Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25528	0.348
27DAP/17DAP	1.37952	0.742
39DAP/27DAP	0.96326	0.67
41DAP/39DAP	1.39078	0.488
42DAP/41DAP	1.03292	1
43DAP/42DAP	0.88962	0.767
47DAP/43DAP	1.18181	0.49
52DAP/47DAP	1.14946	0.688
57DAP/52DAP	0.95694	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84497	0.041
17DAP/reference	0.93	0.224
27DAP/reference	1.03781	0.612
39DAP/reference	0.99175	0.855
41DAP/reference	0.96117	0.341
42DAP/reference	0.92529	0.046
43DAP/reference	0.97646	0.708
47DAP/reference	1.13181	0.062
52DAP/reference	1.10102	0.912
57DAP/reference	1.12111	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96883	0.526
27DAP/17DAP	1.12303	0.653
39DAP/27DAP	1.32649	0.127
41DAP/39DAP	0.79307	0.372
42DAP/41DAP	1.09137	0.635
43DAP/42DAP	1.13485	0.147
47DAP/43DAP	1.00463	1
52DAP/47DAP	1.15973	0.492
57DAP/52DAP	0.85467	0.1
57DAP/7DAP	0.80999

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2046	0.104
17DAP/reference	0.91576	0.124
27DAP/reference	1.02606	1
39DAP/reference	1.05383	1
41DAP/reference	0.87451	0.04
42DAP/reference	0.76362	0.023
43DAP/reference	0.97931	0.502
47DAP/reference	0.94778	0.504
52DAP/reference	1.12484	0.328
57DAP/reference	1.07914	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89816	0.238
17DAP/reference	0.78019	0.022
27DAP/reference	0.72287	0.032
39DAP/reference	0.72632	0.011
41DAP/reference	0.74467	0.024
42DAP/reference	0.75263	0.037
43DAP/reference	0.82971	0.108
47DAP/reference	0.78497	0.013
52DAP/reference	0.82608	0.01
57DAP/reference	0.78853	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02724	0.75
17DAP/reference	0.95279	0.381
27DAP/reference	0.94719	0.133
39DAP/reference	0.88869	0.101
41DAP/reference	0.98619	0.682
42DAP/reference	0.90677	0.361
43DAP/reference	1.02353	0.796
47DAP/reference	0.89148	0.153
52DAP/reference	1.01841	0.876
57DAP/reference	1.07331	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11002	0.966
26DAP/20DAP	0.88639	0.512
34DAP/26DAP	0.88459	0.693
51DAP/34DAP	1.4574	0.033
52DAP/51DAP	0.99777	1
53DAP/52DAP	1.66797	0.044
55DAP/53DAP	1.28978	0.049
57DAP/55DAP	1.03847	1
62DAP/57DAP	0.65854	0.005
68DAP/62DAP	1.05607	1
68DAP/14DAP	1.71059	0.044

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09871	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88666	0.384
Mature Green Tomato/Ripe Tomato	0.82638	0.226
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.23681	0.224
Mature Eggplant/Ripe Tomato	0.1334	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96419	0.961
1-1-2/M82	0.95836	1
12-2/M82	1.00285
12-4/M82	0.98948	1
1-3/M82	0.91875	0.501
2-1-1/M82	0.98535	1
2-1/M82	0.96061	1
2-6/M82	1.10645	1
3-2/M82	0.85519	0.752
4-1-1/M82	1.02781	1
4-1/M82	1.54116	0.512
4-3-2/M82	1.06994	1
4-3/M82	1.28839	0.268
5-3/M82	0.75953	0.49
6-2/M82	0.89446	1
6-3/M82	1.16749	1
7-1/M82	1.02541	1
7-2/M82	0.99256	1
9-3-2/M82	1.21825	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.56751	0.243
IL2-6/WTpooled	1.08843	0.46
IL7-5/WTpooled	0.80177	1
IL7-3/WTpooled	0.73799	0.294
IL12-4/WTpooled	0.93878	1
IL1-4/WTpooled	0.83497	0.415
WT/WTpooled	1.02237	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	1.02218	0.921
DC3000/delta hrp 6h	0.93698	0.95
DC3000/delta hrp 12h	1.18989	1
DC3000/delta hrp 24h	0.99143	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.06227	0.25
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11492	1
Exp 36h	0.89507	0.749
Exp 60h	0.96703	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0228	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96095	0.856
Var 12h NI row2-row1	0.80168	0.403
Var 36h I row2-row1	1.15092	1
Var 36h NI row2-row1	1.15664	1
Var 60h I row2-row1	1.24841	1
Var 60h NI row2-row1	0.97365	1
Time course 0hI-0hNI	1.03423	0.799
Time course 12hI-12hNI	0.89658	0.191
Time course 36hI-36hNI	0.84275	0.08
Time course 60hI-60hNI	0.81513	0.161

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)	1.00997	1
transgenic ySAMdc/azygous control (breaker)	1.00909	1
transgenic ySAMdc/azygous control (red)	0.87682	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99793	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.42323	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94813	1
Manapal/WT (break)	0.85214	1
Manapal/WT (red)	0.84692	0.181