Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.17.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16927	0.798
27DAP/17DAP	0.96449	0.973
39DAP/27DAP	1.16683	0.638
41DAP/39DAP	0.75341	0.27
42DAP/41DAP	1.4251	0.466
43DAP/42DAP	1.08206	1
47DAP/43DAP	1.04229	0.966
52DAP/47DAP	1.0612	0.973
57DAP/52DAP	1.04398	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88243	0.205
17DAP/reference	0.65668	0.007
27DAP/reference	0.95613	0.567
39DAP/reference	0.8548	0.039
41DAP/reference	0.69097	0.008
42DAP/reference	1.02837	0.901
43DAP/reference	0.84723	0.017
47DAP/reference	1.14089	0.101
52DAP/reference	1.50803	0.065
57DAP/reference	1.57551	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10519	0.619
27DAP/17DAP	0.94247	0.724
39DAP/27DAP	1.99431	0.178
41DAP/39DAP	0.96549	0.91
42DAP/41DAP	0.98256	0.77
43DAP/42DAP	0.8802	0.197
47DAP/43DAP	0.93735	0.677
52DAP/47DAP	0.89759	0.617
57DAP/52DAP	1.05347	0.753
57DAP/7DAP	1.20473	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90673	0.224
17DAP/reference	1.03432	0.971
27DAP/reference	1.16113	0.06
39DAP/reference	1.04248	0.819
41DAP/reference	1.13095	0.159
42DAP/reference	1.20473	0.076
43DAP/reference	1.06844	0.637
47DAP/reference	1.1265	0.311
52DAP/reference	1.09929	0.171
57DAP/reference	1.08195	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87058	0.182
17DAP/reference	0.75878	0.004
27DAP/reference	0.89859	0.212
39DAP/reference	1.04701	0.745
41DAP/reference	0.99022	0.545
42DAP/reference	1.11656	0.288
43DAP/reference	0.89519	0.292
47DAP/reference	0.91147	0.116
52DAP/reference	0.94374	0.203
57DAP/reference	0.72413	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91386	0.074
17DAP/reference	0.96931	0.636
27DAP/reference	1.09931	0.312
39DAP/reference	1.19309	0.031
41DAP/reference	1.10253	0.112
42DAP/reference	1.30221	0.321
43DAP/reference	1.21135	0.744
47DAP/reference	0.97452	0.509
52DAP/reference	0.8103	0.123
57DAP/reference	1.86107	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08325	0.966
26DAP/20DAP	1.46747	0.562
34DAP/26DAP	1.03229	1
51DAP/34DAP	0.76796	0.114
52DAP/51DAP	0.80611	1
53DAP/52DAP	1.01808	0.97
55DAP/53DAP	0.81075	0.325
57DAP/55DAP	1.21126	0.728
62DAP/57DAP	0.97123	0.994
68DAP/62DAP	1.6212	0.057
68DAP/14DAP	2.87331	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24443	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.28359	0.058
Mature Green Tomato/Ripe Tomato	0.85996	0.226
Immature Eggplant/Mature Eggplant	1.15762	0.055
Ripe Pepper/Ripe Tomato	1.04599	1
Mature Eggplant/Ripe Tomato	1.11636	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02511	0.877
1-1-2/M82	0.93047	1
12-2/M82	0.83989
12-4/M82	0.98608	0.619
1-3/M82	1.19281
2-1-1/M82	1.17934	0.375
2-1/M82	1.03747	1
2-6/M82	1.10371	0.425
3-2/M82	1.15691
4-1-1/M82	1.01019	1
4-1/M82	0.60726
4-3-2/M82	0.8597
4-3/M82	0.94907	0.551
5-3/M82	1.06696	1
6-2/M82	N/A	N/A
6-3/M82	0.92177	1
7-1/M82	1.06714
7-2/M82	1.12866	1
9-3-2/M82	0.98763

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94862	1
IL2-6/WTpooled	0.89214	0.383
IL7-5/WTpooled	3.52804
IL7-3/WTpooled	0.95597	1
IL12-4/WTpooled	1.09852	0.785
IL1-4/WTpooled	1.01995	1
WT/WTpooled	1.1362	0.957

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	0.91605	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09614	0.921
DC3000/delta hrp 6h	0.93923	0.95
DC3000/delta hrp 12h	0.93899	1
DC3000/delta hrp 24h	1.11956	0.336

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	1.38496	0.137

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97187	1
Exp 36h	1.14403	1
Exp 60h	1.12427	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93966	1
Var 0h	1.05978	0.216
Var 12h I row2-row1	0.88909
Var 12h NI row2-row1	1.17647
Var 36h I row2-row1	1.20535
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.92599	0.292
Time course 0hI-0hNI	0.92162	0.675
Time course 12hI-12hNI	1.01639	0.833
Time course 36hI-36hNI	1.19631	0.014
Time course 60hI-60hNI	2.6808	0.008

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)	0.96716	0.567
transgenic ySAMdc/azygous control (breaker)	1.61902	0.166
transgenic ySAMdc/azygous control (red)	1.06414	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09088	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00706	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88239	1
Manapal/WT (break)	1.02289	1
Manapal/WT (red)	0.91794	0.607