Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.7.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00576	0.858
27DAP/17DAP	1.05168	1
39DAP/27DAP	1.30168	0.395
41DAP/39DAP	0.95065	0.761
42DAP/41DAP	1.18153	0.73
43DAP/42DAP	1.06659	1
47DAP/43DAP	0.8708	0.576
52DAP/47DAP	0.87267	0.634
57DAP/52DAP	1.20136	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99302	0.707
17DAP/reference	1.05019	0.166
27DAP/reference	1.03399	0.478
39DAP/reference	0.99629	0.941
41DAP/reference	0.93824	0.201
42DAP/reference	1.03089	0.398
43DAP/reference	1.06606	0.047
47DAP/reference	1.09668	0.089
52DAP/reference	0.91491	0.223
57DAP/reference	1.29928	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06628	0.581
27DAP/17DAP	0.98578	0.943
39DAP/27DAP	0.88479	0.251
41DAP/39DAP	1.02177	0.883
42DAP/41DAP	1.15514	0.263
43DAP/42DAP	1.02494	0.746
47DAP/43DAP	0.98128	0.909
52DAP/47DAP	1.02503	0.945
57DAP/52DAP	0.90394	0.324
57DAP/7DAP	0.78848	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93294	0.445
17DAP/reference	0.85583
27DAP/reference	0.98041	0.325
39DAP/reference	0.92912	0.109
41DAP/reference	1.00415	1
42DAP/reference	1.24815
43DAP/reference	0.93338	0.145
47DAP/reference	1.01948	0.98
52DAP/reference	0.9177	0.021
57DAP/reference	1.02312	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9431	0.412
17DAP/reference	0.96369	0.378
27DAP/reference	1.02452	0.711
39DAP/reference	0.98236	0.485
41DAP/reference	0.98033	0.472
42DAP/reference	0.93137	0.108
43DAP/reference	0.96255	0.394
47DAP/reference	0.96518	0.261
52DAP/reference	0.95264	0.047
57DAP/reference	0.88086	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83073
17DAP/reference	0.92741	0.268
27DAP/reference	0.90496	0.218
39DAP/reference	0.92779	0.147
41DAP/reference	0.94531	0.05
42DAP/reference	0.96015	0.445
43DAP/reference	0.96736	0.614
47DAP/reference	1.08194	0.324
52DAP/reference	1.23675	0.095
57DAP/reference	1.72521	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90055	0.787
26DAP/20DAP	1.10745	0.654
34DAP/26DAP	1.0304	1
51DAP/34DAP	1.24915	0.458
52DAP/51DAP	1.11104	0.288
53DAP/52DAP	1.05182	0.895
55DAP/53DAP	1.18449	0.737
57DAP/55DAP	1.21535	0.376
62DAP/57DAP	1.01264	1
68DAP/62DAP	0.89479	0.195
68DAP/14DAP	0.8854	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28891	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0055	0.886
Mature Green Tomato/Ripe Tomato	1.23847	0.881
Immature Eggplant/Mature Eggplant	2.51275	0.05
Ripe Pepper/Ripe Tomato	0.56238	0.224
Mature Eggplant/Ripe Tomato	0.86986	1

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	1.62387	0.277
IL2-6/WTpooled	0.99616	1
IL7-5/WTpooled	1.18263	0.6
IL7-3/WTpooled	1.16448	1
IL12-4/WTpooled	1.25161	0.492
IL1-4/WTpooled	1.05843	1
WT/WTpooled	0.89704	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	0.94909	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99023	1
DC3000/delta hrp 6h	1.17228	1
DC3000/delta hrp 12h	0.9705	1
DC3000/delta hrp 24h	1.27088	0.113

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72061	0.023
DC3000 delta B/DC3000 delta AB	0.7931	0.08

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11868	1
Exp 36h	1.07621	1
Exp 60h	1.27822	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98605	1
Var 0h	0.95008	1
Var 12h I row2-row1	0.57105	0.338
Var 12h NI row2-row1	1.07843	0.281
Var 36h I row2-row1	0.73713	0.575
Var 36h NI row2-row1	1.25641	1
Var 60h I row2-row1	1.06261	1
Var 60h NI row2-row1	0.9731	1
Time course 0hI-0hNI	1.06657	0.719
Time course 12hI-12hNI	0.91167	0.176
Time course 36hI-36hNI	0.92465	0.139
Time course 60hI-60hNI	0.25797	0.006

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)	0.76701	0.291
transgenic ySAMdc/azygous control (breaker)	1.06306	1
transgenic ySAMdc/azygous control (red)	1.0763	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01281	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05499	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94753	1
Manapal/WT (break)	1.06032	1
Manapal/WT (red)	1.41047	0.222