Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41326	0.183
27DAP/17DAP	1.3256	0.735
39DAP/27DAP	0.92372	0.631
41DAP/39DAP	1.30854	0.423
42DAP/41DAP	1.04804	0.941
43DAP/42DAP	1.31655	0.541
47DAP/43DAP	1.26831	0.469
52DAP/47DAP	0.81485	0.54
57DAP/52DAP	0.99746	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06805	0.587
17DAP/reference	1.2265	0.172
27DAP/reference	1.05807	0.981
39DAP/reference	0.95456	0.691
41DAP/reference	1.01069	1
42DAP/reference	0.92989	0.188
43DAP/reference	0.65736
47DAP/reference	0.80628	0.03
52DAP/reference	0.77645	0.258
57DAP/reference	1.65741	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19361	0.569
27DAP/17DAP	0.79535	0.295
39DAP/27DAP	1.33093	0.514
41DAP/39DAP	2.34891	0.012
42DAP/41DAP	0.7746	0.069
43DAP/42DAP	0.59036	0.031
47DAP/43DAP	1.32077	0.024
52DAP/47DAP	1.0878	0.804
57DAP/52DAP	1.38505	0.298
57DAP/7DAP	1.68951	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90117	0.183
17DAP/reference	0.84331	0.012
27DAP/reference	0.77987	0.01
39DAP/reference	0.86179	0.013
41DAP/reference	0.8745	0.039
42DAP/reference	0.84169	0.021
43DAP/reference	0.86593	0.028
47DAP/reference	0.90532	0.222
52DAP/reference	0.84959	0.028
57DAP/reference	0.8951	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93867	0.306
17DAP/reference	0.84407	0.021
27DAP/reference	0.94134	0.452
39DAP/reference	0.87005	0.14
41DAP/reference	0.981	0.545
42DAP/reference	0.81079	0.042
43DAP/reference	1.06807	0.719
47DAP/reference	0.86816	0.107
52DAP/reference	0.96074	0.407
57DAP/reference	0.91516	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82582	0.065
17DAP/reference	0.92198	0.398
27DAP/reference	0.80765	0.031
39DAP/reference	0.7922	0.019
41DAP/reference	0.83763	0.018
42DAP/reference	0.82009	0.018
43DAP/reference	0.79304	0.023
47DAP/reference	0.8613	0.103
52DAP/reference	0.79994	0.125
57DAP/reference	0.91409	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10172	0.966
26DAP/20DAP	0.76281	0.317
34DAP/26DAP	1.02997	1
51DAP/34DAP	1.21872	0.535
52DAP/51DAP	1.08942	0.722
53DAP/52DAP	0.7723	0.35
55DAP/53DAP	1.31308	0.218
57DAP/55DAP	0.69001	0.05
62DAP/57DAP	1.04972	1
68DAP/62DAP	1.54052	0.105
68DAP/14DAP	1.18603	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.625	0.162

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84443
Mature Green Tomato/Ripe Tomato	1.04347	1
Immature Eggplant/Mature Eggplant	0.26877
Ripe Pepper/Ripe Tomato	0.56304	0.293
Mature Eggplant/Ripe Tomato	0.87284	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.93813
12-2/M82	N/A	N/A
12-4/M82	0.83656	0.319
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	0.85642
4-3/M82	N/A	N/A
5-3/M82	0.99221	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.87102	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.5432	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.14802	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.93077	0.562
WT/WTpooled	N/A	N/A

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	1.04471	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97952	1
DC3000/delta hrp 6h	1.17513	1
DC3000/delta hrp 12h	0.83275	1
DC3000/delta hrp 24h	1.24652	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.72786	0.134
DC3000 delta B/DC3000 delta AB	2.8623

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02042	1
Exp 36h	1.76923	1
Exp 60h	1.13446	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97945	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.0733	0.795
Var 12h NI row2-row1	1.52532	0.649
Var 36h I row2-row1	1.25994	0.368
Var 36h NI row2-row1	0.92235	0.791
Var 60h I row2-row1	0.80088	0.582
Var 60h NI row2-row1	0.78331	0.818
Time course 0hI-0hNI	0.97057	0.866
Time course 12hI-12hNI	1.67115	0.006
Time course 36hI-36hNI	2.75572	0.004
Time course 60hI-60hNI	8.42013	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)	0.97179	0.662
transgenic ySAMdc/azygous control (breaker)	0.40062	0.131
transgenic ySAMdc/azygous control (red)	0.86071	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00913	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86767	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.42074	0.14
Manapal/WT (break)	1.15944	0.13
Manapal/WT (red)	1.33874	0.413