Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.52066	0.077
27DAP/17DAP	0.93364	0.919
39DAP/27DAP	1.18935	0.838
41DAP/39DAP	1.09221	0.958
42DAP/41DAP	1.19752	1
43DAP/42DAP	0.93023	0.877
47DAP/43DAP	0.97473	0.89
52DAP/47DAP	1.20194	0.832
57DAP/52DAP	0.92772	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96182	0.526
17DAP/reference	1.21114	0.057
27DAP/reference	1.0251	1
39DAP/reference	1.04314	0.326
41DAP/reference	0.99285	0.814
42DAP/reference	0.81049	0.007
43DAP/reference	0.99094	0.82
47DAP/reference	0.86209	0.013
52DAP/reference	0.91005	0.162
57DAP/reference	0.93857	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	5.84495	0.482
27DAP/17DAP	1.0864	0.881
39DAP/27DAP	1.03722	0.874
41DAP/39DAP	1.51496	0.169
42DAP/41DAP	0.6325	0.013
43DAP/42DAP	1.58903	0.273
47DAP/43DAP	0.92932	0.877
52DAP/47DAP	1.37623	0.334
57DAP/52DAP	1.86662	0.062
57DAP/7DAP	1.02048

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96279	0.183
17DAP/reference	0.93186	0.295
27DAP/reference	0.85954	0.051
39DAP/reference	1.01413	1
41DAP/reference	0.97738	0.431
42DAP/reference	0.87305	0.06
43DAP/reference	0.92471	0.175
47DAP/reference	0.91662	0.293
52DAP/reference	0.79002	0.046
57DAP/reference	0.87023	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05148	0.885
17DAP/reference	0.92776	0.357
27DAP/reference	0.85456	0.173
39DAP/reference	0.91925	0.298
41DAP/reference	0.90866	0.231
42DAP/reference	0.82496	0.02
43DAP/reference	1.03935	1
47DAP/reference	0.92723	0.099
52DAP/reference	0.81367	0.025
57DAP/reference	1.16484	0.552

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96942	0.566
17DAP/reference	1.07748	0.496
27DAP/reference	1.1204	0.137
39DAP/reference	1.08998	0.437
41DAP/reference	0.93395	0.371
42DAP/reference	0.94336	0.445
43DAP/reference	0.8531	0.179
47DAP/reference	1.07751	0.61
52DAP/reference	1.05667	0.89
57DAP/reference	0.71638	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.73025	0.586
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.44539
51DAP/34DAP	0.86352	0.132
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.01129	0.938
55DAP/53DAP	0.9933	0.894
57DAP/55DAP	0.91642	0.76
62DAP/57DAP	1.30169	0.868
68DAP/62DAP	1.01647	1
68DAP/14DAP	0.98907	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82091	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
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	N/A	N/A
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	1.0553
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.34606
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	1.07225	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95053	1
IL12-4/WTpooled	1.09836	0.785
IL1-4/WTpooled	0.94075	1
WT/WTpooled	1.06101	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	1.18995	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18372	0.921
DC3000/delta hrp 6h	4.5696
DC3000/delta hrp 12h	1.0978	1
DC3000/delta hrp 24h	0.99238	0.957

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	1.11244	0.339
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.44116
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	1.67222
Var 60h NI row2-row1	0.6876	0.63
Time course 0hI-0hNI	1.35933	0.799
Time course 12hI-12hNI	1.04327	1
Time course 36hI-36hNI	0.89275	0.484
Time course 60hI-60hNI	1.35194	0.254

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)	3.38369	0.305
transgenic ySAMdc/azygous control (breaker)	0.90992	1
transgenic ySAMdc/azygous control (red)	1.2032	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9559	0.104

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22639	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75809	0.172
Manapal/WT (break)	1.15166	0.14
Manapal/WT (red)	N/A	N/A