Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07931	0.932
27DAP/17DAP	1.2728	0.832
39DAP/27DAP	0.94382	0.663
41DAP/39DAP	1.01712	0.92
42DAP/41DAP	0.93035	1
43DAP/42DAP	0.95758	0.9
47DAP/43DAP	1.43844	0.527
52DAP/47DAP	1.11534	0.798
57DAP/52DAP	0.87997	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93238	0.284
17DAP/reference	1.14748	0.077
27DAP/reference	0.98646	0.741
39DAP/reference	1.01411	0.92
41DAP/reference	1.07256	0.158
42DAP/reference	0.90626	0.03
43DAP/reference	1.04101	0.646
47DAP/reference	0.90365	0.015
52DAP/reference	0.91883	0.183
57DAP/reference	1.08712	0.084

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.86826
27DAP/17DAP	0.89404	0.782
39DAP/27DAP	1.18108	0.558
41DAP/39DAP	1.03982	1
42DAP/41DAP	1.22816	0.539
43DAP/42DAP	1.0201	0.83
47DAP/43DAP	0.96244	0.815
52DAP/47DAP	1.28291	0.395
57DAP/52DAP	1.30522	0.168
57DAP/7DAP	1.14209	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85327	0.138
17DAP/reference	0.85181	0.049
27DAP/reference	0.78006	0.01
39DAP/reference	0.89219	0.073
41DAP/reference	0.72707	0.016
42DAP/reference	0.69678	0.011
43DAP/reference	0.78	0.021
47DAP/reference	0.90672	0.383
52DAP/reference	0.68075	0.014
57DAP/reference	0.70107	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01717	0.894
17DAP/reference	0.98292	0.642
27DAP/reference	0.96732	0.501
39DAP/reference	0.88488	0.274
41DAP/reference	1.04749	1
42DAP/reference	0.95014	0.237
43DAP/reference	0.99618	0.787
47DAP/reference	0.97349	0.41
52DAP/reference	1.00163	1
57DAP/reference	1.03646	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88287	0.183
17DAP/reference	0.9751	0.647
27DAP/reference	0.7252	0.035
39DAP/reference	0.71614	0.01
41DAP/reference	0.84411	0.086
42DAP/reference	0.81742	0.087
43DAP/reference	0.78607	0.032
47DAP/reference	0.92881	0.249
52DAP/reference	0.70783	0.1
57DAP/reference	0.91065	0.299

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06165	0.966
26DAP/20DAP	1.08856	0.905
34DAP/26DAP	1.10356	1
51DAP/34DAP	0.97342
52DAP/51DAP	1.52491	0.733
53DAP/52DAP	1.22205	0.608
55DAP/53DAP	1.62383	0.584
57DAP/55DAP	0.74955	0.327
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.31697	0.821
68DAP/14DAP	0.8985

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65642	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.11087
Immature Eggplant/Mature Eggplant	0.27257
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.84541

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	0.94158
1-3/M82	N/A	N/A
2-1-1/M82	1.18675
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	1.01061	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.71497
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	0.93249	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.71905	1
IL12-4/WTpooled	1.36788	0.532
IL1-4/WTpooled	1.52017
WT/WTpooled	0.96995	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	0.75393

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14047
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01057	1
DC3000/delta hrp 24h	0.93865

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	1.46102	0.399

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	0.85203
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
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)	1.22138	0.397
transgenic ySAMdc/azygous control (breaker)	1.37544	1
transgenic ySAMdc/azygous control (red)	1.28879	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02004	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89443	0.238

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)	N/A	N/A
Manapal/WT (red)	N/A	N/A