Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07877	0.912
27DAP/17DAP	1.4598	0.675
39DAP/27DAP	1.40089	0.548
41DAP/39DAP	0.90272	0.593
42DAP/41DAP	1.43817	0.366
43DAP/42DAP	0.91624	0.751
47DAP/43DAP	2.42945	0.196
52DAP/47DAP	0.57709	0.083
57DAP/52DAP	1.18241	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22863	0.022
17DAP/reference	0.7919	0.208
27DAP/reference	1.35649	0.063
39DAP/reference	0.85802	0.467
41DAP/reference	1.26652	0.48
42DAP/reference	1.02857	0.665
43DAP/reference	0.87184	0.135
47DAP/reference	1.14206	1
52DAP/reference	1.4578	0.371
57DAP/reference	0.91809	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18252	0.455
27DAP/17DAP	0.95944	0.724
39DAP/27DAP	1.00521	1
41DAP/39DAP	0.83562	0.265
42DAP/41DAP	1.11204	0.8
43DAP/42DAP	1.16606	0.176
47DAP/43DAP	1.1837	0.529
52DAP/47DAP	1.08719	0.734
57DAP/52DAP	0.97062	0.768
57DAP/7DAP	1.06502	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.57516	0.108
17DAP/reference	0.70457	0.167
27DAP/reference	1.14159	0.974
39DAP/reference	0.81887	0.083
41DAP/reference	0.86879	0.203
42DAP/reference	0.74847	0.063
43DAP/reference	0.94891	0.44
47DAP/reference	1.09596	0.571
52DAP/reference	1.18151	0.684
57DAP/reference	0.90667	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63393	0.058
17DAP/reference	1.2261	0.156
27DAP/reference	0.7756	0.24
39DAP/reference	0.99834	0.642
41DAP/reference	0.76894	0.141
42DAP/reference	1.17888	0.969
43DAP/reference	0.70263	0.404
47DAP/reference	1.12733	0.572
52DAP/reference	1.15164	0.208
57DAP/reference	0.79834	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06733
17DAP/reference	N/A	N/A
27DAP/reference	1.09435
39DAP/reference	1.0198
41DAP/reference	0.95486	0.754
42DAP/reference	N/A	N/A
43DAP/reference	1.22417	0.49
47DAP/reference	0.89698	0.199
52DAP/reference	0.79167	0.163
57DAP/reference	0.75768	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.48954	0.966
26DAP/20DAP	1.07434	0.718
34DAP/26DAP	1.18387	1
51DAP/34DAP	1.22835	0.352
52DAP/51DAP	0.95539	1
53DAP/52DAP	1.2755	0.129
55DAP/53DAP	0.93346	0.663
57DAP/55DAP	0.99214	0.925
62DAP/57DAP	0.77462	0.05
68DAP/62DAP	1.30005
68DAP/14DAP	1.14971

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98032	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	0.47319	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.57931
12-2/M82	N/A	N/A
12-4/M82	1.66384
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	3.13667
4-3-2/M82	1.36987	0.241
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.00662
7-2/M82	N/A	N/A
9-3-2/M82	1.47149	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82759	1
IL7-5/WTpooled	0.5418
IL7-3/WTpooled	1.13078	1
IL12-4/WTpooled	0.72353	0.543
IL1-4/WTpooled	1.20649	0.426
WT/WTpooled	0.96793	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	1.34527	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.53434

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	1.0624	0.826

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	0.97068	1
Var 0h	0.81808	0.933
Var 12h I row2-row1	0.94027	0.77
Var 12h NI row2-row1	0.96029	0.906
Var 36h I row2-row1	0.94171	1
Var 36h NI row2-row1	0.79006	1
Var 60h I row2-row1	0.93427	0.952
Var 60h NI row2-row1	1.05503	0.904
Time course 0hI-0hNI	0.93868	0.495
Time course 12hI-12hNI	0.86588	0.279
Time course 36hI-36hNI	0.93946	0.312
Time course 60hI-60hNI	0.78978	0.011

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.20474	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.12672	0.381
Manapal/WT (red)	1.68604	0.164