Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80416	0.265
27DAP/17DAP	1.13813	0.871
39DAP/27DAP	1.38376	0.363
41DAP/39DAP	0.88665	0.539
42DAP/41DAP	1.20799	0.786
43DAP/42DAP	1.23731	1
47DAP/43DAP	0.8716	0.562
52DAP/47DAP	0.90995	0.734
57DAP/52DAP	1.011	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04638	0.76
17DAP/reference	0.6894	0.009
27DAP/reference	0.85436	0.101
39DAP/reference	0.80485	0.048
41DAP/reference	0.63433	0.008
42DAP/reference	1.09509	0.276
43DAP/reference	1.00506	0.942
47DAP/reference	1.04914	0.495
52DAP/reference	1.24834	0.036
57DAP/reference	1.32438	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13971	0.699
27DAP/17DAP	1.51455	0.751
39DAP/27DAP	1.93411
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.35309
43DAP/42DAP	1.83534	0.554
47DAP/43DAP	N/A	N/A
52DAP/47DAP	1.86159	0.271
57DAP/52DAP	0.90525
57DAP/7DAP	1.19951	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42928	0.04
17DAP/reference	1.10794	0.399
27DAP/reference	1.11468	0.246
39DAP/reference	1.23118	0.028
41DAP/reference	1.18571	0.08
42DAP/reference	1.31474	0.037
43DAP/reference	1.33529	0.012
47DAP/reference	1.28657	0.062
52DAP/reference	1.29588	0.02
57DAP/reference	1.19084	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11268	0.605
17DAP/reference	0.95776	0.434
27DAP/reference	1.22167	0.09
39DAP/reference	1.12463	0.686
41DAP/reference	1.11041	0.471
42DAP/reference	1.09623	0.826
43DAP/reference	0.78179	0.058
47DAP/reference	0.95997	0.368
52DAP/reference	1.03204	0.702
57DAP/reference	0.82852	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37376	0.045
17DAP/reference	1.04649	0.792
27DAP/reference	0.92284	0.218
39DAP/reference	1.10267	0.307
41DAP/reference	1.09906	0.521
42DAP/reference	1.29947	0.078
43DAP/reference	1.31496	0.119
47DAP/reference	1.09535	0.461
52DAP/reference	1.14001	0.398
57DAP/reference	1.264	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98343	1
26DAP/20DAP	1.18554	0.85
34DAP/26DAP	1.56294
51DAP/34DAP	0.88672	0.532
52DAP/51DAP	1.49173	0.792
53DAP/52DAP	0.70474	0.111
55DAP/53DAP	1.22229	0.948
57DAP/55DAP	0.79475	0.398
62DAP/57DAP	1.23392	0.303
68DAP/62DAP	1.67877	0.015
68DAP/14DAP	1.73744	0.049

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.4969	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.50115	0.162
Mature Green Tomato/Ripe Tomato	0.95096	0.611
Immature Eggplant/Mature Eggplant	0.83355	0.329
Ripe Pepper/Ripe Tomato	0.63136	0.293
Mature Eggplant/Ripe Tomato	0.75024	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87708	0.907
1-1-2/M82	1.03128	1
12-2/M82	0.91495	0.955
12-4/M82	1.20926	1
1-3/M82	1.46002	0.277
2-1-1/M82	1.01907	1
2-1/M82	1.01252	1
2-6/M82	1.27498	0.355
3-2/M82	1.00539	1
4-1-1/M82	1.18814	1
4-1/M82	1.23429	1
4-3-2/M82	1.53277	0.241
4-3/M82	1.41643	1
5-3/M82	1.15863	1
6-2/M82	1.15463
6-3/M82	0.70185	0.982
7-1/M82	1.02577	1
7-2/M82	1.20802	0.324
9-3-2/M82	1.48485	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90073
IL2-6/WTpooled	0.74324	0.473
IL7-5/WTpooled	1.1877	0.792
IL7-3/WTpooled	1.13785	0.362
IL12-4/WTpooled	0.97107	1
IL1-4/WTpooled	0.97657	0.562
WT/WTpooled	0.98047	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	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	1.03315	0.921
DC3000/delta hrp 6h	0.99295	0.95
DC3000/delta hrp 12h	1.12825	1
DC3000/delta hrp 24h	1.23586	0.054

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	1.19514	1
Exp 36h	1.15474	1
Exp 60h	1.07436	1

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)	1.05298	0.397
transgenic ySAMdc/azygous control (breaker)	1.36326	0.248
transgenic ySAMdc/azygous control (red)	1.10922	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18147	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.63296	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79057	1
Manapal/WT (break)	0.9886	1
Manapal/WT (red)	0.62427	0.181