Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94338	0.76
27DAP/17DAP	0.67931	0.392
39DAP/27DAP	1.52219	0.458
41DAP/39DAP	1.53164	0.522
42DAP/41DAP	1.05658	0.992
43DAP/42DAP	1.22166	1
47DAP/43DAP	0.79707	0.39
52DAP/47DAP	1.03994	0.98
57DAP/52DAP	1.20758	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92423	0.371
17DAP/reference	0.9909	0.858
27DAP/reference	0.99295	0.867
39DAP/reference	1.01475	0.664
41DAP/reference	0.95025	0.434
42DAP/reference	0.88272	0.002
43DAP/reference	1.01263	0.899
47DAP/reference	1.00031	0.764
52DAP/reference	0.9489	0.382
57DAP/reference	1.05348	0.211

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01476	1
27DAP/17DAP	1.07422	0.78
39DAP/27DAP	1.14902	0.27
41DAP/39DAP	1.15124	0.887
42DAP/41DAP	1.02219	0.925
43DAP/42DAP	1.19191	0.019
47DAP/43DAP	1.10971	0.63
52DAP/47DAP	1.09228	0.789
57DAP/52DAP	0.94641	0.555
57DAP/7DAP	0.74497	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02742	1
17DAP/reference	1.07709	0.437
27DAP/reference	0.92234	0.066
39DAP/reference	0.93946	0.307
41DAP/reference	0.98404	0.565
42DAP/reference	0.69724	0.014
43DAP/reference	1.01436	1
47DAP/reference	0.95616	0.504
52DAP/reference	0.96418	0.363
57DAP/reference	0.95093	0.328

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89829	0.14
17DAP/reference	0.8963	0.047
27DAP/reference	0.84844	0.056
39DAP/reference	0.88213	0.045
41DAP/reference	0.88081	0.014
42DAP/reference	0.8455	0.02
43DAP/reference	0.94201	0.328
47DAP/reference	0.86439	0.013
52DAP/reference	0.96653	0.143
57DAP/reference	0.89477	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86704	0.048
17DAP/reference	0.9157	0.358
27DAP/reference	1.17202	0.062
39DAP/reference	0.96281	0.199
41DAP/reference	0.95416	0.512
42DAP/reference	0.84955	0.134
43DAP/reference	1.00173	0.858
47DAP/reference	0.92362	0.084
52DAP/reference	1.18125	0.499
57DAP/reference	0.88797	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92287	0.89
26DAP/20DAP	0.78426	0.512
34DAP/26DAP	1.4043	0.542
51DAP/34DAP	1.00722	0.917
52DAP/51DAP	1.13196	0.579
53DAP/52DAP	1.20427	0.072
55DAP/53DAP	1.2206	0.241
57DAP/55DAP	1.02393	1
62DAP/57DAP	1.02335	0.935
68DAP/62DAP	0.85484	0.505
68DAP/14DAP	1.13674	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77509	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	5.64946	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	317.734

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	0.53836	1
IL2-6/WTpooled	1.04289	1
IL7-5/WTpooled	1.12951	1
IL7-3/WTpooled	1.06008	1
IL12-4/WTpooled	1.15899	0.646
IL1-4/WTpooled	0.90659	0.834
WT/WTpooled	1.02735	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	1.01237
DC3000/delta hrp 6h	0.52642	0.613
DC3000/delta hrp 12h	1.08924	1
DC3000/delta hrp 24h	2.85405	0.022

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.06213
DC3000 delta B/DC3000 delta AB	2.70201	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.31546	0.693
Exp 60h	1.39211	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98017
Var 0h	N/A	N/A
Var 12h I row2-row1	0.83046
Var 12h NI row2-row1	0.97683	0.906
Var 36h I row2-row1	1.22574	0.742
Var 36h NI row2-row1	1.01145	1
Var 60h I row2-row1	0.95939	0.952
Var 60h NI row2-row1	0.80152	0.69
Time course 0hI-0hNI	1.07644	0.852
Time course 12hI-12hNI	0.98435	1
Time course 36hI-36hNI	1.02035	0.665
Time course 60hI-60hNI	16.7172	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.89078	0.248
transgenic ySAMdc/azygous control (red)	1.26969	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96649	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63414	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26044	0.307
Manapal/WT (break)	1.18957	1
Manapal/WT (red)	N/A	N/A