Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97195	0.788
27DAP/17DAP	0.60057	0.118
39DAP/27DAP	0.7337	0.462
41DAP/39DAP	0.86493	0.44
42DAP/41DAP	0.83426	0.774
43DAP/42DAP	1.31537	0.362
47DAP/43DAP	0.64419	0.117
52DAP/47DAP	0.89942	0.675
57DAP/52DAP	1.27797	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93381	0.269
17DAP/reference	0.9967	0.904
27DAP/reference	0.99778	0.867
39DAP/reference	1.01261	0.628
41DAP/reference	1.00219	0.963
42DAP/reference	0.94347	0.004
43DAP/reference	0.9634	0.48
47DAP/reference	0.97267	0.322
52DAP/reference	0.91104	0.25
57DAP/reference	0.92938	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95237	0.578
27DAP/17DAP	0.98771	0.821
39DAP/27DAP	0.9881	0.919
41DAP/39DAP	1.05347	0.603
42DAP/41DAP	0.93392	0.37
43DAP/42DAP	1.00561	0.746
47DAP/43DAP	1.00733	0.951
52DAP/47DAP	0.99685	0.97
57DAP/52DAP	1.01867	0.911
57DAP/7DAP	1.00921	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8605	0.115
17DAP/reference	0.90621	0.108
27DAP/reference	0.84594	0.051
39DAP/reference	0.95077	0.198
41DAP/reference	0.99647	0.741
42DAP/reference	0.87405	0.038
43DAP/reference	0.95564	0.321
47DAP/reference	0.97414	0.671
52DAP/reference	0.94145	0.09
57DAP/reference	1.03949	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93361	0.204
17DAP/reference	0.94504	0.182
27DAP/reference	0.90873	0.15
39DAP/reference	0.88976	0.097
41DAP/reference	0.94977	0.299
42DAP/reference	0.97547	0.482
43DAP/reference	0.93555	0.181
47DAP/reference	1.07592	0.232
52DAP/reference	0.89696	0.007
57DAP/reference	0.987	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93641	0.249
17DAP/reference	0.94851	0.358
27DAP/reference	1.03711	0.596
39DAP/reference	0.9047	0.063
41DAP/reference	0.85308	0.077
42DAP/reference	0.87102	0.071
43DAP/reference	0.91374	0.216
47DAP/reference	0.94355	0.224
52DAP/reference	0.86318	0.289
57DAP/reference	0.91842	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06443	0.85
26DAP/20DAP	1.0315	0.931
34DAP/26DAP	1.03602	1
51DAP/34DAP	1.02718	0.746
52DAP/51DAP	0.97559	1
53DAP/52DAP	0.94643	0.712
55DAP/53DAP	0.94961	0.389
57DAP/55DAP	0.97223	0.854
62DAP/57DAP	0.9643	0.871
68DAP/62DAP	1.15642	0.316
68DAP/14DAP	1.12096	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02511	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92544	0.648
Mature Green Tomato/Ripe Tomato	14.6258	0.017
Immature Eggplant/Mature Eggplant	1.40097	0.259
Ripe Pepper/Ripe Tomato	1.1056	1
Mature Eggplant/Ripe Tomato	1.01702	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97843	0.961
1-1-2/M82	0.96442	1
12-2/M82	1.00121	1
12-4/M82	0.95459	0.619
1-3/M82	0.93965	0.441
2-1-1/M82	0.82983	0.465
2-1/M82	0.99073	1
2-6/M82	0.93287	1
3-2/M82	0.98651
4-1-1/M82	1.02252	1
4-1/M82	0.9014
4-3-2/M82	0.74327
4-3/M82	0.90545	0.72
5-3/M82	1.01977	1
6-2/M82	1.00489	1
6-3/M82	0.99841	1
7-1/M82	1.01	1
7-2/M82	0.95684	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.67545	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17693	1
IL12-4/WTpooled	1.34155	0.516
IL1-4/WTpooled	1.15885
WT/WTpooled	0.98499	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	1.28191	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98772	1
DC3000/delta hrp 6h	1.29631	1
DC3000/delta hrp 12h	0.99758	1
DC3000/delta hrp 24h	1.06654	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25823	0.042
DC3000 delta B/DC3000 delta AB	1.30421	0.117

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98425	1
Exp 36h	1.11908	1
Exp 60h	1.47597	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00073	1
Var 0h	1.13191	0.936
Var 12h I row2-row1	1.16802	0.228
Var 12h NI row2-row1	0.9244	0.546
Var 36h I row2-row1	1.01356	1
Var 36h NI row2-row1	0.97261	0.791
Var 60h I row2-row1	0.85992	0.582
Var 60h NI row2-row1	1.13194	1
Time course 0hI-0hNI	1.04614	1
Time course 12hI-12hNI	1.03121	0.833
Time course 36hI-36hNI	1.00828	0.826
Time course 60hI-60hNI	2.08322	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)	0.88267	0.409
transgenic ySAMdc/azygous control (breaker)	1.3361	0.248
transgenic ySAMdc/azygous control (red)	1.30863	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95381	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03432	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99735	1
Manapal/WT (break)	1.07816	1
Manapal/WT (red)	0.94991	0.503