Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.5.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29649	0.359
27DAP/17DAP	1.24428	0.88
39DAP/27DAP	0.97004	0.733
41DAP/39DAP	1.0944	0.408
42DAP/41DAP	0.97179	1
43DAP/42DAP	1.08975	0.993
47DAP/43DAP	0.91859	0.663
52DAP/47DAP	0.94598	0.818
57DAP/52DAP	0.98301	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82061	0.162
17DAP/reference	0.98937	0.777
27DAP/reference	0.89767	0.359
39DAP/reference	0.92832	0.446
41DAP/reference	0.78812	0.039
42DAP/reference	0.87344	0.129
43DAP/reference	0.89937	0.067
47DAP/reference	0.92264	0.148
52DAP/reference	1.06744	0.951
57DAP/reference	1.07452	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06428	0.87
27DAP/17DAP	0.88338	0.782
39DAP/27DAP	0.80173	0.11
41DAP/39DAP	0.99104	1
42DAP/41DAP	1.09124	0.927
43DAP/42DAP	1.04284	1
47DAP/43DAP	1.1195	0.713
52DAP/47DAP	0.99098	0.902
57DAP/52DAP	0.9235	0.598
57DAP/7DAP	0.89728	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99775	0.55
17DAP/reference	1.11426	0.147
27DAP/reference	0.94882	0.303
39DAP/reference	0.8542	0.056
41DAP/reference	1.21665	0.025
42DAP/reference	1.08762	0.405
43DAP/reference	0.99945	0.694
47DAP/reference	0.96543	0.671
52DAP/reference	1.28329	0.428
57DAP/reference	1.04753	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91136	0.286
17DAP/reference	0.80793	0.077
27DAP/reference	0.93844	0.393
39DAP/reference	1.02552	1
41DAP/reference	1.0511	0.925
42DAP/reference	0.85973	0.237
43DAP/reference	0.88646	0.32
47DAP/reference	0.78163	0.023
52DAP/reference	0.76281	0.072
57DAP/reference	1.00278	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01237	1
17DAP/reference	0.88025	0.335
27DAP/reference	0.99436	0.691
39DAP/reference	0.9811	0.591
41DAP/reference	0.97396	0.56
42DAP/reference	1.01379	1
43DAP/reference	0.99822	0.767
47DAP/reference	0.899	0.259
52DAP/reference	0.95012	0.538
57DAP/reference	1.0589	0.947

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20875	0.966
26DAP/20DAP	1.3075	0.826
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.2217	0.241
52DAP/51DAP	0.51158
53DAP/52DAP	1.14839	0.413
55DAP/53DAP	0.9558	0.876
57DAP/55DAP	0.71537
62DAP/57DAP	1.19705	0.723
68DAP/62DAP	1.49544	0.028
68DAP/14DAP	1.14541	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99229	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.11919	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.88603

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	0.99367
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	0.97423	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.9245	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.94242	0.699
WT/WTpooled	N/A	N/A

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	1.38444	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95219	1
DC3000/delta hrp 6h	1.52106	0.582
DC3000/delta hrp 12h	1.04842	1
DC3000/delta hrp 24h	0.81461	0.198

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	0.51413

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.56213	1
Exp 36h	1.53153	0.409
Exp 60h	1.17191	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01072	1
Var 0h	1.06323	1
Var 12h I row2-row1	0.87988	0.39
Var 12h NI row2-row1	0.96647	0.906
Var 36h I row2-row1	0.77289	1
Var 36h NI row2-row1	1.17147	0.482
Var 60h I row2-row1	1.00735	1
Var 60h NI row2-row1	1.0411	1
Time course 0hI-0hNI	1.0793	0.719
Time course 12hI-12hNI	0.96117	0.799
Time course 36hI-36hNI	0.88875	0.136
Time course 60hI-60hNI	0.58282	0.007

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)	1.43625	1
transgenic ySAMdc/azygous control (breaker)	1.03354	1
transgenic ySAMdc/azygous control (red)	1.75282	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96242	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02433	1

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)	1.0361	1
Manapal/WT (red)	1.17679	0.164