Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01543	0.847
27DAP/17DAP	0.84722	0.589
39DAP/27DAP	1.77829	0.098
41DAP/39DAP	0.80779	0.315
42DAP/41DAP	1.14667	0.871
43DAP/42DAP	1.35162	0.885
47DAP/43DAP	1.31279	0.689
52DAP/47DAP	1.03151	0.956
57DAP/52DAP	0.97021	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34759	0.015
17DAP/reference	1.33902	0.015
27DAP/reference	1.25898	0.049
39DAP/reference	1.28517	0.07
41DAP/reference	1.67636	0.022
42DAP/reference	1.40752	0.001
43DAP/reference	1.00741	1
47DAP/reference	1.431	0.001
52DAP/reference	1.2974	0.134
57DAP/reference	1.07266	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03288	0.87
27DAP/17DAP	1.03664	0.928
39DAP/27DAP	1.08688	0.41
41DAP/39DAP	0.98313	0.997
42DAP/41DAP	0.97741	0.764
43DAP/42DAP	0.96998	0.709
47DAP/43DAP	1.07262	0.822
52DAP/47DAP	0.96473	0.884
57DAP/52DAP	1.04474	0.726
57DAP/7DAP	0.8765	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15217	0.069
17DAP/reference	1.07519	0.014
27DAP/reference	1.03801	0.197
39DAP/reference	1.08811	0.018
41DAP/reference	1.13343	0.101
42DAP/reference	1.11691	0.011
43DAP/reference	1.12239	0.132
47DAP/reference	1.17301	0.136
52DAP/reference	1.17427	0.076
57DAP/reference	1.17908	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30337	0.111
17DAP/reference	1.44905	0.008
27DAP/reference	1.2778	0.026
39DAP/reference	1.58833	0.011
41DAP/reference	1.39918	0.188
42DAP/reference	1.48884	0.007
43DAP/reference	1.27029	0.087
47DAP/reference	1.40566	0.008
52DAP/reference	1.4306	0.006
57DAP/reference	1.76002	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02408	0.575
17DAP/reference	1.18967	0.243
27DAP/reference	1.04511	0.392
39DAP/reference	1.15077	0.218
41DAP/reference	1.0326	0.357
42DAP/reference	1.15627	0.294
43DAP/reference	1.16162	0.296
47DAP/reference	1.39965	0.014
52DAP/reference	1.15309	0.341
57DAP/reference	1.04898	0.592

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10866	0.966
26DAP/20DAP	1.15287	0.504
34DAP/26DAP	1.20556	0.542
51DAP/34DAP	0.96826	0.779
52DAP/51DAP	1.18174	0.099
53DAP/52DAP	0.984	0.909
55DAP/53DAP	1.08824	0.335
57DAP/55DAP	0.8768	0.42
62DAP/57DAP	1.21383	0.622
68DAP/62DAP	0.92403	0.7
68DAP/14DAP	0.66592	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86178	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19449	0.075
Mature Green Tomato/Ripe Tomato	0.96899	0.66
Immature Eggplant/Mature Eggplant	0.98942	1
Ripe Pepper/Ripe Tomato	0.89294	1
Mature Eggplant/Ripe Tomato	1.56205	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85482	0.736
1-1-2/M82	0.89437	0.804
12-2/M82	0.99698	1
12-4/M82	1.2439	1
1-3/M82	1.02991	1
2-1-1/M82	0.9433	0.565
2-1/M82	1.04097	1
2-6/M82	0.94952	1
3-2/M82	1.07608
4-1-1/M82	1.14383	0.968
4-1/M82	0.91843
4-3-2/M82	0.98952
4-3/M82	0.93516	1
5-3/M82	1.00378	1
6-2/M82	1.06089	1
6-3/M82	1.1937	1
7-1/M82	1.05116	1
7-2/M82	1.01977	1
9-3-2/M82	1.60122	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08934	0.788
IL7-5/WTpooled	1.3056
IL7-3/WTpooled	1.15493
IL12-4/WTpooled	1.27689	0.516
IL1-4/WTpooled	0.92946	0.834
WT/WTpooled	1.04954	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	1.06081	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89889	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.18741	1
DC3000/delta hrp 24h	0.98746	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0692	0.29
DC3000 delta B/DC3000 delta AB	1.12812	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95798	1
Exp 36h	N/A	N/A
Exp 60h	1.08553	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02093	1
Var 0h	0.75241	0.933
Var 12h I row2-row1	0.96128	0.338
Var 12h NI row2-row1	1.04356	1
Var 36h I row2-row1	1.13957	0.41
Var 36h NI row2-row1	0.89293	0.382
Var 60h I row2-row1	0.86903	0.832
Var 60h NI row2-row1	1.05023	1
Time course 0hI-0hNI	1.02038	0.867
Time course 12hI-12hNI	1.07364	0.381
Time course 36hI-36hNI	1.47604	0.005
Time course 60hI-60hNI	2.24419	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)	0.90481	0.377
transgenic ySAMdc/azygous control (breaker)	1.08869	1
transgenic ySAMdc/azygous control (red)	1.07722	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86712	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.046	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.58022	1
Manapal/WT (break)	0.95816	1
Manapal/WT (red)	1.17616	0.164