Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21694	0.697
27DAP/17DAP	1.12373	0.859
39DAP/27DAP	1.58272	0.249
41DAP/39DAP	1.03089	0.752
42DAP/41DAP	1.35704	0.426
43DAP/42DAP	0.79273	0.456
47DAP/43DAP	0.81241	0.444
52DAP/47DAP	1.30509	0.869
57DAP/52DAP	0.93503	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.7575	0.007
17DAP/reference	0.93078	0.503
27DAP/reference	0.82966	0.018
39DAP/reference	0.81976	0.228
41DAP/reference	1.09345	0.451
42DAP/reference	1.31013	0.002
43DAP/reference	0.94513	0.247
47DAP/reference	1.01916	1
52DAP/reference	0.7974	0.043
57DAP/reference	0.75535	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96494	0.629
27DAP/17DAP	0.98001	0.878
39DAP/27DAP	1.11296	0.383
41DAP/39DAP	1.16087	0.238
42DAP/41DAP	1.16932	0.257
43DAP/42DAP	0.86285	0.189
47DAP/43DAP	0.89009	0.466
52DAP/47DAP	1.72586	0.356
57DAP/52DAP	2.99737	0.034
57DAP/7DAP	1.1673	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07409	0.747
17DAP/reference	0.88657	0.094
27DAP/reference	0.94982	0.375
39DAP/reference	0.91299	0.17
41DAP/reference	0.80666	0.02
42DAP/reference	0.81193	0.066
43DAP/reference	0.74175	0.012
47DAP/reference	1.10013	0.7
52DAP/reference	0.71153	0.014
57DAP/reference	1.03263	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55733	0.127
17DAP/reference	2.13165	0.012
27DAP/reference	1.79926	0.021
39DAP/reference	1.38984	0.03
41DAP/reference	1.75946	0.011
42DAP/reference	1.75925	0.008
43DAP/reference	1.07059	1
47DAP/reference	1.22957	0.035
52DAP/reference	0.87856	0.023
57DAP/reference	1.06127	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06898	0.903
17DAP/reference	1.14594	0.572
27DAP/reference	0.81176	0.069
39DAP/reference	0.85519	0.133
41DAP/reference	0.96885	0.512
42DAP/reference	1.26471	0.184
43DAP/reference	1.05098	0.712
47DAP/reference	0.74967	0.045
52DAP/reference	0.78782	0.228
57DAP/reference	0.96645	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07891	0.966
26DAP/20DAP	1.28048	1
34DAP/26DAP	1.90846	0.542
51DAP/34DAP	0.78793	0.369
52DAP/51DAP	3.14585	0.035
53DAP/52DAP	0.88683	0.259
55DAP/53DAP	1.36434	0.162
57DAP/55DAP	0.91341	0.521
62DAP/57DAP	0.94338	0.994
68DAP/62DAP	0.63481	0.144
68DAP/14DAP	0.6164	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.19499	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95486	0.658
Mature Green Tomato/Ripe Tomato	2.3152	0.016
Immature Eggplant/Mature Eggplant	0.77955	0.082
Ripe Pepper/Ripe Tomato	1.00619	1
Mature Eggplant/Ripe Tomato	2.49772

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.22709
12-2/M82	N/A	N/A
12-4/M82	0.95837	1
1-3/M82	N/A	N/A
2-1-1/M82	1.41633
2-1/M82	N/A	N/A
2-6/M82	0.95931
3-2/M82	N/A	N/A
4-1-1/M82	0.995	1
4-1/M82	0.87399
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.9516	1
6-2/M82	N/A	N/A
6-3/M82	1.7011
7-1/M82	1.16855
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

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	0.93587	1
IL12-4/WTpooled	1.34315	0.839
IL1-4/WTpooled	0.938
WT/WTpooled	0.8965	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	1.02402	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02038	1
DC3000/delta hrp 6h	1.16807	1
DC3000/delta hrp 12h	0.97496	1
DC3000/delta hrp 24h	1.0571	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04189	0.515
DC3000 delta B/DC3000 delta AB	1.0988	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23116	1
Exp 36h	1.02316	1
Exp 60h	1.1951	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96544	1
Var 0h	0.83661	0.933
Var 12h I row2-row1	0.9314	0.77
Var 12h NI row2-row1	1.2624	0.266
Var 36h I row2-row1	1.19659	1
Var 36h NI row2-row1	0.87654	0.584
Var 60h I row2-row1	0.9745	1
Var 60h NI row2-row1	0.87075	0.866
Time course 0hI-0hNI	1.01696	1
Time course 12hI-12hNI	1.04045	0.842
Time course 36hI-36hNI	1.45463	0.005
Time course 60hI-60hNI	1.05234	1

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)	1.17597	0.455
transgenic ySAMdc/azygous control (breaker)	1.17695	1
transgenic ySAMdc/azygous control (red)	1.11314	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.2135	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06416	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.46931	0.14
Manapal/WT (break)	1.04572	1
Manapal/WT (red)	0.94499	0.607