Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.867	0.543
27DAP/17DAP	1.0777	1
39DAP/27DAP	1.28545	0.885
41DAP/39DAP	1.27947	0.88
42DAP/41DAP	0.89877	1
43DAP/42DAP	1.12419	0.982
47DAP/43DAP	1.04695	0.92
52DAP/47DAP	0.85973	0.637
57DAP/52DAP	1.25606	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82318	0.092
17DAP/reference	0.97944	0.819
27DAP/reference	0.74165	0.152
39DAP/reference	0.82722	0.029
41DAP/reference	0.92026	0.667
42DAP/reference	0.87534	0.107
43DAP/reference	1.0348
47DAP/reference	0.85332	0.161
52DAP/reference	1.04665	1
57DAP/reference	4.22005	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77124	0.428
27DAP/17DAP	0.52341
39DAP/27DAP	0.88039	0.563
41DAP/39DAP	1.15654	1
42DAP/41DAP	1.02244	1
43DAP/42DAP	1.98045	0.162
47DAP/43DAP	0.98277	0.928
52DAP/47DAP	2.66958	0.172
57DAP/52DAP	1.09874	0.899
57DAP/7DAP	1.29302

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07275	0.813
17DAP/reference	1.09107	0.754
27DAP/reference	0.8709	0.058
39DAP/reference	0.92364	0.095
41DAP/reference	1.05289	0.745
42DAP/reference	0.90581	0.1
43DAP/reference	1.09102	0.212
47DAP/reference	1.09251	0.413
52DAP/reference	1.0258	1
57DAP/reference	1.04255	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92824	0.457
17DAP/reference	0.78034	0.059
27DAP/reference	0.84186	0.053
39DAP/reference	0.8135	0.097
41DAP/reference	0.88123	0.237
42DAP/reference	0.87803	0.15
43DAP/reference	0.83514	0.117
47DAP/reference	0.88322	0.09
52DAP/reference	0.89397	0.093
57DAP/reference	0.70065	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08723	0.864
17DAP/reference	0.91189	0.417
27DAP/reference	1.22769	0.198
39DAP/reference	0.94707	0.299
41DAP/reference	1.02292	0.826
42DAP/reference	1.01497	1
43DAP/reference	1.00732	0.712
47DAP/reference	0.71264	0.007
52DAP/reference	1.06204	0.941
57DAP/reference	0.99391	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.72017	0.479
26DAP/20DAP	0.75764	0.228
34DAP/26DAP	0.67853	0.253
51DAP/34DAP	1.2004
52DAP/51DAP	0.93001	1
53DAP/52DAP	1.90925	0.029
55DAP/53DAP	0.54444	0.462
57DAP/55DAP	1.08198	0.955
62DAP/57DAP	0.78605	0.681
68DAP/62DAP	1.76229	0.188
68DAP/14DAP	1.31035	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6121	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.38498
Immature Eggplant/Mature Eggplant	1.25632
Ripe Pepper/Ripe Tomato	1.45005
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	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.0197	0.277
IL2-6/WTpooled	0.74958	0.348
IL7-5/WTpooled	1.29265	0.792
IL7-3/WTpooled	1.73306	0.362
IL12-4/WTpooled	1.52623	0.595
IL1-4/WTpooled	1.6994	1
WT/WTpooled	1.08868	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.48829	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.29124	1
DC3000/delta hrp 24h	N/A	N/A

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	1.39667	1
Exp 36h	0.56684	0.504
Exp 60h	1.85012	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01298
Var 0h	N/A	N/A
Var 12h I row2-row1	2.69884	0.544
Var 12h NI row2-row1	0.58378	1
Var 36h I row2-row1	1.06353
Var 36h NI row2-row1	0.62689	0.706
Var 60h I row2-row1	0.67103	0.285
Var 60h NI row2-row1	0.27568	1
Time course 0hI-0hNI	1.30666	0.377
Time course 12hI-12hNI	0.44762	1
Time course 36hI-36hNI	1.26165	0.147
Time course 60hI-60hNI	9.17505	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.56249	0.166
transgenic ySAMdc/azygous control (red)	1.5222	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94505	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13955	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.11642	1
Manapal/WT (red)	0.96428	0.863