Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06238	0.938
27DAP/17DAP	1.14533	0.849
39DAP/27DAP	0.95903	0.733
41DAP/39DAP	1.09253	0.988
42DAP/41DAP	1.03769	0.983
43DAP/42DAP	1.20271	1
47DAP/43DAP	1.3236	0.715
52DAP/47DAP	1.90815	0.319
57DAP/52DAP	1.25299	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83025	0.03
17DAP/reference	0.70018	0.008
27DAP/reference	0.74706	0.018
39DAP/reference	0.77724	0.042
41DAP/reference	0.68355	0.016
42DAP/reference	0.75034	0.002
43DAP/reference	0.70475	0.015
47DAP/reference	0.76833	0.004
52DAP/reference	0.74637	0.053
57DAP/reference	0.83512	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29556	0.482
27DAP/17DAP	0.86638	0.537
39DAP/27DAP	0.70127	0.093
41DAP/39DAP	1.38351	0.65
42DAP/41DAP	0.84677	0.309
43DAP/42DAP	1.60023	0.297
47DAP/43DAP	1.0813	0.892
52DAP/47DAP	0.95919	0.814
57DAP/52DAP	1.91125	0.154
57DAP/7DAP	1.73407	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75481	0.07
17DAP/reference	0.91093	0.192
27DAP/reference	0.93087	0.248
39DAP/reference	0.96443	0.411
41DAP/reference	1.02009	1
42DAP/reference	1.19827	0.037
43DAP/reference	1.00702	0.802
47DAP/reference	0.61379	0.05
52DAP/reference	1.01017	0.802
57DAP/reference	1.12043	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81702	0.1
17DAP/reference	0.64558	0.005
27DAP/reference	0.76868	0.027
39DAP/reference	0.66771	0.055
41DAP/reference	0.68544	0.006
42DAP/reference	0.74731	0.03
43DAP/reference	0.87414	0.206
47DAP/reference	0.84686	0.099
52DAP/reference	0.66836	0.014
57DAP/reference	0.60983	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96246	0.335
17DAP/reference	1.09723	0.62
27DAP/reference	0.93328	0.416
39DAP/reference	0.93069	0.299
41DAP/reference	0.89019	0.119
42DAP/reference	1.02439	1
43DAP/reference	0.95418	0.545
47DAP/reference	0.64194	0.008
52DAP/reference	0.65724	0.061
57DAP/reference	0.93879	0.253

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21679	0.966
26DAP/20DAP	0.90236	0.151
34DAP/26DAP	1.01467	1
51DAP/34DAP	0.87354	0.681
52DAP/51DAP	0.81971	0.151
53DAP/52DAP	1.03685	0.935
55DAP/53DAP	1.12504	0.79
57DAP/55DAP	0.7855	0.3
62DAP/57DAP	1.22308	0.047
68DAP/62DAP	1.13669	0.897
68DAP/14DAP	0.79579	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83743	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.30102	0.073
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.17624	0.267
Ripe Pepper/Ripe Tomato	13.9877	0.256
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07756
1-1-2/M82	N/A	N/A
12-2/M82	0.92605
12-4/M82	0.86883
1-3/M82	N/A	N/A
2-1-1/M82	0.28131
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.29166	0.967
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	0.65268
5-3/M82	0.92522
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.64133
7-2/M82	0.81864
9-3-2/M82	1.28282

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80915	0.247
IL2-6/WTpooled	1.12426	0.584
IL7-5/WTpooled	0.91771	1
IL7-3/WTpooled	0.88404	0.298
IL12-4/WTpooled	1.1545	0.839
IL1-4/WTpooled	1.03087	1
WT/WTpooled	1.00453	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	0.98831	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02436	1
DC3000/delta hrp 6h	1.06639	1
DC3000/delta hrp 12h	1.01304	1
DC3000/delta hrp 24h	0.82369	0.074

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	0.97135	1
Exp 36h	0.8247	0.449
Exp 60h	0.65828	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01334	1
Var 0h	0.806	0.936
Var 12h I row2-row1	0.98015	0.627
Var 12h NI row2-row1	0.98101	1
Var 36h I row2-row1	0.97397
Var 36h NI row2-row1	0.83643
Var 60h I row2-row1	0.84103
Var 60h NI row2-row1	1.05009	1
Time course 0hI-0hNI	0.95539	0.745
Time course 12hI-12hNI	0.94639	0.738
Time course 36hI-36hNI	0.8857	0.129
Time course 60hI-60hNI	1.39223	0.646

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)	0.91712	0.306
transgenic ySAMdc/azygous control (breaker)	0.83924	0.49
transgenic ySAMdc/azygous control (red)	0.97974	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97104	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68178	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.04121	0.083
Manapal/WT (break)	2.23258	0.123
Manapal/WT (red)	1.91972	0.126