Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18016	0.798
27DAP/17DAP	0.70657	0.29
39DAP/27DAP	1.23515	0.558
41DAP/39DAP	0.98138	0.918
42DAP/41DAP	0.96152	1
43DAP/42DAP	1.24676	0.985
47DAP/43DAP	1.09636	1
52DAP/47DAP	1.01739	0.991
57DAP/52DAP	1.21861	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14271	0.587
17DAP/reference	0.8938	0.147
27DAP/reference	1.08361	0.599
39DAP/reference	0.98301	0.762
41DAP/reference	0.97627	0.667
42DAP/reference	1.14546	0.103
43DAP/reference	0.97401	0.728
47DAP/reference	1.30692	0.01
52DAP/reference	1.2678	0.056
57DAP/reference	1.16587	0.136

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34893	0.049
27DAP/17DAP	0.82676	0.195
39DAP/27DAP	0.77037	0.064
41DAP/39DAP	0.98947	1
42DAP/41DAP	1.27759	0.072
43DAP/42DAP	0.69193	0.063
47DAP/43DAP	0.81431	0.156
52DAP/47DAP	2.71869	0.041
57DAP/52DAP	2.79398	0.042
57DAP/7DAP	2.0415	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06262	0.718
17DAP/reference	1.12189	0.896
27DAP/reference	1.11551	0.453
39DAP/reference	1.15103	0.297
41DAP/reference	1.05359	0.812
42DAP/reference	0.91097	0.289
43DAP/reference	0.8191	0.076
47DAP/reference	1.09242	0.37
52DAP/reference	0.69577	0.016
57DAP/reference	0.88803	0.03

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16555	0.484
17DAP/reference	1.32563	0.017
27DAP/reference	1.16817	0.507
39DAP/reference	1.20503	0.155
41DAP/reference	1.34484	0.06
42DAP/reference	1.22062	0.043
43DAP/reference	1.01131	1
47DAP/reference	1.10409	0.087
52DAP/reference	1.21034	0.026
57DAP/reference	1.12085	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13637	0.176
17DAP/reference	1.06905	0.792
27DAP/reference	1.05772	0.805
39DAP/reference	0.9275	0.36
41DAP/reference	1.02949	0.826
42DAP/reference	1.07917	0.692
43DAP/reference	1.13786	0.482
47DAP/reference	1.23863	0.006
52DAP/reference	1.15988	0.349
57DAP/reference	1.64014	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96887	1
26DAP/20DAP	1.51537	1
34DAP/26DAP	2.70077	1
51DAP/34DAP	1.7413	0.759
52DAP/51DAP	4.74312	0.033
53DAP/52DAP	0.5959	0.049
55DAP/53DAP	1.6168	0.047
57DAP/55DAP	0.61995	0.084
62DAP/57DAP	0.71592
68DAP/62DAP	0.92482	0.863
68DAP/14DAP	1.1913	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.16713	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74223	0.207
Mature Green Tomato/Ripe Tomato	1.27262
Immature Eggplant/Mature Eggplant	0.57241	0.064
Ripe Pepper/Ripe Tomato	1.18528	0.258
Mature Eggplant/Ripe Tomato	2.12416

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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68005	0.243
IL2-6/WTpooled	0.35133	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03466	1
IL12-4/WTpooled	0.88177	0.71
IL1-4/WTpooled	0.80236	0.415
WT/WTpooled	1.10338	0.911

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	1.34246	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94304	1
DC3000/delta hrp 6h	0.94799	0.95
DC3000/delta hrp 12h	1.21413	1
DC3000/delta hrp 24h	1.33704	0.118

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13579	0.102
DC3000 delta B/DC3000 delta AB	1.1309	0.535

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95767	1
Exp 36h	0.87777	0.589
Exp 60h	0.93604	0.522

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.00822	1
Var 0h	0.97723	1
Var 12h I row2-row1	0.73112	0.39
Var 12h NI row2-row1	1.09652	0.34
Var 36h I row2-row1	0.97885	1
Var 36h NI row2-row1	1.51581	0.482
Var 60h I row2-row1	1.09646	1
Var 60h NI row2-row1	1.04595	1
Time course 0hI-0hNI	0.89245	0.319
Time course 12hI-12hNI	0.99981	1
Time course 36hI-36hNI	0.93989	0.36
Time course 60hI-60hNI	0.32067	0.005

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)	0.98378	0.862
transgenic ySAMdc/azygous control (breaker)	0.78291	0.15
transgenic ySAMdc/azygous control (red)	1.11835	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8676	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03539	1

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16481	1
Manapal/WT (break)	1.55316	0.14
Manapal/WT (red)	1.19415	0.164