Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.2.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7075	0.169
27DAP/17DAP	0.84084	0.697
39DAP/27DAP	0.77105	0.507
41DAP/39DAP	2.19359	0.423
42DAP/41DAP	1.62731	0.751
43DAP/42DAP	1.60001	0.861
47DAP/43DAP	1.35515	0.618
52DAP/47DAP	1.13218	0.973
57DAP/52DAP	1.80555	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04382	0.421
17DAP/reference	1.02799	0.318
27DAP/reference	0.96361	0.444
39DAP/reference	0.98494	0.762
41DAP/reference	1.01845	0.808
42DAP/reference	0.99408	0.517
43DAP/reference	1.03006	0.569
47DAP/reference	1.0098	0.91
52DAP/reference	1.10782	0.096
57DAP/reference	0.99078	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89957	0.526
27DAP/17DAP	0.8693	0.537
39DAP/27DAP	1.15853	0.471
41DAP/39DAP	1.15508	0.748
42DAP/41DAP	0.9231	0.552
43DAP/42DAP	0.96719	0.729
47DAP/43DAP	1.06976	0.822
52DAP/47DAP	0.96043	0.898
57DAP/52DAP	0.89828	0.405
57DAP/7DAP	0.74675	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9321	0.361
17DAP/reference	0.65731	0.014
27DAP/reference	0.65486	0.039
39DAP/reference	0.89132	0.198
41DAP/reference	1.2211	0.336
42DAP/reference	0.91629	0.289
43DAP/reference	0.91427	0.351
47DAP/reference	0.97881	0.671
52DAP/reference	0.96343	0.435
57DAP/reference	1.06978	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15162	0.108
17DAP/reference	0.92441	0.092
27DAP/reference	1.00355	1
39DAP/reference	0.92031	0.085
41DAP/reference	0.98023	0.459
42DAP/reference	0.90152	0.067
43DAP/reference	0.91494	0.196
47DAP/reference	0.97818	0.328
52DAP/reference	0.9595	0.143
57DAP/reference	0.90701	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.58567	0.135
17DAP/reference	0.83636	0.221
27DAP/reference	0.90333	N/A
39DAP/reference	1.05158	0.512
41DAP/reference	0.68696	0.058
42DAP/reference	0.76639	0.108
43DAP/reference	0.96097	0.294
47DAP/reference	1.00203	0.731
52DAP/reference	1.14438	0.575
57DAP/reference	1.02179	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0926	0.966
26DAP/20DAP	0.9919	1
34DAP/26DAP	0.92198	0.702
51DAP/34DAP	0.69997	0.094
52DAP/51DAP	0.86057	1
53DAP/52DAP	1.49128	0.086
55DAP/53DAP	1.22907	0.477
57DAP/55DAP	1.35422	0.71
62DAP/57DAP	0.98953	0.994
68DAP/62DAP	1.07862	0.899
68DAP/14DAP	1.01529	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13041	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.20868	0.06
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.80307	0.05
Ripe Pepper/Ripe Tomato	0.69466	0.224
Mature Eggplant/Ripe Tomato	0.43525	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94811	0.736
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	2.08878	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	1.0291	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	0.83746	0.381
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	0.44784	0.348
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.40616	1
IL12-4/WTpooled	1.10602	0.839
IL1-4/WTpooled	0.86325	0.699
WT/WTpooled	1.12465	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	1.06811	0.921
DC3000/delta hrp 6h	1.04712	1
DC3000/delta hrp 12h	0.91126	1
DC3000/delta hrp 24h	1.11953	0.264

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	2.03694	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00495	1
Exp 36h	1.26944	1
Exp 60h	1.13207	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00955	1
Var 0h	1.05075	0.98
Var 12h I row2-row1	0.96348	1
Var 12h NI row2-row1	0.79955	0.82
Var 36h I row2-row1	0.91043	1
Var 36h NI row2-row1	2.17901	1
Var 60h I row2-row1	0.56569	N/A
Var 60h NI row2-row1	1.2972	1
Time course 0hI-0hNI	1.08905	1
Time course 12hI-12hNI	0.95051	0.87
Time course 36hI-36hNI	0.94284	0.494
Time course 60hI-60hNI	1.45351	0.069

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)	1.02345	0.511
transgenic ySAMdc/azygous control (breaker)	0.71436	0.173
transgenic ySAMdc/azygous control (red)	0.89732	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	0.87971	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86879	1
Manapal/WT (break)	0.82041	1
Manapal/WT (red)	0.83987	0.503