Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	4.00581	0.365
27DAP/17DAP	0.98565	0.784
39DAP/27DAP	1.09715	1
41DAP/39DAP	2.02889	0.483
42DAP/41DAP	1.75127	0.054
43DAP/42DAP	1.56211	0.299
47DAP/43DAP	1.68848	0.293
52DAP/47DAP	0.69776	0.189
57DAP/52DAP	1.29336	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18308	0.5
17DAP/reference	0.9822	0.737
27DAP/reference	0.99044	0.779
39DAP/reference	0.81513	0.048
41DAP/reference	0.83118	0.085
42DAP/reference	1.10137	0.731
43DAP/reference	0.90282	0.08
47DAP/reference	1.16157	0.558
52DAP/reference	1.31887	0.195
57DAP/reference	1.1846	0.259

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43643	0.241
27DAP/17DAP	0.97005	0.887
39DAP/27DAP	1.37665	0.15
41DAP/39DAP	1.14575	0.682
42DAP/41DAP	1.64319	0.694
43DAP/42DAP	3.96611	0.015
47DAP/43DAP	1.02279	0.969
52DAP/47DAP	1.15908	0.603
57DAP/52DAP	0.60976	0.145
57DAP/7DAP	1.3209	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59548	0.082
17DAP/reference	0.88315	0.22
27DAP/reference	0.80574	0.135
39DAP/reference	0.61459	0.013
41DAP/reference	0.57801	0.012
42DAP/reference	0.67877	0.021
43DAP/reference	0.78666	0.059
47DAP/reference	0.78313	0.222
52DAP/reference	0.53542	0.019
57DAP/reference	0.62152	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76921	0.129
17DAP/reference	0.87968	0.357
27DAP/reference	0.88844	0.257
39DAP/reference	0.91101	0.348
41DAP/reference	0.87871	0.173
42DAP/reference	1.01075	0.655
43DAP/reference	1.10677	0.89
47DAP/reference	0.90474	0.201
52DAP/reference	1.0562	0.713
57DAP/reference	0.88428	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68822	0.04
17DAP/reference	0.84427	0.203
27DAP/reference	0.88191	0.085
39DAP/reference	0.85831	0.05
41DAP/reference	0.9663	0.512
42DAP/reference	1.01828	1
43DAP/reference	0.89018	0.165
47DAP/reference	0.95576	0.494
52DAP/reference	1.01487	0.946
57DAP/reference	1.32238	0.501

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21898	0.966
26DAP/20DAP	0.60409	0.113
34DAP/26DAP	1.37804	0.304
51DAP/34DAP	1.09999	0.946
52DAP/51DAP	1.3973
53DAP/52DAP	0.94055	0.848
55DAP/53DAP	1.25679	0.589
57DAP/55DAP	0.9593	0.831
62DAP/57DAP	0.85113	0.162
68DAP/62DAP	1.3938	1
68DAP/14DAP	1.01753	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07936	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.13335	0.027
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.09882
Mature Eggplant/Ripe Tomato	0.04025	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	1.57684
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	3.82078
5-3/M82	0.49537	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.26185
9-3-2/M82	1.48998

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.14835
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.24852
IL12-4/WTpooled	1.09473	0.891
IL1-4/WTpooled	1.06996	1
WT/WTpooled	1.01152	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	1.01741

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	0.87895	1
DC3000/delta hrp 24h	1.14423

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	4.52381
DC3000 delta B/DC3000 delta AB	1.9213	0.079

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	1.0503	1
Var 0h	1.0391	1
Var 12h I row2-row1	0.90303
Var 12h NI row2-row1	0.71119	1
Var 36h I row2-row1	0.83736	0.805
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.88812
Var 60h NI row2-row1	0.57369	1
Time course 0hI-0hNI	1.26386	0.63
Time course 12hI-12hNI	1.01673	0.867
Time course 36hI-36hNI	1.08726	0.799
Time course 60hI-60hNI	0.82846	0.161

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)	0.77144	1

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)	N/A	N/A
Manapal/WT (red)	0.66191	0.216