Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.7.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80873	0.119
27DAP/17DAP	1.05113	0.91
39DAP/27DAP	2.13202	0.048
41DAP/39DAP	0.79081	0.213
42DAP/41DAP	1.12536	0.888
43DAP/42DAP	1.18614	0.864
47DAP/43DAP	1.1439	0.715
52DAP/47DAP	0.87137	0.641
57DAP/52DAP	1.26181	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95157	0.262
17DAP/reference	0.93891	0.224
27DAP/reference	0.98118	0.484
39DAP/reference	1.0042	1
41DAP/reference	0.98662	0.814
42DAP/reference	1.11727	0.003
43DAP/reference	1.04325	0.34
47DAP/reference	1.23646	0.005
52DAP/reference	0.99083	0.618
57DAP/reference	1.02435	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98488	0.782
27DAP/17DAP	1.08725	0.65
39DAP/27DAP	1.08137	0.512
41DAP/39DAP	1.13473	0.799
42DAP/41DAP	0.96674	0.762
43DAP/42DAP	1.02341	0.25
47DAP/43DAP	1.0733	0.448
52DAP/47DAP	0.94327	0.71
57DAP/52DAP	0.94399	0.467
57DAP/7DAP	1.11414

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08251	0.564
17DAP/reference	1.03687	0.18
27DAP/reference	1.01089	0.974
39DAP/reference	1.05399	0.026
41DAP/reference	1.01917	0.812
42DAP/reference	1.23468
43DAP/reference	1.10653	0.018
47DAP/reference	1.22448	0.075
52DAP/reference	1.02186	0.732
57DAP/reference	1.08897	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96019	0.532
17DAP/reference	1.06324	0.375
27DAP/reference	1.10465	0.208
39DAP/reference	1.03985	0.588
41DAP/reference	0.94618	0.226
42DAP/reference	0.98602	0.534
43DAP/reference	0.91192	0.263
47DAP/reference	0.94347	0.208
52DAP/reference	0.92899	0.029
57DAP/reference	0.9693	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07893	0.311
17DAP/reference	0.9264	0.194
27DAP/reference	0.95246	0.319
39DAP/reference	0.91761	0.271
41DAP/reference	1.03417	0.674
42DAP/reference	1.28133	0.053
43DAP/reference	1.43526	0.03
47DAP/reference	1.18191	0.089
52DAP/reference	1.32985	0.079
57DAP/reference	1.33272	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95407	1
26DAP/20DAP	1.1294	0.562
34DAP/26DAP	1.02004	1
51DAP/34DAP	1.11885	0.483
52DAP/51DAP	0.9179	1
53DAP/52DAP	0.94078	0.631
55DAP/53DAP	0.96124	0.577
57DAP/55DAP	1.15803	0.61
62DAP/57DAP	1.03083	0.902
68DAP/62DAP	0.92492	0.769
68DAP/14DAP	1.03544	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.39534	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.52146	0.101
Mature Green Tomato/Ripe Tomato	0.848	0.411
Immature Eggplant/Mature Eggplant	0.65393	0.066
Ripe Pepper/Ripe Tomato	0.84873	1
Mature Eggplant/Ripe Tomato	0.74961	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02363	1
1-1-2/M82	1.15746	1
12-2/M82	0.92021	0.955
12-4/M82	1.23598	1
1-3/M82	1.16888	1
2-1-1/M82	0.89058	0.465
2-1/M82	1.16046	1
2-6/M82	0.90116	1
3-2/M82	1.01362	0.388
4-1-1/M82	0.98541	1
4-1/M82	0.7412
4-3-2/M82	1.05918	0.241
4-3/M82	0.88462	1
5-3/M82	1.09108	1
6-2/M82	1.22643	0.253
6-3/M82	1.00131	1
7-1/M82	1.02927	1
7-2/M82	1.11208	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82608	0.243
IL2-6/WTpooled	0.90668	1
IL7-5/WTpooled	1.78185
IL7-3/WTpooled	0.93641	1
IL12-4/WTpooled	0.94558	1
IL1-4/WTpooled	1.08234	0.426
WT/WTpooled	1.00767	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	0.93104	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9789	1
DC3000/delta hrp 6h	0.95652	0.95
DC3000/delta hrp 12h	0.94031	1
DC3000/delta hrp 24h	1.04688	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19516	0.06
DC3000 delta B/DC3000 delta AB	1.22529	0.146

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	0.95799	1
Var 0h	1.01025	1
Var 12h I row2-row1	0.84421	0.338
Var 12h NI row2-row1	1.00069	1
Var 36h I row2-row1	1.17144	0.304
Var 36h NI row2-row1	0.95134	0.549
Var 60h I row2-row1	0.93233	0.832
Var 60h NI row2-row1	1.00248	1
Time course 0hI-0hNI	1.02878	0.764
Time course 12hI-12hNI	1.0478	0.72
Time course 36hI-36hNI	1.22608	0.006
Time course 60hI-60hNI	1.38456	0.047

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)	1.07712	0.331
transgenic ySAMdc/azygous control (breaker)	0.91512	0.49
transgenic ySAMdc/azygous control (red)	1.1156	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.23301	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94908	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9349	1
Manapal/WT (break)	1.07254	1
Manapal/WT (red)	1.02924	0.413