Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64093	0.026
27DAP/17DAP	0.6697	0.049
39DAP/27DAP	0.92285	0.641
41DAP/39DAP	0.98503	0.854
42DAP/41DAP	1.14216	0.751
43DAP/42DAP	1.1474	0.861
47DAP/43DAP	0.88945	0.628
52DAP/47DAP	0.91536	0.736
57DAP/52DAP	0.94653	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35076	0.02
17DAP/reference	0.96885	0.368
27DAP/reference	1.12036	0.031
39DAP/reference	0.99278	0.885
41DAP/reference	0.93756	0.114
42DAP/reference	1.15499	0.022
43DAP/reference	0.99864	0.924
47DAP/reference	1.00169	1
52DAP/reference	1.1151	0.167
57DAP/reference	0.99587	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81559	0.116
27DAP/17DAP	1.34984	0.069
39DAP/27DAP	0.65122	0.046
41DAP/39DAP	0.71816	0.013
42DAP/41DAP	0.96492	0.695
43DAP/42DAP	1.25655	0.038
47DAP/43DAP	0.89392	0.254
52DAP/47DAP	0.87207	0.274
57DAP/52DAP	0.95471	0.541
57DAP/7DAP	0.71945	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10659	0.205
17DAP/reference	0.94779	0.144
27DAP/reference	0.85986	0.01
39DAP/reference	0.80348	0.011
41DAP/reference	0.82012	0.018
42DAP/reference	0.84957	0.123
43DAP/reference	0.78929	0.011
47DAP/reference	0.85834	0.222
52DAP/reference	0.74292	0.012
57DAP/reference	0.73332	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22606	0.075
17DAP/reference	1.38339	0.026
27DAP/reference	1.38126	0.031
39DAP/reference	0.98632	0.569
41DAP/reference	1.09594	0.406
42DAP/reference	1.17137	0.185
43DAP/reference	1.02086	0.91
47DAP/reference	0.98575	0.527
52DAP/reference	0.98627	0.576
57DAP/reference	1.01562	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26718	0.02
17DAP/reference	1.21954	0.151
27DAP/reference	1.10656	0.096
39DAP/reference	0.92179	0.163
41DAP/reference	0.93952	0.331
42DAP/reference	0.9986	0.816
43DAP/reference	1.0979	0.734
47DAP/reference	0.99361	0.646
52DAP/reference	0.75621	0.072
57DAP/reference	1.24385	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11098	0.966
26DAP/20DAP	1.32194	0.17
34DAP/26DAP	1.01128	1
51DAP/34DAP	1.30334	0.064
52DAP/51DAP	0.8642	1
53DAP/52DAP	0.86584	0.35
55DAP/53DAP	0.64319	0.021
57DAP/55DAP	0.72571	0.268
62DAP/57DAP	0.75565
68DAP/62DAP	0.99605	0.939
68DAP/14DAP	1.17584	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.26232	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.55184	0.058
Mature Green Tomato/Ripe Tomato	5.5464	0.015
Immature Eggplant/Mature Eggplant	0.32501	0.059
Ripe Pepper/Ripe Tomato	13.6306	0.258
Mature Eggplant/Ripe Tomato	15.5898	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01785	0.742
1-1-2/M82	1.12216	1
12-2/M82	1.02145
12-4/M82	1.2156	1
1-3/M82	0.96365
2-1-1/M82	0.9991	1
2-1/M82	0.92129	1
2-6/M82	1.08614	0.395
3-2/M82	0.82485
4-1-1/M82	1.0398	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.11528
5-3/M82	0.98793	1
6-2/M82	1.13834
6-3/M82	N/A	N/A
7-1/M82	0.71934	0.803
7-2/M82	1.04996	1
9-3-2/M82	1.13692

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91238	1
IL2-6/WTpooled	1.21414	0.531
IL7-5/WTpooled	0.88843	1
IL7-3/WTpooled	0.91646	1
IL12-4/WTpooled	1.18597	0.785
IL1-4/WTpooled	0.93942	1
WT/WTpooled	1.0745	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	0.98576	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96489	1
DC3000/delta hrp 6h	0.9929	0.95
DC3000/delta hrp 12h	1.28855	1
DC3000/delta hrp 24h	0.522	0.064

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.42985	0.023
DC3000 delta B/DC3000 delta AB	0.49774	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92961	1
Exp 36h	0.77138	0.449
Exp 60h	0.51884	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99937	1
Var 0h	1.14698	1
Var 12h I row2-row1	0.81806	0.363
Var 12h NI row2-row1	0.89589	0.494
Var 36h I row2-row1	1.05684	1
Var 36h NI row2-row1	1.19116	0.482
Var 60h I row2-row1	1.06839	1
Var 60h NI row2-row1	1.09084	0.904
Time course 0hI-0hNI	0.94753	0.721
Time course 12hI-12hNI	1.03161	0.833
Time course 36hI-36hNI	0.79223	0.023
Time course 60hI-60hNI	0.20755	0.005

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)	0.9294	0.348
transgenic ySAMdc/azygous control (breaker)	0.86197	0.49
transgenic ySAMdc/azygous control (red)	2.43437	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94301	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.94426	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.76383	0.09
Manapal/WT (break)	2.4366	0.183
Manapal/WT (red)	2.25843	0.133