Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81748	0.373
27DAP/17DAP	1.09752	0.92
39DAP/27DAP	1.17819	0.915
41DAP/39DAP	1.1208	1
42DAP/41DAP	0.79177	1
43DAP/42DAP	0.96386	0.909
47DAP/43DAP	1.17601	0.889
52DAP/47DAP	1.07604	0.902
57DAP/52DAP	1.10373	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00151	0.589
17DAP/reference	1.03529	1
27DAP/reference	0.86878	0.124
39DAP/reference	0.86982	0.35
41DAP/reference	0.95874	0.542
42DAP/reference	0.82611	0.008
43DAP/reference	0.95864	0.594
47DAP/reference	0.95253	0.3
52DAP/reference	0.77641	0.044
57DAP/reference	0.84692	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12924	0.763
27DAP/17DAP	1.16822	0.905
39DAP/27DAP	0.89666	0.477
41DAP/39DAP	0.60967	0.036
42DAP/41DAP	1.01485	0.801
43DAP/42DAP	1.62466	0.016
47DAP/43DAP	1.04888	0.934
52DAP/47DAP	0.91681	0.71
57DAP/52DAP	0.99713
57DAP/7DAP	0.79565	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9487	0.361
17DAP/reference	0.89706	0.049
27DAP/reference	0.90461	0.109
39DAP/reference	0.86304	0.083
41DAP/reference	0.85137	0.05
42DAP/reference	0.77285	0.013
43DAP/reference	0.88471	0.151
47DAP/reference	0.72881	0.293
52DAP/reference	0.81366	0.043
57DAP/reference	0.87147	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20057	0.11
17DAP/reference	0.69369	0.004
27DAP/reference	0.74133	0.104
39DAP/reference	0.73294	0.024
41DAP/reference	0.75033	0.029
42DAP/reference	0.75026	0.061
43DAP/reference	0.90412	0.105
47DAP/reference	0.8622	0.083
52DAP/reference	0.77036	0.016
57DAP/reference	0.78892	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92064	0.147
17DAP/reference	0.78594	0.198
27DAP/reference	0.80054	0.038
39DAP/reference	0.83696	0.04
41DAP/reference	0.81997	0.046
42DAP/reference	0.90476	0.287
43DAP/reference	0.81296	0.052
47DAP/reference	0.81181	0.063
52DAP/reference	0.94865	0.573
57DAP/reference	0.68296	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14622	0.966
26DAP/20DAP	0.78094	0.317
34DAP/26DAP	1.45823	1
51DAP/34DAP	0.48646	0.067
52DAP/51DAP	0.82389	1
53DAP/52DAP	0.83562	0.435
55DAP/53DAP	1.20458	1
57DAP/55DAP	0.812	0.545
62DAP/57DAP	1.15163	0.185
68DAP/62DAP	1.04863	0.991
68DAP/14DAP	0.78387	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79698	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.72783
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.34298
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	0.14723
12-4/M82	0.97171	1
1-3/M82	N/A	N/A
2-1-1/M82	0.58849
2-1/M82	N/A	N/A
2-6/M82	0.834
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	1.32996
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.45106
7-2/M82	1.06944
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01199	1
IL2-6/WTpooled	0.96246	1
IL7-5/WTpooled	0.94805	1
IL7-3/WTpooled	0.79	1
IL12-4/WTpooled	1.25915	0.595
IL1-4/WTpooled	0.74181	0.415
WT/WTpooled	1.01095	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	1.28758

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13826	0.921
DC3000/delta hrp 6h	0.88809	0.95
DC3000/delta hrp 12h	1.20883	1
DC3000/delta hrp 24h	13.3418	0.016

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.03625	0.042
DC3000 delta B/DC3000 delta AB	1.81408	0.046

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82137	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	N/A	N/A
Var 0h	N/A	N/A
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	1.7166
Time course 0hI-0hNI	0.9009
Time course 12hI-12hNI	0.88915
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	2.48831	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.91414	1
transgenic ySAMdc/azygous control (red)	1.7298	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96989	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79177	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.92406	1
Manapal/WT (red)	0.56149	0.229