Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97174	0.788
27DAP/17DAP	1.20717	0.829
39DAP/27DAP	1.11462	0.882
41DAP/39DAP	1.00797	0.946
42DAP/41DAP	0.87991	1
43DAP/42DAP	1.06778	1
47DAP/43DAP	1.02423	0.825
52DAP/47DAP	0.95115	0.799
57DAP/52DAP	1.29753	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03011	0.928
17DAP/reference	1.15523	0.032
27DAP/reference	1.06184	0.415
39DAP/reference	1.08348	0.119
41DAP/reference	1.0891	0.122
42DAP/reference	0.86827	0.017
43DAP/reference	1.01532	0.899
47DAP/reference	0.85571	0.004
52DAP/reference	0.76922	0.029
57DAP/reference	0.81538	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95789	0.644
27DAP/17DAP	1.19045	0.546
39DAP/27DAP	1.16688	0.343
41DAP/39DAP	0.94084	0.839
42DAP/41DAP	1.04063	0.984
43DAP/42DAP	0.79591	0.03
47DAP/43DAP	0.94141	0.687
52DAP/47DAP	2.25846	0.044
57DAP/52DAP	1.79581	0.071
57DAP/7DAP	1.88529	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80262	0.058
17DAP/reference	0.82947	0.035
27DAP/reference	0.75121	0.01
39DAP/reference	0.86679	0.027
41DAP/reference	0.86086	0.058
42DAP/reference	0.89892	0.151
43DAP/reference	0.74312	0.016
47DAP/reference	0.80661	0.101
52DAP/reference	0.84192	0.106
57DAP/reference	0.81301	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01504	0.926
17DAP/reference	5.03374	0.375
27DAP/reference	1.17126	0.618
39DAP/reference	0.93232	0.274
41DAP/reference	1.18741	0.862
42DAP/reference	0.78375	0.022
43DAP/reference	1.16499	0.208
47DAP/reference	0.88901	0.021
52DAP/reference	1.04997	0.343
57DAP/reference	1.0889	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81008	0.071
17DAP/reference	0.86526	0.159
27DAP/reference	0.77276	0.048
39DAP/reference	0.86118	0.122
41DAP/reference	0.81129	0.033
42DAP/reference	0.78676	0.016
43DAP/reference	0.7614	0.033
47DAP/reference	0.88201	0.076
52DAP/reference	0.74686	0.076
57DAP/reference	0.6275	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16766	0.966
26DAP/20DAP	3.1286	0.598
34DAP/26DAP	1.60575	1
51DAP/34DAP	1.25389	0.883
52DAP/51DAP	2.25464	0.034
53DAP/52DAP	0.83007	0.086
55DAP/53DAP	1.27936	0.15
57DAP/55DAP	0.58228	0.075
62DAP/57DAP	1.04908	0.902
68DAP/62DAP	0.89758	0.429
68DAP/14DAP	1.18271	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.19213	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.56981
Immature Eggplant/Mature Eggplant	0.93723	0.545
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	0.90354
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96218
9-3-2/M82	0.99298

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.92188	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8915	0.418
IL12-4/WTpooled	0.97295	1
IL1-4/WTpooled	1.06331
WT/WTpooled	0.98609	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	1.03146	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01555	0.921
DC3000/delta hrp 6h	0.99994	0.95
DC3000/delta hrp 12h	1.06628	1
DC3000/delta hrp 24h	0.84833	0.136

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16575	0.076
DC3000 delta B/DC3000 delta AB	1.31172	0.223

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81039	0.328
Exp 36h	0.96129	0.943
Exp 60h	0.79672	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.90361	0.933
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.15027	0.297
transgenic ySAMdc/azygous control (breaker)	1.20306	0.248
transgenic ySAMdc/azygous control (red)	1.11164	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0106	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23914	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25734	0.307
Manapal/WT (break)	1.1616	1
Manapal/WT (red)	0.79967	0.315