Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82887	0.339
27DAP/17DAP	0.97342	0.966
39DAP/27DAP	1.56239	0.301
41DAP/39DAP	0.84516	0.47
42DAP/41DAP	1.15125	1
43DAP/42DAP	0.89315	0.77
47DAP/43DAP	0.80863	0.424
52DAP/47DAP	0.90897	0.698
57DAP/52DAP	1.54462	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16326	0.334
17DAP/reference	0.79713	0.016
27DAP/reference	1.22718	0.258
39DAP/reference	0.82388	0.132
41DAP/reference	0.78656	0.154
42DAP/reference	1.16648	0.632
43DAP/reference	N/A	N/A
47DAP/reference	0.8945	0.05
52DAP/reference	1.33486	0.029
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01426	1
27DAP/17DAP	1.00094	0.943
39DAP/27DAP	0.86023	0.185
41DAP/39DAP	0.94595	0.875
42DAP/41DAP	1.05062	0.916
43DAP/42DAP	0.94117	0.415
47DAP/43DAP	1.03025	1
52DAP/47DAP	0.89059	0.565
57DAP/52DAP	1.05698	0.838
57DAP/7DAP	0.78782	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97811	0.495
17DAP/reference	0.98164	0.518
27DAP/reference	1.09532	0.804
39DAP/reference	0.9707	0.474
41DAP/reference	0.81733	0.082
42DAP/reference	0.79331	0.04
43DAP/reference	0.68532	0.017
47DAP/reference	0.81397	0.079
52DAP/reference	0.8085	0.046
57DAP/reference	0.75147	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90388	0.386
17DAP/reference	1.46022	0.229
27DAP/reference	1.24929	0.446
39DAP/reference	1.0174	0.621
41DAP/reference	1.05849	1
42DAP/reference	1.21055	0.281
43DAP/reference	0.96795	0.569
47DAP/reference	0.86365	0.015
52DAP/reference	1.1261	1
57DAP/reference	1.21388	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06437	0.505
17DAP/reference	1.07714	0.932
27DAP/reference	0.87731	0.147
39DAP/reference	0.83656	0.012
41DAP/reference	0.85919	0.021
42DAP/reference	1.02616	1
43DAP/reference	1.00103	0.66
47DAP/reference	0.90863	0.421
52DAP/reference	0.92428	0.482
57DAP/reference	1.47596	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97245	1
26DAP/20DAP	1.09766	0.855
34DAP/26DAP	0.79902	0.067
51DAP/34DAP	1.06494	0.883
52DAP/51DAP	1.23097	0.396
53DAP/52DAP	1.21348	0.565
55DAP/53DAP	1.11609	0.696
57DAP/55DAP	0.92856	0.795
62DAP/57DAP	1.30109
68DAP/62DAP	1.72656	0.01
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36638	0.03

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76611
Mature Green Tomato/Ripe Tomato	1.3769	0.299
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29972	0.293
Mature Eggplant/Ripe Tomato	0.45676	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.85404
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91972
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.23213
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.33821	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.3529
IL7-3/WTpooled	1.98626	1
IL12-4/WTpooled	1.65978	0.785
IL1-4/WTpooled	1.14694	1
WT/WTpooled	1.19285	0.686

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	1.01791	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.84161	0.941
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.91692	1
DC3000/delta hrp 24h	0.79611	0.126

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91405	0.882
DC3000 delta B/DC3000 delta AB	1.13929	0.491

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	1.03054	1
Var 0h	0.96068	1
Var 12h I row2-row1	0.88005	0.31
Var 12h NI row2-row1	0.96763	0.906
Var 36h I row2-row1	1.13586	0.41
Var 36h NI row2-row1	1.21172	1
Var 60h I row2-row1	0.94247	0.582
Var 60h NI row2-row1	0.99785	1
Time course 0hI-0hNI	0.97654	0.881
Time course 12hI-12hNI	0.98716	0.953
Time course 36hI-36hNI	1.23912	0.009
Time course 60hI-60hNI	1.1538	0.033

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)	N/A	N/A
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	4.19769	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)	1.22765	0.126
Manapal/WT (red)	1.45418	0.142