Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.9.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9535	0.699
27DAP/17DAP	1.41941	0.539
39DAP/27DAP	0.88901	0.608
41DAP/39DAP	1.1594	0.85
42DAP/41DAP	1.13544	0.85
43DAP/42DAP	1.26143	0.728
47DAP/43DAP	1.05475	0.95
52DAP/47DAP	0.87815	0.641
57DAP/52DAP	1.21474	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01261	0.824
17DAP/reference	1.07273	0.178
27DAP/reference	0.97729	0.668
39DAP/reference	1.01376	0.903
41DAP/reference	1.09256	0.203
42DAP/reference	0.8209	0.062
43DAP/reference	1.02417	0.982
47DAP/reference	0.80516	0.005
52DAP/reference	0.7622	0.027
57DAP/reference	0.7497	0.029

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01078	1
27DAP/17DAP	0.93674	0.295
39DAP/27DAP	1.00257	1
41DAP/39DAP	1.01612	1
42DAP/41DAP	0.99969	0.887
43DAP/42DAP	1.03801	0.627
47DAP/43DAP	1.19153	0.286
52DAP/47DAP	1.00585	0.979
57DAP/52DAP	1.1607	0.366
57DAP/7DAP	1.26826	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02986	1
17DAP/reference	0.87797	0.253
27DAP/reference	1.06362	0.453
39DAP/reference	1.02584	1
41DAP/reference	1.04233	0.848
42DAP/reference	0.79447	0.06
43DAP/reference	0.86318	0.1
47DAP/reference	0.98071	0.671
52DAP/reference	0.80729	0.15
57DAP/reference	1.02405	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31819	0.289
17DAP/reference	1.10339	0.904
27DAP/reference	0.92382	0.34
39DAP/reference	0.88534	0.136
41DAP/reference	0.85622	0.098
42DAP/reference	0.73488	0.089
43DAP/reference	0.88788	0.344
47DAP/reference	0.88971	0.041
52DAP/reference	0.96105	0.22
57DAP/reference	1.26207	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17709	0.072
17DAP/reference	0.95587	0.601
27DAP/reference	1.04688	0.721
39DAP/reference	0.94287	0.271
41DAP/reference	0.83	0.132
42DAP/reference	0.83842	0.361
43DAP/reference	0.94951	0.432
47DAP/reference	0.97048	0.509
52DAP/reference	1.90849	0.631
57DAP/reference	0.8453	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90656	0.915
26DAP/20DAP	1.18705	0.689
34DAP/26DAP	1.05922	1
51DAP/34DAP	0.94303	0.688
52DAP/51DAP	1.00292	1
53DAP/52DAP	0.9274	0.612
55DAP/53DAP	1.15092	0.341
57DAP/55DAP	1.2171	0.525
62DAP/57DAP	1.26831	0.015
68DAP/62DAP	0.87944	0.543
68DAP/14DAP	0.48736	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91983	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77105	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.94195	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99438	1
1-1-2/M82	0.89989	0.804
12-2/M82	1.03222	1
12-4/M82	1.01419	1
1-3/M82	0.91702	0.501
2-1-1/M82	1.37237	0.689
2-1/M82	1.03847	1
2-6/M82	1.21269	0.425
3-2/M82	0.9565	1
4-1-1/M82	0.99761	1
4-1/M82	0.97384	1
4-3-2/M82	1.03249	1
4-3/M82	1.07159	1
5-3/M82	0.96385	1
6-2/M82	0.94752	1
6-3/M82	1.00906	1
7-1/M82	0.76584
7-2/M82	1.01777	1
9-3-2/M82	1.08816	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.04865	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90144	1
DC3000/delta hrp 6h	0.8819
DC3000/delta hrp 12h	1.02332	1
DC3000/delta hrp 24h	1.05142	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.5286
DC3000 delta B/DC3000 delta AB	1.18703	0.433

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91416	1
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	0.9982	1
Var 0h	1.05033	1
Var 12h I row2-row1	3.70518	0.473
Var 12h NI row2-row1	1.07226	0.649
Var 36h I row2-row1	1.39746	0.601
Var 36h NI row2-row1	0.77548	0.225
Var 60h I row2-row1	1.1564	0.562
Var 60h NI row2-row1	1.04909	0.904
Time course 0hI-0hNI	0.95787	0.781
Time course 12hI-12hNI	1.03935	0.786
Time course 36hI-36hNI	1.04936	0.799
Time course 60hI-60hNI	1.29314	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)	1.18947	0.305
transgenic ySAMdc/azygous control (breaker)	1.17745	0.248
transgenic ySAMdc/azygous control (red)	1.15017	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97161	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63224	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86498	1
Manapal/WT (break)	1.1394	0.381
Manapal/WT (red)	0.86322	0.181