.44963	0.722
42DAP/41DAP	1.33548	0.873
43DAP/42DAP	1.31333	1
47DAP/43DAP	1.59734	0.609
52DAP/47DAP	1.63812	0.388
57DAP/52DAP	1.09886	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.16198	0.009
17DAP/reference	1.88823	0.025
27DAP/reference	1.57351	0.021
39DAP/reference	1.0921	0.434
41DAP/reference	1.01189	0.963
42DAP/reference	1.61783	0.001
43DAP/reference	1.01238	0.84
47DAP/reference	1.0921	0.329
52DAP/reference	0.88083	0.267
57DAP/reference	1.03574	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93567	0.679
27DAP/17DAP	1.2068	0.685
39DAP/27DAP	1.9849	0.514
41DAP/39DAP	2.74412
42DAP/41DAP	0.90455	0.603
43DAP/42DAP	0.48846
47DAP/43DAP	1.35406	0.796
52DAP/47DAP	2.41864	0.173
57DAP/52DAP	N/A	N/A
57DAP/7DAP	0.37268

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83324	0.146
17DAP/reference	0.77044	0.011
27DAP/reference	0.79432	0.062
39DAP/reference	0.86652	0.056
41DAP/reference	0.73833	0.02
42DAP/reference	0.74616	0.023
43DAP/reference	0.77908	0.014
47DAP/reference	0.95844	0.504
52DAP/reference	0.74243	0.015
57DAP/reference	0.7852	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81608	0.441
17DAP/reference	1.70878	0.243
27DAP/reference	1.42389	0.345
39DAP/reference	0.86206	0.289
41DAP/reference	1.05686	0.766
42DAP/reference	1.5373	0.281
43DAP/reference	1.19003	0.288
47DAP/reference	1.18651	0.731
52DAP/reference	0.73802	0.008
57DAP/reference	0.62887	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93392	0.362
17DAP/reference	1.36363	0.585
27DAP/reference	0.89352	0.27
39DAP/reference	0.76089	0.026
41DAP/reference	1.03953	0.889
42DAP/reference	0.98953	0.671
43DAP/reference	0.86385	0.281
47DAP/reference	1.11246	0.877
52DAP/reference	0.75281	0.208
57DAP/reference	1.16055	0.744

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00774	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.37982
51DAP/34DAP	1.02337	0.901
52DAP/51DAP	0.40679
53DAP/52DAP	2.14186	0.029
55DAP/53DAP	0.95222	0.82
57DAP/55DAP	2.02069
62DAP/57DAP	0.86957	0.028
68DAP/62DAP	0.55181
68DAP/14DAP	0.66709

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	N/A
IL2-6/WTpooled	1.01284	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.91247	1
IL12-4/WTpooled	1.00304	1
IL1-4/WTpooled	0.97796	0.476
WT/WTpooled	0.99709	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	N/A	N/A

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	0.3919
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	0.8747	0.332
Var 12h I row2-row1	1.04009
Var 12h NI row2-row1	0.80318
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.00407	1
Var 60h I row2-row1	0.88794
Var 60h NI row2-row1	1.05746
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	2.02023	0.237

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)	N/A	N/A
Manapal/WT (red)	2.26003	0.222