Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29776	0.264
27DAP/17DAP	0.96672	0.908
39DAP/27DAP	1.34287	0.201
41DAP/39DAP	1.16124	0.549
42DAP/41DAP	1.28922	0.681
43DAP/42DAP	1.12128	1
47DAP/43DAP	1.45859	0.459
52DAP/47DAP	0.98217	0.873
57DAP/52DAP	1.10885	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86122	0.336
17DAP/reference	0.96136	0.63
27DAP/reference	1.14381	0.599
39DAP/reference	1.02195	1
41DAP/reference	1.39467	0.015
42DAP/reference	1.18797	0.058
43DAP/reference	0.9262	0.377
47DAP/reference	1.11497	0.207
52DAP/reference	1.14304	0.083
57DAP/reference	1.07849	0.783

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94935	0.496
27DAP/17DAP	1.0229	0.957
39DAP/27DAP	1.09414	0.453
41DAP/39DAP	0.92963	0.781
42DAP/41DAP	1.035	0.947
43DAP/42DAP	1.10807	0.045
47DAP/43DAP	1.0734	0.853
52DAP/47DAP	0.94572	0.739
57DAP/52DAP	0.97824	0.705
57DAP/7DAP	1.10782	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90014	0.138
17DAP/reference	0.84647	0.015
27DAP/reference	1.09655	0.551
39DAP/reference	0.76809	0.02
41DAP/reference	0.7323	0.012
42DAP/reference	0.97309	0.458
43DAP/reference	0.92042	0.279
47DAP/reference	0.99494	1
52DAP/reference	0.82136	0.017
57DAP/reference	0.80366	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9935	0.869
17DAP/reference	1.11483	0.92
27DAP/reference	0.87909	0.304
39DAP/reference	1.09009	0.639
41DAP/reference	1.13338	0.353
42DAP/reference	1.16158	0.476
43DAP/reference	1.6454	0.036
47DAP/reference	1.2867	0.089
52DAP/reference	1.47353	0.02
57DAP/reference	1.25419	0.101

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88185	0.249
17DAP/reference	1.08985	0.65
27DAP/reference	0.87642	0.184
39DAP/reference	0.99058	0.693
41DAP/reference	0.94557	0.293
42DAP/reference	1.1289	0.433
43DAP/reference	0.84868	0.158
47DAP/reference	1.25317	0.028
52DAP/reference	1.13126	0.917
57DAP/reference	1.03495	0.92

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92004	1
26DAP/20DAP	0.91244	0.512
34DAP/26DAP	1.02712	1
51DAP/34DAP	1.0305	0.883
52DAP/51DAP	0.96695	1
53DAP/52DAP	1.04621	0.882
55DAP/53DAP	1.12519	0.681
57DAP/55DAP	1.19546	0.626
62DAP/57DAP	1.06724	0.393
68DAP/62DAP	1.29539	0.713
68DAP/14DAP	0.97956	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96101	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97212	0.66
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.19891	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.84444
12-2/M82	N/A	N/A
12-4/M82	0.78917	1
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	1.19891	1
4-3/M82	1.24158	0.268
5-3/M82	1.19488	1
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	1.18635	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89171	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90589
IL12-4/WTpooled	1.16042	0.737
IL1-4/WTpooled	0.91009	0.834
WT/WTpooled	1.00503	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	0.99034	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90338	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.29545	1
DC3000/delta hrp 24h	1.11777	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80014	0.071
DC3000 delta B/DC3000 delta AB	0.9732	0.787

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	2.5044	0.936
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)	0.7649	1

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	1.30363	0.239

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)	1.08107	1
Manapal/WT (red)	N/A	N/A