Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14366	0.498
27DAP/17DAP	0.70606	0.088
39DAP/27DAP	1.00458	0.769
41DAP/39DAP	0.82677	0.281
42DAP/41DAP	1.09483	0.903
43DAP/42DAP	1.22051	0.831
47DAP/43DAP	0.76394	0.274
52DAP/47DAP	1.05319	0.971
57DAP/52DAP	1.10138	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01634	1
17DAP/reference	1.06885	0.258
27DAP/reference	0.94197	0.369
39DAP/reference	1.05539	0.352
41DAP/reference	1.0215	0.552
42DAP/reference	1.34517	0.029
43DAP/reference	0.96924	0.576
47DAP/reference	1.12604	0.84
52DAP/reference	0.82212	0.051
57DAP/reference	0.76488	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76978	0.164
27DAP/17DAP	0.57972
39DAP/27DAP	1.16313
41DAP/39DAP	1.28879	0.135
42DAP/41DAP	1.50572	0.836
43DAP/42DAP	1.98972
47DAP/43DAP	0.70872	0.339
52DAP/47DAP	1.36535
57DAP/52DAP	1.74745	0.659
57DAP/7DAP	1.60805	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90456	0.326
17DAP/reference	0.74358	0.011
27DAP/reference	0.68754	0.01
39DAP/reference	0.69653	0.013
41DAP/reference	0.74861	0.027
42DAP/reference	0.58966	0.01
43DAP/reference	0.59314	0.011
47DAP/reference	1.16199	0.948
52DAP/reference	0.80003	0.03
57DAP/reference	0.76622	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01445	0.93
17DAP/reference	1.08502	0.496
27DAP/reference	1.12931	0.682
39DAP/reference	0.90516	0.208
41DAP/reference	0.82351	0.057
42DAP/reference	1.12517	0.621
43DAP/reference	0.9161	0.361
47DAP/reference	1.02411	0.994
52DAP/reference	0.91521	0.433
57DAP/reference	0.97007	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9986	0.607
17DAP/reference	0.94187	0.537
27DAP/reference	0.75655	0.06
39DAP/reference	0.75951	0.029
41DAP/reference	0.83065	0.086
42DAP/reference	0.6365	0.016
43DAP/reference	0.68929	0.018
47DAP/reference	1.34953	0.046
52DAP/reference	1.26893	1
57DAP/reference	0.9665	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90069	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.49796
51DAP/34DAP	0.89361
52DAP/51DAP	0.63497
53DAP/52DAP	1.45381	0.723
55DAP/53DAP	1.48991	0.247
57DAP/55DAP	1.25963	0.87
62DAP/57DAP	1.05396	0.833
68DAP/62DAP	1.46473	0.23
68DAP/14DAP	1.51042

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68478

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.36613	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.32148
Mature Eggplant/Ripe Tomato	0.83097	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05315	0.742
1-1-2/M82	0.82999	0.761
12-2/M82	1.00703
12-4/M82	1.07824	0.611
1-3/M82	0.90045	0.378
2-1-1/M82	1.10989	0.457
2-1/M82	1.49908
2-6/M82	0.92511	1
3-2/M82	1.01295
4-1-1/M82	1.04305	1
4-1/M82	0.94152
4-3-2/M82	1.39287	0.284
4-3/M82	1.05595	0.268
5-3/M82	0.95315	0.642
6-2/M82	N/A	N/A
6-3/M82	1.00149	1
7-1/M82	0.89876
7-2/M82	1.03815	1
9-3-2/M82	1.26251	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.32698
IL7-3/WTpooled	1.01002	1
IL12-4/WTpooled	0.75388	0.71
IL1-4/WTpooled	0.91082	1
WT/WTpooled	1.07484	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95971	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.94376	1
DC3000/delta hrp 24h	1.16702	0.202

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	N/A	N/A

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	N/A	N/A
Var 0h	0.92983	0.933
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.24105	0.921
transgenic ySAMdc/azygous control (breaker)	1.02319	1
transgenic ySAMdc/azygous control (red)	1.07985	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10939	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18474	0.237

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)	0.96016	1
Manapal/WT (red)	1.04899	0.164