Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2869	0.912
27DAP/17DAP	0.94259	0.801
39DAP/27DAP	1.24312	0.593
41DAP/39DAP	1.24224	0.511
42DAP/41DAP	0.8794	1
43DAP/42DAP	1.06374	1
47DAP/43DAP	1.3202	0.715
52DAP/47DAP	0.90359	0.695
57DAP/52DAP	1.09149	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04565	0.928
17DAP/reference	0.70469	0.007
27DAP/reference	0.86688	0.095
39DAP/reference	0.76141	0.017
41DAP/reference	0.66344	0.008
42DAP/reference	0.97458	0.315
43DAP/reference	0.89811	0.056
47DAP/reference	1.0581	1
52DAP/reference	1.15652	0.128
57DAP/reference	1.2696	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41965	0.536
27DAP/17DAP	1.09182	0.788
39DAP/27DAP	1.01842	0.943
41DAP/39DAP	0.97192	0.968
42DAP/41DAP	1.13754	0.904
43DAP/42DAP	1.20385	0.627
47DAP/43DAP	1.39467	0.02
52DAP/47DAP	1.1578	0.689
57DAP/52DAP	1.45312	0.305
57DAP/7DAP	1.5638

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9191	0.326
17DAP/reference	1.10633	0.399
27DAP/reference	1.32582	0.026
39DAP/reference	1.23903	0.033
41DAP/reference	1.19473	0.43
42DAP/reference	1.26269	0.233
43DAP/reference	1.532	0.074
47DAP/reference	1.34379	0.039
52DAP/reference	1.06657	0.832
57DAP/reference	1.00955	0.804

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18443	0.626
17DAP/reference	0.99513	0.659
27DAP/reference	1.20178	0.488
39DAP/reference	1.33191	0.112
41DAP/reference	1.44363	0.01
42DAP/reference	1.23518	0.162
43DAP/reference	0.85964	0.166
47DAP/reference	0.95205	0.208
52DAP/reference	1.12743	0.168
57DAP/reference	0.79686	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10295	0.422
17DAP/reference	0.90413	0.243
27DAP/reference	1.14169	0.125
39DAP/reference	0.99665	0.693
41DAP/reference	1.08263	0.537
42DAP/reference	1.43217	0.014
43DAP/reference	1.21858	0.418
47DAP/reference	0.85353	0.036
52DAP/reference	1.68772	0.649
57DAP/reference	1.82925	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16589	0.966
26DAP/20DAP	0.87506	1
34DAP/26DAP	1.42637	1
51DAP/34DAP	0.75088	0.504
52DAP/51DAP	1.27683	0.522
53DAP/52DAP	0.87372	0.612
55DAP/53DAP	0.78297	0.43
57DAP/55DAP	1.04668	0.823
62DAP/57DAP	0.7258	0.05
68DAP/62DAP	1.86311	0.616
68DAP/14DAP	2.57291	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09744	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.396	0.113
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.33205	0.047
Ripe Pepper/Ripe Tomato	1.54287	1
Mature Eggplant/Ripe Tomato	1.45202	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.05024
12-2/M82	N/A	N/A
12-4/M82	0.8036	0.33
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	0.55767
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.87385	0.71
IL1-4/WTpooled	1.36106	1
WT/WTpooled	N/A	N/A

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	1.04918	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88926	1
DC3000/delta hrp 6h	1.0614	0.95
DC3000/delta hrp 12h	0.94398	1
DC3000/delta hrp 24h	0.90249	0.438

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	0.8606	0.253

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01032	1
Exp 36h	0.88099	0.589
Exp 60h	0.78127	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10947	1
Var 0h	0.94114	1
Var 12h I row2-row1	0.78533	0.357
Var 12h NI row2-row1	1.14752	1
Var 36h I row2-row1	1.08069	1
Var 36h NI row2-row1	0.7257	0.276
Var 60h I row2-row1	1.11824
Var 60h NI row2-row1	0.74519	1
Time course 0hI-0hNI	0.9898	1
Time course 12hI-12hNI	0.98342	0.935
Time course 36hI-36hNI	1.12486	0.166
Time course 60hI-60hNI	0.43651	0.006

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)	1.05691	0.571
transgenic ySAMdc/azygous control (breaker)	0.94573	0.49
transgenic ySAMdc/azygous control (red)	0.89684	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95282	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.47341	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09712	1
Manapal/WT (break)	0.95519	1
Manapal/WT (red)	1.61488	0.222