Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03374	0.823
27DAP/17DAP	1.11146	0.849
39DAP/27DAP	1.32306	0.287
41DAP/39DAP	0.90748	0.641
42DAP/41DAP	1.11438	0.899
43DAP/42DAP	0.78023	0.61
47DAP/43DAP	0.94577	0.724
52DAP/47DAP	1.07872	0.96
57DAP/52DAP	1.71827	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01255	0.756
17DAP/reference	0.88161	0.158
27DAP/reference	0.98611	0.725
39DAP/reference	0.99047	0.841
41DAP/reference	0.9607	0.542
42DAP/reference	0.97677	0.278
43DAP/reference	1.02445	0.73
47DAP/reference	1.29465	0.005
52DAP/reference	1.17036	0.041
57DAP/reference	1.31252	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82052	0.116
27DAP/17DAP	1.1786	0.35
39DAP/27DAP	1.12242	0.512
41DAP/39DAP	1.03845	1
42DAP/41DAP	1.12234	0.316
43DAP/42DAP	1.18515	0.212
47DAP/43DAP	1.00242	0.99
52DAP/47DAP	0.83129	0.147
57DAP/52DAP	0.87843	0.434
57DAP/7DAP	0.95752	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13927	0.263
17DAP/reference	1.03962	0.971
27DAP/reference	1.04205	1
39DAP/reference	1.05961	0.538
41DAP/reference	1.16125	0.121
42DAP/reference	1.0306	0.889
43DAP/reference	1.04513	0.746
47DAP/reference	1.28953	0.083
52DAP/reference	1.02844	0.732
57DAP/reference	0.90682	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14625	0.41
17DAP/reference	0.92499	0.253
27DAP/reference	1.0562	0.735
39DAP/reference	1.07813	0.424
41DAP/reference	0.99464	0.601
42DAP/reference	1.12571	0.281
43DAP/reference	0.95126	0.423
47DAP/reference	1.12327	0.101
52DAP/reference	0.93658	0.22
57DAP/reference	0.91948	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95512	0.526
17DAP/reference	0.99162	0.792
27DAP/reference	1.04133	0.51
39DAP/reference	1.09596	0.578
41DAP/reference	0.96489	0.293
42DAP/reference	1.00719	0.816
43DAP/reference	1.03596	0.827
47DAP/reference	1.04081	0.966
52DAP/reference	1.13807	0.473
57DAP/reference	1.3091	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15904	0.966
26DAP/20DAP	1.12081	0.642
34DAP/26DAP	0.81099	0.584
51DAP/34DAP	1.26469	0.059
52DAP/51DAP	0.93448	1
53DAP/52DAP	0.7697	0.276
55DAP/53DAP	0.60559	0.016
57DAP/55DAP	1.81415	0.106
62DAP/57DAP	1.14412	0.767
68DAP/62DAP	1.31904	0.242
68DAP/14DAP	1.74745	0.023

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.62906	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57214	0.163
Mature Green Tomato/Ripe Tomato	0.90116	0.411
Immature Eggplant/Mature Eggplant	1.16576	0.085
Ripe Pepper/Ripe Tomato	0.70511	0.224
Mature Eggplant/Ripe Tomato	0.73568	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90053	0.651
1-1-2/M82	1.19239	1
12-2/M82	1.10353	1
12-4/M82	1.10166	1
1-3/M82	1.95711	0.26
2-1-1/M82	0.91566	0.683
2-1/M82	1.11811	1
2-6/M82	0.94883	1
3-2/M82	1.33868	0.717
4-1-1/M82	1.19521	1
4-1/M82	N/A	N/A
4-3-2/M82	0.86296	0.445
4-3/M82	1.17911	1
5-3/M82	N/A	N/A
6-2/M82	0.97084	0.481
6-3/M82	1.29533	1
7-1/M82	1.07022
7-2/M82	1.07293
9-3-2/M82	1.19978	1

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	1.0302	1
IL12-4/WTpooled	0.66974	0.543
IL1-4/WTpooled	2.02116
WT/WTpooled	1.0268	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	1.07963	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04236	1
DC3000/delta hrp 6h	0.81151	0.95
DC3000/delta hrp 12h	0.97234	1
DC3000/delta hrp 24h	2.00267	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.62592	0.042
DC3000 delta B/DC3000 delta AB	1.33065	0.149

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14895	1
Exp 36h	1.37194	0.409
Exp 60h	1.3204	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9988	1
Var 0h	0.56373	0.594
Var 12h I row2-row1	1.2579	0.296
Var 12h NI row2-row1	1.26714	0.281
Var 36h I row2-row1	0.94877	1
Var 36h NI row2-row1	0.94409	0.743
Var 60h I row2-row1	0.83458	0.285
Var 60h NI row2-row1	0.97979	1
Time course 0hI-0hNI	0.96828	0.808
Time course 12hI-12hNI	1.09933	0.467
Time course 36hI-36hNI	1.58884	0.005
Time course 60hI-60hNI	3.60392	0.008

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)	1.01124	0.921
transgenic ySAMdc/azygous control (breaker)	1.16256	0.248
transgenic ySAMdc/azygous control (red)	0.96758	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9577	0.065

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74585	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00114	1
Manapal/WT (break)	0.90812	1
Manapal/WT (red)	0.76538	0.184