Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.15.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96286	0.713
27DAP/17DAP	1.4435	0.859
39DAP/27DAP	0.94156	0.682
41DAP/39DAP	0.88087	0.545
42DAP/41DAP	1.19194	0.916
43DAP/42DAP	1.01205	0.937
47DAP/43DAP	1.1712	0.889
52DAP/47DAP	1.68253	0.238
57DAP/52DAP	1.4062	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88425	0.231
17DAP/reference	0.65991	0.007
27DAP/reference	0.76543	0.011
39DAP/reference	0.6594	0.01
41DAP/reference	0.55998	0.009
42DAP/reference	0.94186	0.225
43DAP/reference	0.78451	0.037
47DAP/reference	1.04746	1
52DAP/reference	1.56205	0.032
57DAP/reference	1.33765	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34649	0.099
27DAP/17DAP	1.04262	0.98
39DAP/27DAP	1.02942	0.77
41DAP/39DAP	1.01385	0.997
42DAP/41DAP	0.76276	0.049
43DAP/42DAP	1.32505	0.25
47DAP/43DAP	1.05561	0.973
52DAP/47DAP	1.07817	0.819
57DAP/52DAP	1.12447	0.596
57DAP/7DAP	1.64073	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67267	0.146
17DAP/reference	1.13446	0.574
27DAP/reference	0.96988	0.462
39DAP/reference	0.83027	0.039
41DAP/reference	0.94092	0.341
42DAP/reference	1.06286	0.686
43DAP/reference	0.88027	0.183
47DAP/reference	0.96647	0.671
52DAP/reference	1.00564	0.679
57DAP/reference	0.93218	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68716	0.01
17DAP/reference	0.6736	0.008
27DAP/reference	1.01338	0.663
39DAP/reference	1.45071	0.2
41DAP/reference	1.9411	0.011
42DAP/reference	1.2615	0.074
43DAP/reference	0.93778	0.277
47DAP/reference	0.80054	0.025
52DAP/reference	1.09901	0.322
57DAP/reference	0.75133	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87158	0.158
17DAP/reference	0.88174	0.358
27DAP/reference	0.93107	0.397
39DAP/reference	0.97263	0.544
41DAP/reference	1.10857	1
42DAP/reference	1.40343	0.6
43DAP/reference	1.52948	0.336
47DAP/reference	1.18049	0.82
52DAP/reference	0.84197	0.268
57DAP/reference	2.44151	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07565	1
26DAP/20DAP	0.70105	0.512
34DAP/26DAP	1.55057	0.304
51DAP/34DAP	1.01161	0.993
52DAP/51DAP	1.50127	0.413
53DAP/52DAP	0.89498	0.336
55DAP/53DAP	1.30874	0.244
57DAP/55DAP	1.05879	0.76
62DAP/57DAP	1.55313	0.115
68DAP/62DAP	3.76023	0.066
68DAP/14DAP	6.00381	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91552	0.399

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	4.57493
Mature Eggplant/Ripe Tomato	1.21005	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.036	1
1-1-2/M82	1.10256
12-2/M82	0.49434
12-4/M82	1.02867	0.611
1-3/M82	0.66099	0.441
2-1-1/M82	0.92954	1
2-1/M82	0.78627
2-6/M82	0.97527	1
3-2/M82	1.15836
4-1-1/M82	1.0868
4-1/M82	1.85765
4-3-2/M82	1.26838
4-3/M82	1.09425	1
5-3/M82	0.97829
6-2/M82	0.78079
6-3/M82	N/A	N/A
7-1/M82	1.16822
7-2/M82	0.85538	0.599
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	0.89043	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.92793	0.418
IL12-4/WTpooled	1.07677	0.695
IL1-4/WTpooled	2.41337	1
WT/WTpooled	0.99197	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	1.33745

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07913	0.846
DC3000/delta hrp 6h	1.18528
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.13047	0.243

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	2.09375	0.17

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01257	1
Var 0h	0.96473	1
Var 12h I row2-row1	1.03901	0.654
Var 12h NI row2-row1	0.65139	0.906
Var 36h I row2-row1	1.16531	1
Var 36h NI row2-row1	1.16133
Var 60h I row2-row1	1.05692	0.562
Var 60h NI row2-row1	0.53254	0.572
Time course 0hI-0hNI	0.98713	1
Time course 12hI-12hNI	1.06138	0.756
Time course 36hI-36hNI	1.42898	0.056
Time course 60hI-60hNI	1.84918	0.009

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)	0.88408	0.49
transgenic ySAMdc/azygous control (red)	0.9497	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95935	0.404

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92105	0.431

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)	0.73764	0.333
Manapal/WT (red)	0.98389	0.863