Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.12.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.75227	0.452
27DAP/17DAP	1.20944	0.911
39DAP/27DAP	0.96882	0.769
41DAP/39DAP	0.88252	0.771
42DAP/41DAP	1.06907	1
43DAP/42DAP	1.70588	0.993
47DAP/43DAP	1.04673	0.934
52DAP/47DAP	1.28363	0.876
57DAP/52DAP	1.23838	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.45157
17DAP/reference	N/A	N/A
27DAP/reference	0.65155	0.018
39DAP/reference	0.91055	0.527
41DAP/reference	0.59152	0.085
42DAP/reference	0.70492	0.176
43DAP/reference	N/A	N/A
47DAP/reference	1.396	1
52DAP/reference	0.9438
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54211	0.185
27DAP/17DAP	1.78975
39DAP/27DAP	0.88185
41DAP/39DAP	1.14375	1
42DAP/41DAP	0.74326	0.434
43DAP/42DAP	0.43766
47DAP/43DAP	1.45731	0.92
52DAP/47DAP	1.46348
57DAP/52DAP	0.96967	0.773
57DAP/7DAP	1.43175	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.58509	0.063
17DAP/reference	0.57293	0.012
27DAP/reference	0.64248	0.012
39DAP/reference	0.57663	0.011
41DAP/reference	0.57933	0.011
42DAP/reference	0.75481	0.095
43DAP/reference	0.73391	0.011
47DAP/reference	0.95687	0.671
52DAP/reference	0.73848	0.022
57DAP/reference	0.92111	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33182	0.842
17DAP/reference	1.52527	0.216
27DAP/reference	1.0032	0.598
39DAP/reference	0.83789	0.281
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	0.90993	0.43
47DAP/reference	0.99821	0.749
52DAP/reference	1.64251	0.279
57DAP/reference	0.86698

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70898	0.05
17DAP/reference	0.94943	0.528
27DAP/reference	0.64314	0.026
39DAP/reference	0.88592	0.222
41DAP/reference	0.72657	0.018
42DAP/reference	0.67942	0.025
43DAP/reference	0.63955	0.024
47DAP/reference	1.23959	0.339
52DAP/reference	0.69758	0.068
57DAP/reference	1.00409

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14302	0.966
26DAP/20DAP	0.55132
34DAP/26DAP	0.80318	0.192
51DAP/34DAP	0.93802
52DAP/51DAP	1.21764	0.733
53DAP/52DAP	0.50803	0.049
55DAP/53DAP	0.86295	0.325
57DAP/55DAP	N/A	N/A
62DAP/57DAP	2.01322	0.003
68DAP/62DAP	N/A	N/A
68DAP/14DAP	0.72435

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.01704	0.347

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	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	1.08303	0.277
IL2-6/WTpooled	1.13937	0.419
IL7-5/WTpooled	1.00218	1
IL7-3/WTpooled	0.95151	0.418
IL12-4/WTpooled	0.88672	0.581
IL1-4/WTpooled	1.01873	1
WT/WTpooled	0.89688	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.79772
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	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	1.0451	0.374
Var 12h I row2-row1	0.89556
Var 12h NI row2-row1	1.16122
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.7973	0.378
Var 60h I row2-row1	1.1781	0.562
Var 60h NI row2-row1	0.88949
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29999	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A