Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.3.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48855	0.315
27DAP/17DAP	0.81749	0.763
39DAP/27DAP	0.85587	0.583
41DAP/39DAP	0.53399	0.06
42DAP/41DAP	1.04144	1
43DAP/42DAP	1.45562	0.768
47DAP/43DAP	1.38601	0.856
52DAP/47DAP	0.94541	0.854
57DAP/52DAP	1.68901	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8851	0.106
17DAP/reference	1.37911	0.384
27DAP/reference	0.84645	0.552
39DAP/reference	0.93034	0.624
41DAP/reference	1.05225	0.91
42DAP/reference	1.1169
43DAP/reference	0.91494	0.48
47DAP/reference	0.11437
52DAP/reference	1.16573
57DAP/reference	3.31953

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	1.48425	0.235
39DAP/27DAP	0.86733	0.587
41DAP/39DAP	0.32556
42DAP/41DAP	1.2074	0.257
43DAP/42DAP	3.46245
47DAP/43DAP	1.29872	0.914
52DAP/47DAP	2.19269	0.135
57DAP/52DAP	0.50684	0.129
57DAP/7DAP	0.54808	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79743	0.062
17DAP/reference	0.92998	0.253
27DAP/reference	1.0785	0.551
39DAP/reference	1.0308	1
41DAP/reference	1.02547	0.848
42DAP/reference	1.01689	0.791
43DAP/reference	0.87431	0.192
47DAP/reference	1.42407	0.915
52DAP/reference	0.73879	0.027
57DAP/reference	0.86296	0.048

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90666	0.736
17DAP/reference	1.63136	0.571
27DAP/reference	1.25547	1
39DAP/reference	1.91287	0.021
41DAP/reference	1.06478	1
42DAP/reference	0.99214	0.655
43DAP/reference	1.12253	0.91
47DAP/reference	0.99443	0.695
52DAP/reference	0.78788	0.003
57DAP/reference	2.46363	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17962	0.112
17DAP/reference	1.29257	0.337
27DAP/reference	1.02193	1
39DAP/reference	0.9473	0.464
41DAP/reference	0.94988	0.459
42DAP/reference	0.9448	0.361
43DAP/reference	0.77032	0.061
47DAP/reference	1.19419
52DAP/reference	1.12325	0.965
57DAP/reference	1.02254	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.63817	0.481
34DAP/26DAP	2.7693
51DAP/34DAP	0.59292
52DAP/51DAP	N/A	N/A
53DAP/52DAP	N/A	N/A
55DAP/53DAP	0.4102	0.188
57DAP/55DAP	1.27118	0.955
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.07962	0.944
68DAP/14DAP	0.37635

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.51251	0.7

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	0.8823	1
IL2-6/WTpooled	1.05602	0.584
IL7-5/WTpooled	1.06575	1
IL7-3/WTpooled	0.77345	0.294
IL12-4/WTpooled	1.09411	0.673
IL1-4/WTpooled	0.94817	0.457
WT/WTpooled	1.03494	0.957

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	N/A	N/A
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	N/A	N/A
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)	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	0.72314	0.087

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.59043	0.223

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