Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74695	0.187
27DAP/17DAP	0.94523	0.945
39DAP/27DAP	1.0497	0.876
41DAP/39DAP	1.15811	0.904
42DAP/41DAP	0.84171	0.774
43DAP/42DAP	1.2053	1
47DAP/43DAP	1.10892	1
52DAP/47DAP	1.06034	0.934
57DAP/52DAP	2.24295	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90662	0.224
17DAP/reference	0.87425	0.074
27DAP/reference	0.96168	0.595
39DAP/reference	0.99048	0.828
41DAP/reference	1.09566	0.365
42DAP/reference	0.85954	0.03
43DAP/reference	0.91735	0.394
47DAP/reference	0.89405	0.046
52DAP/reference	1.01863	1
57DAP/reference	1.03645	0.744

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23367	0.812
27DAP/17DAP	0.85628	0.724
39DAP/27DAP	0.86641	0.334
41DAP/39DAP	1.07353	1
42DAP/41DAP	0.93907	0.7
43DAP/42DAP	1.21518	0.788
47DAP/43DAP	0.80692	0.28
52DAP/47DAP	1.43755	0.268
57DAP/52DAP	0.86673	0.428
57DAP/7DAP	4.61649	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85038	0.183
17DAP/reference	0.77298	0.028
27DAP/reference	0.97174	0.402
39DAP/reference	0.81863	0.126
41DAP/reference	0.95857	0.341
42DAP/reference	0.89355	0.248
43DAP/reference	0.84243	0.202
47DAP/reference	0.79311	0.222
52DAP/reference	0.79331	0.038
57DAP/reference	0.91875	0.215

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02518	0.952
17DAP/reference	1.00596	0.642
27DAP/reference	0.92991	0.327
39DAP/reference	0.9098	0.214
41DAP/reference	0.78808	0.027
42DAP/reference	1.05801	1
43DAP/reference	1.25191	0.509
47DAP/reference	0.87553	0.094
52DAP/reference	1.00628	0.713
57DAP/reference	0.84739	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90358	0.127
17DAP/reference	1.08284	0.405
27DAP/reference	1.09315	0.248
39DAP/reference	0.8461	0.046
41DAP/reference	0.79619	0.086
42DAP/reference	0.93431	0.361
43DAP/reference	0.9535	0.294
47DAP/reference	1.02845	0.994
52DAP/reference	0.90015	0.444
57DAP/reference	0.83912	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85682	0.981
26DAP/20DAP	1.38136	0.524
34DAP/26DAP	1.53094	1
51DAP/34DAP	1.39117	0.271
52DAP/51DAP	0.60275
53DAP/52DAP	0.97924	0.882
55DAP/53DAP	1.11382	1
57DAP/55DAP	1.0579	0.94
62DAP/57DAP	1.14996	0.902
68DAP/62DAP	2.3689	0.944
68DAP/14DAP	1.70963	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.51508	0.347

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	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.86376	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.02681
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	1.25572	0.361
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.9275	1
IL12-4/WTpooled	0.9461	1
IL1-4/WTpooled	0.94383	0.834
WT/WTpooled	0.89799	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	0.95405	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.6217
DC3000/delta hrp 24h	1.11905	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.27293

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.88703
Var 0h	1.05555	1
Var 12h I row2-row1	1.18969	0.162
Var 12h NI row2-row1	1.1017	0.649
Var 36h I row2-row1	0.80225	1
Var 36h NI row2-row1	1.02597	1
Var 60h I row2-row1	1.4848	1
Var 60h NI row2-row1	0.68124	0.932
Time course 0hI-0hNI	0.97011	0.709
Time course 12hI-12hNI	1.0861	0.842
Time course 36hI-36hNI	0.90103	0.29
Time course 60hI-60hNI	1.21289	0.302

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)	3.79714	0.248
transgenic ySAMdc/azygous control (red)	1.61127	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00126	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01506	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96434	1
Manapal/WT (break)	0.79195	1
Manapal/WT (red)	N/A	N/A