Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00264	0.927
27DAP/17DAP	1.17393	0.833
39DAP/27DAP	0.81978	0.364
41DAP/39DAP	1.12119	0.67
42DAP/41DAP	0.96718	1
43DAP/42DAP	0.96638	0.91
47DAP/43DAP	1.01698	0.95
52DAP/47DAP	1.10296	0.786
57DAP/52DAP	1.08486	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92563	0.115
17DAP/reference	0.91589	0.298
27DAP/reference	0.95405	0.201
39DAP/reference	1.01099	0.771
41DAP/reference	0.84434	0.542
42DAP/reference	0.92714	0.202
43DAP/reference	0.63147
47DAP/reference	0.83808	0.09
52DAP/reference	1.01116	1
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99743	0.899
27DAP/17DAP	1.00315	1
39DAP/27DAP	1.10697	0.343
41DAP/39DAP	1.05108	0.799
42DAP/41DAP	0.94933	0.649
43DAP/42DAP	0.93946	0.216
47DAP/43DAP	0.97395	0.857
52DAP/47DAP	1.00039	0.987
57DAP/52DAP	1.06967	0.558
57DAP/7DAP	1.03109	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97414	0.203
17DAP/reference	1.02062	0.574
27DAP/reference	0.98581	0.375
39DAP/reference	1.02698	0.46
41DAP/reference	0.96395	0.166
42DAP/reference	1.05727	0.03
43DAP/reference	0.99074	0.608
47DAP/reference	0.95389	0.293
52DAP/reference	1.02722	0.308
57DAP/reference	1.01924	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01959	0.626
17DAP/reference	1.04511	0.264
27DAP/reference	1.01208	1
39DAP/reference	0.97377	0.322
41DAP/reference	1.03455	1
42DAP/reference	1.03297	0.934
43DAP/reference	1.01348	0.827
47DAP/reference	1.06915	0.12
52DAP/reference	1.01089	0.789
57DAP/reference	1.02173	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96277	0.049
17DAP/reference	0.97533	0.452
27DAP/reference	1.00491	1
39DAP/reference	1.00621	1
41DAP/reference	0.9708	0.119
42DAP/reference	0.89622	0.059
43DAP/reference	0.93762	0.179
47DAP/reference	1.03825	0.239
52DAP/reference	0.93959	0.342
57DAP/reference	0.8892	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0509	0.735
26DAP/20DAP	0.92393	0.512
34DAP/26DAP	0.95218	0.811
51DAP/34DAP	0.88904	0.225
52DAP/51DAP	0.98329	1
53DAP/52DAP	1.16571
55DAP/53DAP	0.92825
57DAP/55DAP	1.10663	0.955
62DAP/57DAP	0.89463	0.466
68DAP/62DAP	1.15921	0.29
68DAP/14DAP	1.13732	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97691	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93728	0.577
Mature Green Tomato/Ripe Tomato	0.91384	0.487
Immature Eggplant/Mature Eggplant	1.19116	0.606
Ripe Pepper/Ripe Tomato	1.09266	1
Mature Eggplant/Ripe Tomato	0.49904	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09297	0.591
1-1-2/M82	0.87055	1
12-2/M82	1.25575
12-4/M82	0.89431	1
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	1.05207	1
3-2/M82	0.99189	1
4-1-1/M82	N/A	N/A
4-1/M82	0.84633	0.665
4-3-2/M82	0.97241	1
4-3/M82	0.98862	1
5-3/M82	1.0214	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.9874
7-2/M82	0.91893	0.881
9-3-2/M82	0.88631	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71215
IL2-6/WTpooled	1.03075	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08827	1
IL12-4/WTpooled	1.23816	0.553
IL1-4/WTpooled	0.871	0.699
WT/WTpooled	0.95599	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	1.08278	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01525	0.921
DC3000/delta hrp 6h	1.14636	1
DC3000/delta hrp 12h	0.91576	1
DC3000/delta hrp 24h	1.16803	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11471	0.355
DC3000 delta B/DC3000 delta AB	1.06432	0.468

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01534	1
Exp 36h	1.10284	0.693
Exp 60h	1.31892	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99625	1
Var 0h	1.01746	1
Var 12h I row2-row1	1.17988	0.195
Var 12h NI row2-row1	0.98762	1
Var 36h I row2-row1	0.96055	1
Var 36h NI row2-row1	0.88435	0.522
Var 60h I row2-row1	1.37123	0.562
Var 60h NI row2-row1	1.09068	1
Time course 0hI-0hNI	1.09224	0.833
Time course 12hI-12hNI	1.05824	0.698
Time course 36hI-36hNI	0.96337	0.484
Time course 60hI-60hNI	1.27965	0.019

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)	0.913	0.409
transgenic ySAMdc/azygous control (breaker)	1.05482	1
transgenic ySAMdc/azygous control (red)	1.02922	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98568	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22964	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7597	1
Manapal/WT (break)	0.95338	1
Manapal/WT (red)	0.97477	0.863