Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.2.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99495	0.876
27DAP/17DAP	0.66733	0.08
39DAP/27DAP	1.01995	0.876
41DAP/39DAP	1.10872	0.591
42DAP/41DAP	1.09076	0.913
43DAP/42DAP	1.37185	0.249
47DAP/43DAP	0.9122	0.696
52DAP/47DAP	0.7825	0.562
57DAP/52DAP	1.02359	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87571	0.097
17DAP/reference	0.94745	0.321
27DAP/reference	0.92656	0.208
39DAP/reference	0.94986	0.437
41DAP/reference	0.94094	0.201
42DAP/reference	0.86292	0.003
43DAP/reference	0.89867	0.234
47DAP/reference	0.87149	0.008
52DAP/reference	0.83798	0.172
57DAP/reference	0.89584	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12616	0.708
27DAP/17DAP	0.87571	0.58
39DAP/27DAP	0.96257	0.754
41DAP/39DAP	1.01752	1
42DAP/41DAP	0.90509	0.469
43DAP/42DAP	0.96867	0.729
47DAP/43DAP	0.9858	0.923
52DAP/47DAP	0.89223	0.466
57DAP/52DAP	0.97295	0.737
57DAP/7DAP	1.05946	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15829	0.318
17DAP/reference	1.07945	0.574
27DAP/reference	1.04923	0.804
39DAP/reference	1.28815	0.252
41DAP/reference	1.0999	0.491
42DAP/reference	1.36893	0.037
43DAP/reference	1.06606	1
47DAP/reference	0.94421	0.504
52DAP/reference	1.28387	0.229
57DAP/reference	1.28563	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84249	0.035
17DAP/reference	0.86744	0.095
27DAP/reference	0.84552	0.097
39DAP/reference	0.69719	0.011
41DAP/reference	0.80425	0.044
42DAP/reference	0.86023	0.098
43DAP/reference	0.84249	0.021
47DAP/reference	0.92463	0.083
52DAP/reference	0.80594	0.004
57DAP/reference	0.76901	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23663	0.037
17DAP/reference	1.03977	0.842
27DAP/reference	1.25806	0.164
39DAP/reference	1.20791	0.211
41DAP/reference	1.45662	0.319
42DAP/reference	0.84977	0.172
43DAP/reference	1.13229	0.796
47DAP/reference	0.79199	0.006
52DAP/reference	1.163	0.705
57DAP/reference	0.93408	0.339

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00844	1
26DAP/20DAP	0.96226	0.512
34DAP/26DAP	1.11267	0.819
51DAP/34DAP	0.97817	0.816
52DAP/51DAP	0.97469	1
53DAP/52DAP	1.01704	0.901
55DAP/53DAP	0.91584	0.515
57DAP/55DAP	0.87576	0.545
62DAP/57DAP	1.52859
68DAP/62DAP	1.1097	0.653
68DAP/14DAP	0.84318	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75091	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.2242	0.058
Mature Green Tomato/Ripe Tomato	2.6349	0.015
Immature Eggplant/Mature Eggplant	0.41941	0.058
Ripe Pepper/Ripe Tomato	4.08916	1
Mature Eggplant/Ripe Tomato	4.61371	1

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	0.82516
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	N/A	N/A
IL2-6/WTpooled	1.0099
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16592	1
IL12-4/WTpooled	1.08286	0.483
IL1-4/WTpooled	1.09731
WT/WTpooled	0.8206	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	1.01814	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.79159
DC3000/delta hrp 6h	0.98485	0.95
DC3000/delta hrp 12h	1.06924	1
DC3000/delta hrp 24h	0.83631	0.33

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58281	0.068
DC3000 delta B/DC3000 delta AB	0.55224	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98745	1
Exp 36h	0.76518	0.456
Exp 60h	0.67008	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95632	1
Var 0h	0.918	1
Var 12h I row2-row1	0.75941	0.418
Var 12h NI row2-row1	0.96775	0.906
Var 36h I row2-row1	0.94831	1
Var 36h NI row2-row1	1.2017	0.482
Var 60h I row2-row1	1.16337	0.502
Var 60h NI row2-row1	1.05503	1
Time course 0hI-0hNI	1.02271	1
Time course 12hI-12hNI	0.89108	0.125
Time course 36hI-36hNI	0.77409	0.023
Time course 60hI-60hNI	0.13423	0.005

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)	0.99312	0.931
transgenic ySAMdc/azygous control (breaker)	1.87564	0.178
transgenic ySAMdc/azygous control (red)	0.98471	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.71175	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.04209	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	7.37095	0.083
Manapal/WT (break)	3.78623	0.123
Manapal/WT (red)	1.69012	0.133