Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.13.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96258	0.743
27DAP/17DAP	1.26263	0.847
39DAP/27DAP	0.95452	0.663
41DAP/39DAP	1.31176	0.488
42DAP/41DAP	0.93088	1
43DAP/42DAP	0.91629	0.834
47DAP/43DAP	0.77122	0.34
52DAP/47DAP	1.62973	0.372
57DAP/52DAP	0.87932	0.687

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99235	0.693
17DAP/reference	0.91293	0.321
27DAP/reference	0.935	0.215
39DAP/reference	1.04309	0.57
41DAP/reference	0.91875	0.341
42DAP/reference	1.01261	1
43DAP/reference	1.01783	0.705
47DAP/reference	0.95631	0.191
52DAP/reference	1.00235	0.689
57DAP/reference	0.99528	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00739	1
27DAP/17DAP	1.04591	0.905
39DAP/27DAP	1.05103	0.581
41DAP/39DAP	0.92931	0.729
42DAP/41DAP	1.07987	0.773
43DAP/42DAP	0.93472	0.415
47DAP/43DAP	1.05528	0.788
52DAP/47DAP	1.01494	0.965
57DAP/52DAP	1.06125	0.643
57DAP/7DAP	1.15995	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95103	0.108
17DAP/reference	0.95489	0.144
27DAP/reference	0.99658	0.748
39DAP/reference	0.97086	0.109
41DAP/reference	0.93759	0.047
42DAP/reference	0.96239	0.32
43DAP/reference	0.94757	0.21
47DAP/reference	0.99533	1
52DAP/reference	0.97882	0.398
57DAP/reference	0.9446	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03182	0.55
17DAP/reference	0.98599	0.561
27DAP/reference	0.9159	0.188
39DAP/reference	0.90527	0.054
41DAP/reference	0.97023	0.299
42DAP/reference	0.92343	0.237
43DAP/reference	0.97056	0.516
47DAP/reference	0.95128	0.113
52DAP/reference	1.02397	0.3
57DAP/reference	1.012	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94105	0.065
17DAP/reference	1.00375	1
27DAP/reference	0.99336	0.727
39DAP/reference	0.99407	0.693
41DAP/reference	0.98575	0.512
42DAP/reference	1.04043	0.589
43DAP/reference	0.9569	0.143
47DAP/reference	0.90147	0.048
52DAP/reference	0.96522	0.529
57DAP/reference	0.86531	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04589	0.966
26DAP/20DAP	0.91996	1
34DAP/26DAP	1.13104	1
51DAP/34DAP	0.93967	0.472
52DAP/51DAP	1.0345	0.708
53DAP/52DAP	0.99618	0.99
55DAP/53DAP	1.04067	0.782
57DAP/55DAP	1.35616	0.826
62DAP/57DAP	1.07306	0.678
68DAP/62DAP	1.06637	0.912
68DAP/14DAP	1.15436	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13402	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58889	0.184
Mature Green Tomato/Ripe Tomato	1.23846	0.267
Immature Eggplant/Mature Eggplant	1.43468	0.081
Ripe Pepper/Ripe Tomato	1.09516	1
Mature Eggplant/Ripe Tomato	0.46102	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01935	1
1-1-2/M82	0.87701	0.958
12-2/M82	1.0031	0.61
12-4/M82	0.92366	1
1-3/M82	0.97488	1
2-1-1/M82	1.3045
2-1/M82	1.25024	1
2-6/M82	0.95803	1
3-2/M82	0.95298	1
4-1-1/M82	1.08226	1
4-1/M82	0.86272	0.737
4-3-2/M82	0.93583	1
4-3/M82	1.02903	1
5-3/M82	1.01282	1
6-2/M82	1.04601	1
6-3/M82	1.01192	1
7-1/M82	0.96858	0.803
7-2/M82	0.96296	0.578
9-3-2/M82	0.8638	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03918	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.30442	0.587
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.21179
IL1-4/WTpooled	0.85344
WT/WTpooled	0.93296	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	1.04841	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9996	1
DC3000/delta hrp 6h	0.8378	0.95
DC3000/delta hrp 12h	1.03543	1
DC3000/delta hrp 24h	1.02655	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0078	0.648
DC3000 delta B/DC3000 delta AB	1.10692	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01494	1
Exp 36h	0.99061	1
Exp 60h	0.72206	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92936	1
Var 0h	1.01651	1
Var 12h I row2-row1	1.18471	0.216
Var 12h NI row2-row1	1.12274	1
Var 36h I row2-row1	1.05567	1
Var 36h NI row2-row1	1.14489	1
Var 60h I row2-row1	1.05575	1
Var 60h NI row2-row1	1.12513	0.904
Time course 0hI-0hNI	1.14368	0.719
Time course 12hI-12hNI	1.0794	0.693
Time course 36hI-36hNI	1.00356	0.826
Time course 60hI-60hNI	1.36365	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)	0.98319	0.862
transgenic ySAMdc/azygous control (breaker)	1.11802	1
transgenic ySAMdc/azygous control (red)	1.02575	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9987	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26596	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09563	1
Manapal/WT (break)	2.20034	0.183
Manapal/WT (red)	1.08982	0.413