Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83392	0.244
27DAP/17DAP	1.25378	0.749
39DAP/27DAP	0.93095	0.594
41DAP/39DAP	1.21937	0.522
42DAP/41DAP	0.97915	1
43DAP/42DAP	0.84218	0.705
47DAP/43DAP	0.99674	0.884
52DAP/47DAP	0.91446	0.74
57DAP/52DAP	1.07407	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88099	0.128
17DAP/reference	0.81247	0.008
27DAP/reference	0.9411	0.385
39DAP/reference	0.81651	0.013
41DAP/reference	0.78676	0.012
42DAP/reference	0.91588	0.048
43DAP/reference	0.914	0.058
47DAP/reference	0.96734	0.392
52DAP/reference	1.05565	0.84
57DAP/reference	1.23822	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76282	0.135
27DAP/17DAP	1.28582	0.264
39DAP/27DAP	1.01489	0.824
41DAP/39DAP	0.86697	0.333
42DAP/41DAP	1.02542	1
43DAP/42DAP	1.10516	0.699
47DAP/43DAP	1.10147	0.822
52DAP/47DAP	1.03124	0.941
57DAP/52DAP	1.12078	0.596
57DAP/7DAP	1.14707	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04075	0.761
17DAP/reference	0.79867	0.011
27DAP/reference	0.93085	0.019
39DAP/reference	0.87809	0.013
41DAP/reference	0.79677	0.017
42DAP/reference	0.81401	0.013
43DAP/reference	0.96009	0.305
47DAP/reference	1.18022	0.099
52DAP/reference	0.87255	0.097
57DAP/reference	0.84612	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06249	0.582
17DAP/reference	0.7008	0.004
27DAP/reference	0.83584	0.025
39DAP/reference	0.94148	0.214
41DAP/reference	0.89767	0.074
42DAP/reference	1.02504	1
43DAP/reference	0.868	0.128
47DAP/reference	0.84417	0.092
52DAP/reference	0.77851	0.004
57DAP/reference	0.67599	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.008	1
17DAP/reference	0.88807	0.15
27DAP/reference	0.94752	0.27
39DAP/reference	0.88535	0.054
41DAP/reference	0.81824	0.03
42DAP/reference	0.93951	0.172
43DAP/reference	0.94515	0.365
47DAP/reference	1.03302	0.847
52DAP/reference	1.07216	0.609
57DAP/reference	1.22035	0.121

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09856	0.966
26DAP/20DAP	1.04634	1
34DAP/26DAP	0.93384	0.811
51DAP/34DAP	1.24836	0.224
52DAP/51DAP	0.89236	1
53DAP/52DAP	1.85353	0.028
55DAP/53DAP	1.08307	0.614
57DAP/55DAP	0.75478	0.184
62DAP/57DAP	0.85065	0.088
68DAP/62DAP	1.34783	0.897
68DAP/14DAP	1.66341	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08932	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74303	0.206
Mature Green Tomato/Ripe Tomato	0.41318	0.028
Immature Eggplant/Mature Eggplant	3.3363	0.05
Ripe Pepper/Ripe Tomato	1.37078	0.258
Mature Eggplant/Ripe Tomato	1.00734	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00563	1
1-1-2/M82	1.05497	1
12-2/M82	1.07644
12-4/M82	1.18324	1
1-3/M82	1.10228	0.479
2-1-1/M82	1.24115	0.457
2-1/M82	0.9238	0.519
2-6/M82	1.03512	0.695
3-2/M82	0.99198
4-1-1/M82	1.09184	1
4-1/M82	1.26939
4-3-2/M82	1.28011	0.241
4-3/M82	1.52899	1
5-3/M82	0.96693	1
6-2/M82	1.1187
6-3/M82	0.75015	0.857
7-1/M82	0.84844
7-2/M82	1.06789	0.385
9-3-2/M82	1.09225

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95492	0.243
IL2-6/WTpooled	1.11273	0.584
IL7-5/WTpooled	0.89279	1
IL7-3/WTpooled	0.78341	0.294
IL12-4/WTpooled	0.92178	0.71
IL1-4/WTpooled	0.97374	0.699
WT/WTpooled	0.96346	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	1.37549	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02963	0.921
DC3000/delta hrp 6h	1.01725	1
DC3000/delta hrp 12h	1.1203	1
DC3000/delta hrp 24h	1.15792	0.079

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	1.39306	0.198

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15518	0.254
Exp 36h	1.70919	0.489
Exp 60h	1.31258	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98549	1
Var 0h	1.19523	0.98
Var 12h I row2-row1	1.29226	0.379
Var 12h NI row2-row1	1.01217	1
Var 36h I row2-row1	1.04863	1
Var 36h NI row2-row1	1.22869	1
Var 60h I row2-row1	0.91869	0.582
Var 60h NI row2-row1	0.864	0.69
Time course 0hI-0hNI	1.05788	0.764
Time course 12hI-12hNI	1.15509	0.054
Time course 36hI-36hNI	1.3515	0.005
Time course 60hI-60hNI	4.10105	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)	1.0553	0.408
transgenic ySAMdc/azygous control (breaker)	0.90531	0.139
transgenic ySAMdc/azygous control (red)	0.99637	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03854	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94768	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80717	0.172
Manapal/WT (break)	0.8158	1
Manapal/WT (red)	0.79608	0.242