Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.4.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30251	0.291
27DAP/17DAP	0.93128	0.863
39DAP/27DAP	1.28226	0.588
41DAP/39DAP	0.96844	0.871
42DAP/41DAP	0.96901	1
43DAP/42DAP	0.93623	0.854
47DAP/43DAP	0.99761	0.904
52DAP/47DAP	1.50362	0.441
57DAP/52DAP	1.22702	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92856	0.132
17DAP/reference	0.98952	0.777
27DAP/reference	0.9441	0.249
39DAP/reference	0.96393	0.381
41DAP/reference	0.94872	0.267
42DAP/reference	0.87987	0.015
43DAP/reference	1.07509	0.022
47DAP/reference	0.9328	0.042
52DAP/reference	0.94423	0.093
57DAP/reference	1.03834	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94781	0.509
27DAP/17DAP	1.0332	0.969
39DAP/27DAP	1.25266	0.57
41DAP/39DAP	0.73069	0.096
42DAP/41DAP	1.14182	0.514
43DAP/42DAP	0.95861	0.709
47DAP/43DAP	0.9495	0.781
52DAP/47DAP	1.0652	0.892
57DAP/52DAP	1.58809	0.048
57DAP/7DAP	1.23575	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86049	0.168
17DAP/reference	0.98031	0.518
27DAP/reference	1.20875	0.197
39DAP/reference	1.25092	0.157
41DAP/reference	1.04821	0.812
42DAP/reference	1.0618	0.534
43DAP/reference	1.03549	0.923
47DAP/reference	1.00213	1
52DAP/reference	1.30975	0.036
57DAP/reference	1.35467	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01125	0.884
17DAP/reference	0.9911	0.747
27DAP/reference	0.93206	0.317
39DAP/reference	0.9154	0.085
41DAP/reference	0.89454	0.096
42DAP/reference	0.76668	0.016
43DAP/reference	1.02642	0.827
47DAP/reference	0.79137	0.01
52DAP/reference	0.96869	0.327
57DAP/reference	1.12134	0.387

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73418	0.059
17DAP/reference	0.90438	0.374
27DAP/reference	0.96301	0.376
39DAP/reference	0.91066	0.05
41DAP/reference	0.9506	0.459
42DAP/reference	0.84831	0.087
43DAP/reference	0.89281	0.246
47DAP/reference	1.00207	0.687
52DAP/reference	0.93725	0.529
57DAP/reference	0.94524	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88604	0.672
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.65075
51DAP/34DAP	0.85731	0.555
52DAP/51DAP	1.13336	0.467
53DAP/52DAP	1.79987	0.334
55DAP/53DAP	0.94168	0.698
57DAP/55DAP	0.98758	0.899
62DAP/57DAP	1.03316	0.833
68DAP/62DAP	1.00327	0.863
68DAP/14DAP	0.9757	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99186	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.00113	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.30509	0.224
Mature Eggplant/Ripe Tomato	0.13195	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.79842	0.69
1-1-2/M82	0.92703
12-2/M82	0.91804
12-4/M82	0.93165
1-3/M82	0.72016	0.376
2-1-1/M82	0.79159	0.92
2-1/M82	0.74362
2-6/M82	0.99988
3-2/M82	N/A	N/A
4-1-1/M82	0.86857	1
4-1/M82	N/A	N/A
4-3-2/M82	0.59001
4-3/M82	0.71445
5-3/M82	0.90646	1
6-2/M82	0.57632
6-3/M82	0.96166	1
7-1/M82	N/A	N/A
7-2/M82	0.88461	0.881
9-3-2/M82	0.75774	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.22437	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02779	1
IL12-4/WTpooled	1.09284	0.839
IL1-4/WTpooled	0.91473
WT/WTpooled	0.9724	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	1.22297	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99433	1
DC3000/delta hrp 6h	0.67128
DC3000/delta hrp 12h	1.12612	1
DC3000/delta hrp 24h	0.98326	0.934

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.70713	1
Exp 36h	2.50525	0.693
Exp 60h	1.74827	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.90852	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.80708	0.312
transgenic ySAMdc/azygous control (breaker)	0.56396	0.15
transgenic ySAMdc/azygous control (red)	0.89452	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99658	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92619	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60806	0.172
Manapal/WT (break)	1.05586	1
Manapal/WT (red)	1.13142	0.413