Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99672	0.858
27DAP/17DAP	1.08998	0.881
39DAP/27DAP	0.78208	0.495
41DAP/39DAP	1.04603	0.85
42DAP/41DAP	1.20684	0.933
43DAP/42DAP	1.64152	0.382
47DAP/43DAP	0.93268	0.663
52DAP/47DAP	1.20212	0.731
57DAP/52DAP	1.0802	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00413	1
17DAP/reference	1.05011	0.565
27DAP/reference	1.02067	0.684
39DAP/reference	1.02548	0.403
41DAP/reference	1.04609	0.241
42DAP/reference	0.94178	0.067
43DAP/reference	1.02788	0.758
47DAP/reference	0.96049	0.127
52DAP/reference	0.90565	0.135
57DAP/reference	0.92452	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06239	0.642
27DAP/17DAP	1.05581	0.852
39DAP/27DAP	0.87557	0.334
41DAP/39DAP	0.79561	0.547
42DAP/41DAP	0.99546	0.816
43DAP/42DAP	0.94405	0.576
47DAP/43DAP	0.93441	0.617
52DAP/47DAP	1.10474	0.681
57DAP/52DAP	0.9382	0.612
57DAP/7DAP	1.40573	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16692	0.36
17DAP/reference	1.19897	0.269
27DAP/reference	1.08701	0.453
39DAP/reference	1.26693	0.053
41DAP/reference	1.14163	0.325
42DAP/reference	1.15985	0.174
43DAP/reference	1.13418	0.124
47DAP/reference	1.00767	1
52DAP/reference	1.09864	0.308
57DAP/reference	0.9949	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0964	0.507
17DAP/reference	0.90883	0.062
27DAP/reference	0.88637	0.111
39DAP/reference	0.8681	0.091
41DAP/reference	0.93504	0.205
42DAP/reference	0.89888	0.169
43DAP/reference	1.08902	0.547
47DAP/reference	0.99338	0.66
52DAP/reference	0.95054	0.04
57DAP/reference	0.99067	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90194	0.23
17DAP/reference	1.1032	0.585
27DAP/reference	1.19032	0.325
39DAP/reference	1.12574	0.227
41DAP/reference	1.12129	0.231
42DAP/reference	1.20842	0.459
43DAP/reference	1.13189	0.935
47DAP/reference	1.01371	1
52DAP/reference	0.94608	0.529
57DAP/reference	0.73746	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02342	0.966
26DAP/20DAP	1.22875	0.85
34DAP/26DAP	1.27294	0.819
51DAP/34DAP	0.92076	0.631
52DAP/51DAP	1.02136	1
53DAP/52DAP	0.80055	0.071
55DAP/53DAP	0.90119	0.303
57DAP/55DAP	1.23166	0.818
62DAP/57DAP	1.03965	1
68DAP/62DAP	0.91212	0.747
68DAP/14DAP	0.75832	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08034	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.23295	0.062
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.7602	0.144
Ripe Pepper/Ripe Tomato	3.64687	1
Mature Eggplant/Ripe Tomato	1.94516	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05371	1
1-1-2/M82	1.06258	1
12-2/M82	N/A	N/A
12-4/M82	1.10001
1-3/M82	0.67331
2-1-1/M82	0.72445
2-1/M82	N/A	N/A
2-6/M82	1.02822	1
3-2/M82	N/A	N/A
4-1-1/M82	0.81756
4-1/M82	1.46017
4-3-2/M82	N/A	N/A
4-3/M82	1.11431
5-3/M82	1.02407	1
6-2/M82	N/A	N/A
6-3/M82	1.04827	1
7-1/M82	N/A	N/A
7-2/M82	1.00583	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62518	0.321
IL2-6/WTpooled	0.73143	0.473
IL7-5/WTpooled	1.93456	1
IL7-3/WTpooled	0.96138	1
IL12-4/WTpooled	0.91894	1
IL1-4/WTpooled	0.63985	0.444
WT/WTpooled	1.05114	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	1.27912	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11198	0.921
DC3000/delta hrp 6h	0.7016	0.69
DC3000/delta hrp 12h	0.99896	1
DC3000/delta hrp 24h	0.97874	0.897

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	0.85316	0.265
Exp 36h	0.96805	0.943
Exp 60h	0.84015	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.056	1
Var 0h	0.79157	0.933
Var 12h I row2-row1	0.99018	1
Var 12h NI row2-row1	1.00448	1
Var 36h I row2-row1	0.8525	0.805
Var 36h NI row2-row1	0.96807	0.706
Var 60h I row2-row1	1.05663	0.543
Var 60h NI row2-row1	1.02944	1
Time course 0hI-0hNI	1.0858	0.799
Time course 12hI-12hNI	0.97567	0.86
Time course 36hI-36hNI	0.71707	0.023
Time course 60hI-60hNI	1.17361	0.033

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)	1.03408	0.408
transgenic ySAMdc/azygous control (breaker)	1.04712	1
transgenic ySAMdc/azygous control (red)	1.07321	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97523	0.097

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64509	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62345	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.9863	0.863