Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76492	0.253
27DAP/17DAP	0.82408	0.589
39DAP/27DAP	0.81219	0.487
41DAP/39DAP	1.31847	0.56
42DAP/41DAP	1.11367	0.931
43DAP/42DAP	0.97758	0.925
47DAP/43DAP	1.01686	1
52DAP/47DAP	0.98834	0.837
57DAP/52DAP	1.14162	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90038	0.111
17DAP/reference	0.98316	0.701
27DAP/reference	0.98193	0.694
39DAP/reference	0.89503	0.118
41DAP/reference	0.86443	0.114
42DAP/reference	0.83248	0.004
43DAP/reference	0.9213	0.093
47DAP/reference	0.87696	0.012
52DAP/reference	0.98097	0.504
57DAP/reference	0.99524	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89979	0.442
27DAP/17DAP	0.94801	0.878
39DAP/27DAP	0.73375	0.086
41DAP/39DAP	0.63696	0.178
42DAP/41DAP	1.05218	1
43DAP/42DAP	1.09428	0.446
47DAP/43DAP	0.87318	0.588
52DAP/47DAP	1.14036	0.883
57DAP/52DAP	0.99062	0.841
57DAP/7DAP	1.20916

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04033	0.876
17DAP/reference	0.8945	0.056
27DAP/reference	1.09738	0.301
39DAP/reference	0.94309	0.354
41DAP/reference	1.16195	0.191
42DAP/reference	0.9569	0.371
43DAP/reference	1.08864	0.483
47DAP/reference	1.16073	0.837
52DAP/reference	1.14082	0.401
57DAP/reference	0.93002	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90956	0.362
17DAP/reference	0.83365	0.041
27DAP/reference	0.87941	0.09
39DAP/reference	0.74619	0.093
41DAP/reference	1.00692	1
42DAP/reference	0.8881	0.189
43DAP/reference	0.94928	0.459
47DAP/reference	0.92549	0.201
52DAP/reference	1.17459	0.559
57DAP/reference	0.69492	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39633	0.237
17DAP/reference	0.97186	0.636
27DAP/reference	1.04356	0.934
39DAP/reference	1.04744	0.578
41DAP/reference	1.04625	0.961
42DAP/reference	1.11815	0.5
43DAP/reference	1.01261	0.796
47DAP/reference	0.92376	0.191
52DAP/reference	0.7986	0.193
57DAP/reference	0.93328	0.225

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0502	0.966
26DAP/20DAP	0.94685	1
34DAP/26DAP	1.03225	0.944
51DAP/34DAP	1.04415	0.911
52DAP/51DAP	0.84016	1
53DAP/52DAP	0.9917	0.978
55DAP/53DAP	0.91329	0.761
57DAP/55DAP	1.01439	0.831
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	2.28676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7741	0.186

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	0.24244
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.06539
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	0.59828
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	0.81011
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	1.07046	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01753	1
IL12-4/WTpooled	1.06655	0.839
IL1-4/WTpooled	1.23924
WT/WTpooled	0.99681	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	0.98224	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12175	0.921
DC3000/delta hrp 6h	1.05046	1
DC3000/delta hrp 12h	0.7851	1
DC3000/delta hrp 24h	1.09455	1

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	0.50718

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.33833	1
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)	0.57448	0.315
transgenic ySAMdc/azygous control (breaker)	0.83283	1
transgenic ySAMdc/azygous control (red)	1.41217	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93613	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.4497	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.9379	0.084
Manapal/WT (break)	1.15169	1
Manapal/WT (red)	N/A	N/A