Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36013	0.381
27DAP/17DAP	1.19478	0.895
39DAP/27DAP	1.05963	0.899
41DAP/39DAP	1.20136	0.268
42DAP/41DAP	1.05496	1
43DAP/42DAP	1.0948	0.993
47DAP/43DAP	1.08692	0.889
52DAP/47DAP	0.72199	0.367
57DAP/52DAP	1.00427	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07739	0.662
17DAP/reference	1.00539	0.764
27DAP/reference	1.02138	0.735
39DAP/reference	0.96817	0.527
41DAP/reference	0.76652	0.341
42DAP/reference	1.14849	0.023
43DAP/reference	0.7467	0.41
47DAP/reference	1.08779	0.148
52DAP/reference	1.02504	0.636
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35208	0.119
27DAP/17DAP	1.08402	0.817
39DAP/27DAP	0.93587	0.572
41DAP/39DAP	1.02435	0.895
42DAP/41DAP	1.08543	0.687
43DAP/42DAP	1.00961	1
47DAP/43DAP	0.96458	0.843
52DAP/47DAP	1.24646	0.417
57DAP/52DAP	1.14601	0.594
57DAP/7DAP	1.28176	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73768	0.071
17DAP/reference	0.86419	0.108
27DAP/reference	0.85984	0.023
39DAP/reference	0.58536	0.011
41DAP/reference	0.62809	0.03
42DAP/reference	0.6056	0.011
43DAP/reference	0.72229	0.014
47DAP/reference	0.82608	0.222
52DAP/reference	0.60937	0.013
57DAP/reference	0.7387	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08395	0.23
17DAP/reference	1.06392	0.357
27DAP/reference	1.1655	0.139
39DAP/reference	1.10718	0.16
41DAP/reference	1.1684	0.166
42DAP/reference	1.1285	0.281
43DAP/reference	1.03668	1
47DAP/reference	0.99297	0.643
52DAP/reference	1.07363	0.368
57DAP/reference	1.10265	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73875	0.044
17DAP/reference	0.91275	0.381
27DAP/reference	0.85909	0.025
39DAP/reference	0.86724	0.092
41DAP/reference	0.94907	0.459
42DAP/reference	0.9844	0.671
43DAP/reference	0.96545	0.484
47DAP/reference	1.04239	0.934
52DAP/reference	1.75267	0.566
57DAP/reference	1.43982	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06686	1
26DAP/20DAP	1.24088	0.524
34DAP/26DAP	1.37169	0.542
51DAP/34DAP	1.19391	0.496
52DAP/51DAP	1.29953	0.083
53DAP/52DAP	1.15196	0.565
55DAP/53DAP	1.08837	0.855
57DAP/55DAP	1.02211	1
62DAP/57DAP	1.01533	1
68DAP/62DAP	1.03545	1
68DAP/14DAP	1.29408	0.057

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86944	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10368	0.176
Mature Green Tomato/Ripe Tomato	1.35487	0.363
Immature Eggplant/Mature Eggplant	1.72529	0.05
Ripe Pepper/Ripe Tomato	0.84859	1
Mature Eggplant/Ripe Tomato	1.79564	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05597	0.877
1-1-2/M82	0.90347	0.958
12-2/M82	1.04754	1
12-4/M82	1.05336
1-3/M82	0.94177	0.329
2-1-1/M82	1.24312	0.179
2-1/M82	N/A	N/A
2-6/M82	1.08582	0.594
3-2/M82	0.86597
4-1-1/M82	0.88579	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.76419	1
5-3/M82	1.04974	1
6-2/M82	1.22592	1
6-3/M82	0.88789	0.916
7-1/M82	N/A	N/A
7-2/M82	1.1122	1
9-3-2/M82	0.8119

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88755	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.33678
IL1-4/WTpooled	1.22529	1
WT/WTpooled	0.69622

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	1.24121	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99552	1
DC3000/delta hrp 6h	1.10372	1
DC3000/delta hrp 12h	1.21436	1
DC3000/delta hrp 24h	1.1207	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06361	0.648
DC3000 delta B/DC3000 delta AB	1.08206	0.472

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08495	1
Exp 36h	2.54051	0.489
Exp 60h	1.97961	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0124	1
Var 0h	0.90621	0.237
Var 12h I row2-row1	0.82655	0.363
Var 12h NI row2-row1	1.07088	1
Var 36h I row2-row1	1.0779	0.601
Var 36h NI row2-row1	1.06697	1
Var 60h I row2-row1	0.92215	0.439
Var 60h NI row2-row1	1.06676	0.904
Time course 0hI-0hNI	0.94059	0.309
Time course 12hI-12hNI	0.95991	0.716
Time course 36hI-36hNI	0.92782	0.306
Time course 60hI-60hNI	0.71419	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)	0.57277	0.291
transgenic ySAMdc/azygous control (breaker)	1.80116	0.248
transgenic ySAMdc/azygous control (red)	0.83161	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93072	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88298	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11852	1
Manapal/WT (break)	0.79158	1
Manapal/WT (red)	1.81565	0.413