Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.39555	0.059
27DAP/17DAP	1.22886	0.742
39DAP/27DAP	1.28166	0.787
41DAP/39DAP	1.03543	0.904
42DAP/41DAP	0.72431	0.774
43DAP/42DAP	1.04242	1
47DAP/43DAP	1.48508	0.415
52DAP/47DAP	1.54801	0.335
57DAP/52DAP	1.52309	0.692

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87867	0.132
17DAP/reference	1.14445	0.104
27DAP/reference	1.26332	0.017
39DAP/reference	1.20208	0.214
41DAP/reference	1.32088	0.017
42DAP/reference	1.01351	1
43DAP/reference	1.10658	0.189
47DAP/reference	1.20269	0.101
52DAP/reference	1.31528	0.045
57DAP/reference	0.94201	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98422	0.75
27DAP/17DAP	0.95629	0.878
39DAP/27DAP	1.46585	0.074
41DAP/39DAP	1.03016	0.909
42DAP/41DAP	0.93398	0.524
43DAP/42DAP	0.7547	0.034
47DAP/43DAP	1.10404	0.681
52DAP/47DAP	1.63389	0.121
57DAP/52DAP	1.77896	0.039
57DAP/7DAP	1.59355	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9607	0.495
17DAP/reference	0.77579	0.108
27DAP/reference	0.98541	0.571
39DAP/reference	0.9969	0.64
41DAP/reference	1.00766	0.778
42DAP/reference	1.0353	1
43DAP/reference	1.19556	0.056
47DAP/reference	1.11256	0.254
52DAP/reference	1.17547	0.019
57DAP/reference	0.94986	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03791	0.767
17DAP/reference	1.02698	0.859
27DAP/reference	1.05316	0.847
39DAP/reference	1.07752	0.412
41DAP/reference	0.97047	0.505
42DAP/reference	1.06964	0.73
43DAP/reference	1.02996	0.986
47DAP/reference	1.06083	0.212
52DAP/reference	1.03538	0.882
57DAP/reference	1.13073	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89687	0.214
17DAP/reference	1.07166	0.699
27DAP/reference	0.98952	0.657
39DAP/reference	1.00753	1
41DAP/reference	0.91757	0.293
42DAP/reference	0.82117	0.172
43DAP/reference	1.08392	0.625
47DAP/reference	1.06107	0.309
52DAP/reference	1.53999	0.03
57DAP/reference	1.32428	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11096	0.966
26DAP/20DAP	0.82827	0.512
34DAP/26DAP	0.93698	0.909
51DAP/34DAP	1.27811	0.898
52DAP/51DAP	1.07902	0.783
53DAP/52DAP	1.10077	0.783
55DAP/53DAP	1.08353	0.876
57DAP/55DAP	1.21652	0.745
62DAP/57DAP	0.69603	0.002
68DAP/62DAP	0.8	0.055
68DAP/14DAP	0.77919	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24355	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.5104	0.019
Immature Eggplant/Mature Eggplant	0.44791	0.075
Ripe Pepper/Ripe Tomato	0.09821	0.224
Mature Eggplant/Ripe Tomato	0.37981	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.59301	0.944
1-1-2/M82	1.02157	1
12-2/M82	N/A	N/A
12-4/M82	0.8891	0.619
1-3/M82	1.11672	0.479
2-1-1/M82	1.09448
2-1/M82	0.92205	0.74
2-6/M82	0.80767	0.501
3-2/M82	N/A	N/A
4-1-1/M82	1.95674
4-1/M82	1.17089	1
4-3-2/M82	1.64226
4-3/M82	1.2641	0.268
5-3/M82	0.9036	1
6-2/M82	0.69336
6-3/M82	0.99256	1
7-1/M82	0.87192
7-2/M82	1.14124	0.324
9-3-2/M82	1.1267

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85786	1
IL2-6/WTpooled	0.89708	1
IL7-5/WTpooled	1.24213	0.495
IL7-3/WTpooled	1.06513	1
IL12-4/WTpooled	0.94261	1
IL1-4/WTpooled	0.87992	0.444
WT/WTpooled	1.06772	0.789

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	0.80789	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.20206	0.894
DC3000/delta hrp 6h	0.9375	0.95
DC3000/delta hrp 12h	1.107	1
DC3000/delta hrp 24h	0.74187	0.045

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28621	1
Exp 36h	1.19541	1
Exp 60h	1.10133	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.13225	1
Var 0h	1.06408	1
Var 12h I row2-row1	1.0725	0.544
Var 12h NI row2-row1	1.1317	1
Var 36h I row2-row1	1.01784	1
Var 36h NI row2-row1	0.54736	1
Var 60h I row2-row1	1.34335	1
Var 60h NI row2-row1	0.57753	1
Time course 0hI-0hNI	1.21601	0.662
Time course 12hI-12hNI	0.89754	0.377
Time course 36hI-36hNI	0.7792	0.123
Time course 60hI-60hNI	0.87535	0.319

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)	1.00904	0.699
transgenic ySAMdc/azygous control (breaker)	0.94425	0.49
transgenic ySAMdc/azygous control (red)	0.65688	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12858	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.25213	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73841	1
Manapal/WT (break)	1.16153	1
Manapal/WT (red)	1.85007	0.126