Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.18.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07282	0.919
27DAP/17DAP	1.40207	0.588
39DAP/27DAP	0.95204	0.67
41DAP/39DAP	1.28832	0.715
42DAP/41DAP	0.81363	1
43DAP/42DAP	0.98389	0.912
47DAP/43DAP	1.45956	0.394
52DAP/47DAP	0.96024	0.816
57DAP/52DAP	1.16238	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78993	0.103
17DAP/reference	0.84945	0.147
27DAP/reference	0.87065	0.24
39DAP/reference	0.92517	0.475
41DAP/reference	0.92112	0.434
42DAP/reference	1.48818	0.001
43DAP/reference	1.0589	0.518
47DAP/reference	1.10541	0.148
52DAP/reference	0.94504	0.371
57DAP/reference	0.88683	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77136	0.057
27DAP/17DAP	0.83886	0.475
39DAP/27DAP	1.63255	0.117
41DAP/39DAP	1.89857	0.009
42DAP/41DAP	0.45894	0.011
43DAP/42DAP	1.297	0.162
47DAP/43DAP	1.12724	0.674
52DAP/47DAP	2.07844	0.046
57DAP/52DAP	1.73596	0.029
57DAP/7DAP	1.45808	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13699	0.311
17DAP/reference	0.98088	0.518
27DAP/reference	1.36093	0.009
39DAP/reference	1.31641	0.096
41DAP/reference	1.3791	0.016
42DAP/reference	2.26092	0.006
43DAP/reference	2.14153	0.006
47DAP/reference	1.53834	0.015
52DAP/reference	1.67615	0.007
57DAP/reference	2.11631	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63871	0.008
17DAP/reference	0.85129	0.033
27DAP/reference	0.8963	0.188
39DAP/reference	0.86497	0.076
41DAP/reference	0.9581	0.348
42DAP/reference	1.00809	0.723
43DAP/reference	1.03126	0.681
47DAP/reference	1.56513	0.013
52DAP/reference	0.72715	0.006
57DAP/reference	1.01537	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86322	0.068
17DAP/reference	0.80582	0.146
27DAP/reference	1.07412	0.487
39DAP/reference	1.06069	0.218
41DAP/reference	0.8826	0.185
42DAP/reference	0.93396	0.361
43DAP/reference	1.05675	0.88
47DAP/reference	0.99197	0.646
52DAP/reference	1.15126	0.398
57DAP/reference	1.17685	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46247	0.496
26DAP/20DAP	1.19918	1
34DAP/26DAP	1.71408	0.819
51DAP/34DAP	0.75837	0.264
52DAP/51DAP	2.25212	0.704
53DAP/52DAP	0.73709	0.417
55DAP/53DAP	1.2054	0.904
57DAP/55DAP	1.10333	1
62DAP/57DAP	1.26578	0.723
68DAP/62DAP	1.29444	0.707
68DAP/14DAP	0.9267	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.09312	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69015	0.21
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.24206	0.05
Ripe Pepper/Ripe Tomato	0.19779	0.224
Mature Eggplant/Ripe Tomato	0.08326	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88511	0.883
1-1-2/M82	1.00309	1
12-2/M82	1.20067	1
12-4/M82	1.13558	1
1-3/M82	2.75845	0.248
2-1-1/M82	1.43371	0.457
2-1/M82	1.23905	1
2-6/M82	1.803	0.405
3-2/M82	1.2524
4-1-1/M82	2.44897	0.977
4-1/M82	1.14198
4-3-2/M82	2.18291
4-3/M82	2.12745	1
5-3/M82	0.90868	0.642
6-2/M82	N/A	N/A
6-3/M82	1.19024	1
7-1/M82	0.76325
7-2/M82	2.08023	0.302
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20383	0.277
IL2-6/WTpooled	1.23871	0.395
IL7-5/WTpooled	1.20418	1
IL7-3/WTpooled	1.05283	1
IL12-4/WTpooled	1.03203	0.839
IL1-4/WTpooled	1.02877	1
WT/WTpooled	1.03779	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	1.23562	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00778	1
DC3000/delta hrp 6h	1.38397	0.978
DC3000/delta hrp 12h	1.19513	1
DC3000/delta hrp 24h	1.73896	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	4.1429
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	1.19811	0.254
Exp 36h	1.71527	0.409
Exp 60h	1.46286	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98324	1
Var 0h	0.45647	0.332
Var 12h I row2-row1	1.37563	0.216
Var 12h NI row2-row1	1.52731	0.281
Var 36h I row2-row1	1.27402	0.489
Var 36h NI row2-row1	0.76763	0.645
Var 60h I row2-row1	1.12592	1
Var 60h NI row2-row1	0.46183	0.69
Time course 0hI-0hNI	1.27923	0.486
Time course 12hI-12hNI	6.48007	0.004
Time course 36hI-36hNI	6.3565	0.004
Time course 60hI-60hNI	14.1336	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)	1.11948	0.748
transgenic ySAMdc/azygous control (breaker)	0.66339	0.139
transgenic ySAMdc/azygous control (red)	1.14603	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.3997	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61344	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91481	1
Manapal/WT (break)	0.74243	1
Manapal/WT (red)	0.92538	0.728