Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84581	0.405
27DAP/17DAP	0.8669	0.665
39DAP/27DAP	1.12981	0.84
41DAP/39DAP	0.70572	0.143
42DAP/41DAP	1.19434	0.868
43DAP/42DAP	1.15722	1
47DAP/43DAP	0.62249	0.071
52DAP/47DAP	0.90149	0.709
57DAP/52DAP	1.0841	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14468	0.179
17DAP/reference	1.04432	0.492
27DAP/reference	0.97293	0.581
39DAP/reference	1.02933	0.545
41DAP/reference	0.97404	0.814
42DAP/reference	1.00304	0.665
43DAP/reference	0.9831	0.785
47DAP/reference	1.04025	0.728
52DAP/reference	0.90814	0.131
57DAP/reference	0.98646	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8801	0.388
27DAP/17DAP	0.87689	0.537
39DAP/27DAP	1.02577	0.718
41DAP/39DAP	1.0383	0.914
42DAP/41DAP	1.28206	0.186
43DAP/42DAP	0.90981	0.256
47DAP/43DAP	0.96047	0.757
52DAP/47DAP	0.97312	0.9
57DAP/52DAP	0.89756	0.405
57DAP/7DAP	0.88417	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07081	0.576
17DAP/reference	1.00838	0.599
27DAP/reference	0.94968	0.325
39DAP/reference	1.19133	0.09
41DAP/reference	0.90713	0.166
42DAP/reference	0.87494	0.1
43DAP/reference	1.07411	0.307
47DAP/reference	0.8878	0.128
52DAP/reference	1.18229	0.197
57DAP/reference	0.98967	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2032	0.124
17DAP/reference	1.11981	0.32
27DAP/reference	1.14095	0.192
39DAP/reference	1.17059	0.239
41DAP/reference	1.0611	0.752
42DAP/reference	1.00806	1
43DAP/reference	1.21852	0.146
47DAP/reference	0.97291	0.446
52DAP/reference	1.02153	0.988
57DAP/reference	1.28718	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23147	0.023
17DAP/reference	1.04793	0.775
27DAP/reference	0.97172	0.516
39DAP/reference	0.98388	0.544
41DAP/reference	1.08903	0.486
42DAP/reference	0.95037	0.445
43DAP/reference	1.02313	0.895
47DAP/reference	0.91906	0.215
52DAP/reference	1.03692	0.979
57DAP/reference	0.74921	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05843	0.966
26DAP/20DAP	1.22628	0.322
34DAP/26DAP	0.75692	0.44
51DAP/34DAP	1.55711	0.046
52DAP/51DAP	1.06428	0.662
53DAP/52DAP	1.09509	0.594
55DAP/53DAP	1.14523	0.834
57DAP/55DAP	1.5127	0.87
62DAP/57DAP	1.0162	1
68DAP/62DAP	0.59004	0.406
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23404	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.93939	0.058
Mature Green Tomato/Ripe Tomato	1.40879	0.399
Immature Eggplant/Mature Eggplant	0.79226	0.096
Ripe Pepper/Ripe Tomato	0.29219	0.224
Mature Eggplant/Ripe Tomato	0.32932	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94902	0.944
1-1-2/M82	1.08199	0.977
12-2/M82	1.27723	1
12-4/M82	1.07434	1
1-3/M82	1.56331	0.248
2-1-1/M82	1.09915	0.764
2-1/M82	1.22081	1
2-6/M82	0.85948	1
3-2/M82	1.85679
4-1-1/M82	1.63164	0.968
4-1/M82	1.17829
4-3-2/M82	1.0787
4-3/M82	0.89756	0.611
5-3/M82	0.99924	1
6-2/M82	1.17267	1
6-3/M82	1.06294	1
7-1/M82	1.00223	1
7-2/M82	1.04349	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10152	0.277
IL2-6/WTpooled	1.03727	0.584
IL7-5/WTpooled	1.09069	0.52
IL7-3/WTpooled	1.01534	1
IL12-4/WTpooled	1.22055	0.673
IL1-4/WTpooled	1.04126	1
WT/WTpooled	0.98137	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	1.26722	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95998	1
DC3000/delta hrp 6h	0.97587	0.95
DC3000/delta hrp 12h	1.0063	1
DC3000/delta hrp 24h	2.71446	0.04

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29009	0.11
DC3000 delta B/DC3000 delta AB	1.19709	0.198

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92222	0.328
Exp 36h	1.03909	1
Exp 60h	0.99894	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97285	1
Var 0h	1.0378	1
Var 12h I row2-row1	0.86118	0.363
Var 12h NI row2-row1	1.18367	0.191
Var 36h I row2-row1	1.02981	1
Var 36h NI row2-row1	0.99038	0.852
Var 60h I row2-row1	0.71643	0.285
Var 60h NI row2-row1	0.87652	0.458
Time course 0hI-0hNI	0.94764	0.349
Time course 12hI-12hNI	1.06541	0.639
Time course 36hI-36hNI	1.46473	0.015
Time course 60hI-60hNI	4.9321	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)	0.60346	0.222
transgenic ySAMdc/azygous control (breaker)	1.35332	0.178
transgenic ySAMdc/azygous control (red)	0.92603	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.7413	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19455	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03738	1
Manapal/WT (break)	0.82413	1
Manapal/WT (red)	0.87799	0.229