Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09133	0.838
27DAP/17DAP	0.92301	0.839
39DAP/27DAP	1.09127	0.961
41DAP/39DAP	0.85557	0.543
42DAP/41DAP	0.92494	1
43DAP/42DAP	1.53967	0.593
47DAP/43DAP	1.34807	0.576
52DAP/47DAP	0.98699	0.793
57DAP/52DAP	0.59748	0.344

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16067	0.012
17DAP/reference	1.03936	0.476
27DAP/reference	1.05166	0.33
39DAP/reference	0.98073	0.72
41DAP/reference	0.99582	1
42DAP/reference	0.93914	0.038
43DAP/reference	1.01795	0.899
47DAP/reference	0.92449	0.042
52DAP/reference	0.78254	0.028
57DAP/reference	0.80622	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01326	0.697
27DAP/17DAP	1.13066	0.694
39DAP/27DAP	0.97329	0.804
41DAP/39DAP	0.93465	0.781
42DAP/41DAP	0.89237	0.481
43DAP/42DAP	0.91936	0.321
47DAP/43DAP	0.91742	0.225
52DAP/47DAP	1.17947	0.589
57DAP/52DAP	0.9983	0.869
57DAP/7DAP	0.77594

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90953	0.246
17DAP/reference	0.86996	0.049
27DAP/reference	0.87368	0.039
39DAP/reference	1.07789	0.267
41DAP/reference	0.93283	0.107
42DAP/reference	0.97643	0.506
43DAP/reference	0.88466	0.086
47DAP/reference	0.84256	0.101
52DAP/reference	0.93839	0.278
57DAP/reference	1.12247	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05322	0.695
17DAP/reference	1.01992	0.859
27DAP/reference	0.96743	0.483
39DAP/reference	0.94659	0.298
41DAP/reference	0.93479	0.284
42DAP/reference	0.97582	0.482
43DAP/reference	1.01597	0.552
47DAP/reference	0.92584	0.047
52DAP/reference	0.8895	0.029
57DAP/reference	0.83747	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95859	0.489
17DAP/reference	1.526	0.467
27DAP/reference	0.96102	0.465
39DAP/reference	0.83203	0.046
41DAP/reference	1.03767	0.984
42DAP/reference	0.84826	0.172
43DAP/reference	0.90706	0.267
47DAP/reference	1.11827	0.187
52DAP/reference	0.85939	0.284
57DAP/reference	0.84981	0.177

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.39705	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.59529	0.152
51DAP/34DAP	1.29673
52DAP/51DAP	3.80339	0.492
53DAP/52DAP	0.84371	0.803
55DAP/53DAP	0.78263	0.404
57DAP/55DAP	0.98466	0.872
62DAP/57DAP	1.51608	0.868
68DAP/62DAP	0.74257	0.579
68DAP/14DAP	0.70688	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08266	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.74703	0.577
Immature Eggplant/Mature Eggplant	0.62851	0.176
Ripe Pepper/Ripe Tomato	1.0344	1
Mature Eggplant/Ripe Tomato	0.46579	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06184
1-1-2/M82	1.10896
12-2/M82	0.68064
12-4/M82	0.93848
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	1.08397	0.505
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	1.74701
5-3/M82	0.90241
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.36463
9-3-2/M82	1.37857

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.38204	1
IL7-5/WTpooled	3.25371
IL7-3/WTpooled	0.83824	0.293
IL12-4/WTpooled	0.87746	0.71
IL1-4/WTpooled	1.12886
WT/WTpooled	1.03641	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	0.90941	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11398	0.921
DC3000/delta hrp 6h	0.86447	0.95
DC3000/delta hrp 12h	1.01529	1
DC3000/delta hrp 24h	1.18164	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11569	0.515
DC3000 delta B/DC3000 delta AB	0.85848	0.195

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96065	1
Exp 36h	1.14567	1
Exp 60h	0.77664	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99352	1
Var 0h	0.85782	1
Var 12h I row2-row1	1.19098	0.654
Var 12h NI row2-row1	1.57846	0.34
Var 36h I row2-row1	1.02266	1
Var 36h NI row2-row1	1.09295	0.253
Var 60h I row2-row1	1.36452	1
Var 60h NI row2-row1	1.10975	1
Time course 0hI-0hNI	0.95508	0.771
Time course 12hI-12hNI	1.0109	0.892
Time course 36hI-36hNI	0.81088	0.058
Time course 60hI-60hNI	0.71553	0.015

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)	1.11552	0.287
transgenic ySAMdc/azygous control (breaker)	0.77818	0.15
transgenic ySAMdc/azygous control (red)	1.33351	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10177	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39868	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35171	0.105
Manapal/WT (break)	2.24118	0.183
Manapal/WT (red)	1.41095	0.413