Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62447	0.166
27DAP/17DAP	0.90847	0.784
39DAP/27DAP	0.94267	0.652
41DAP/39DAP	1.0155	0.935
42DAP/41DAP	1.56682	0.044
43DAP/42DAP	0.84915	0.695
47DAP/43DAP	1.67309	0.268
52DAP/47DAP	1.0665	0.908
57DAP/52DAP	1.41853	0.524

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48414	0.29
17DAP/reference	0.91602	0.278
27DAP/reference	0.9301	0.286
39DAP/reference	0.91767	0.276
41DAP/reference	0.93963	0.341
42DAP/reference	1.06411	0.352
43DAP/reference	1.00506	0.924
47DAP/reference	0.98442	0.473
52DAP/reference	1.02954	0.654
57DAP/reference	1.05	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20347	0.264
27DAP/17DAP	0.91359	0.724
39DAP/27DAP	1.06717	0.77
41DAP/39DAP	1.01282	1
42DAP/41DAP	1.18468	0.487
43DAP/42DAP	1.19144	0.351
47DAP/43DAP	0.95249	0.833
52DAP/47DAP	0.91863	0.778
57DAP/52DAP	0.93163	0.632
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94815	0.495
17DAP/reference	0.83266	0.22
27DAP/reference	1.07193	0.551
39DAP/reference	0.7468	0.018
41DAP/reference	0.83828	0.213
42DAP/reference	0.9178	0.304
43DAP/reference	0.91753	0.23
47DAP/reference	0.81421	0.027
52DAP/reference	0.84811	0.09
57DAP/reference	0.85138	0.034

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.25212	0.052
17DAP/reference	0.96403	0.642
27DAP/reference	1.18446	0.595
39DAP/reference	1.22945	0.233
41DAP/reference	0.99607	0.545
42DAP/reference	0.92668	0.321
43DAP/reference	0.96291	0.507
47DAP/reference	0.84077	0.025
52DAP/reference	1.00313	0.713
57DAP/reference	1.01372	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44331	0.138
17DAP/reference	0.92735	0.426
27DAP/reference	1.01159	1
39DAP/reference	0.85959	0.069
41DAP/reference	0.93284	0.459
42DAP/reference	0.92973	0.445
43DAP/reference	0.94344	0.484
47DAP/reference	0.89043	0.24
52DAP/reference	1.37831	0.436
57DAP/reference	1.09703	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3709	0.966
26DAP/20DAP	1.59237	0.315
34DAP/26DAP	1.97635	1
51DAP/34DAP	0.8357
52DAP/51DAP	0.84017	1
53DAP/52DAP	1.19194	0.623
55DAP/53DAP	0.862	0.604
57DAP/55DAP	1.13443	0.969
62DAP/57DAP	2.04992
68DAP/62DAP	0.76394	0.609
68DAP/14DAP	0.9145	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.79567	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.53091
Mature Green Tomato/Ripe Tomato	0.85848	0.024
Immature Eggplant/Mature Eggplant	4.16941	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	9.4734	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.08117	1
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	1.41238
2-6/M82	1.323	0.329
3-2/M82	2.27853
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	1.64993	1
5-3/M82	0.98632	1
6-2/M82	1.71378
6-3/M82	1.68562	1
7-1/M82	0.44288
7-2/M82	0.93818
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99638	1
IL2-6/WTpooled	0.87124	1
IL7-5/WTpooled	1.32397
IL7-3/WTpooled	1.08694	1
IL12-4/WTpooled	1.26982	0.516
IL1-4/WTpooled	1.60145	1
WT/WTpooled	0.89923	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	0.9473	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13933
DC3000/delta hrp 6h	1.20555	1
DC3000/delta hrp 12h	1.32926	0.188
DC3000/delta hrp 24h	8.30118	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.65314	0.076
DC3000 delta B/DC3000 delta AB	1.16148	0.423

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	0.97888
Var 0h	1.09911	0.936
Var 12h I row2-row1	1.66474	0.692
Var 12h NI row2-row1	2.38449	1
Var 36h I row2-row1	1.51372	1
Var 36h NI row2-row1	0.64931	0.272
Var 60h I row2-row1	1.0569
Var 60h NI row2-row1	0.6756	0.292
Time course 0hI-0hNI	0.90135	0.343
Time course 12hI-12hNI	0.91244	0.442
Time course 36hI-36hNI	1.13598	0.19
Time course 60hI-60hNI	1.20934	0.08

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)	1.20331	0.931
transgenic ySAMdc/azygous control (breaker)	1.10474	1
transgenic ySAMdc/azygous control (red)	1.21415	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89117	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65913	0.238

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)	0.93842	1
Manapal/WT (red)	0.84021	0.503