Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.14.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73152	0.141
27DAP/17DAP	0.89447	0.665
39DAP/27DAP	0.72283	0.443
41DAP/39DAP	0.86053	0.52
42DAP/41DAP	1.30122	0.626
43DAP/42DAP	0.89007	0.713
47DAP/43DAP	0.72747	0.251
52DAP/47DAP	1.82515	0.306
57DAP/52DAP	1.42314	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19525	0.252
17DAP/reference	1.12507	0.631
27DAP/reference	1.16658	0.047
39DAP/reference	1.04903	0.534
41DAP/reference	0.8513	0.085
42DAP/reference	0.95327	0.225
43DAP/reference	0.94633	0.331
47DAP/reference	1.04143	1
52DAP/reference	1.12939	0.272
57DAP/reference	1.03277	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99825	0.782
27DAP/17DAP	0.85764	0.418
39DAP/27DAP	0.61662	0.03
41DAP/39DAP	1.15946	0.304
42DAP/41DAP	0.85534	0.197
43DAP/42DAP	1.00111	0.96
47DAP/43DAP	0.84179	0.175
52DAP/47DAP	1.19867	0.519
57DAP/52DAP	0.96338	0.732
57DAP/7DAP	0.71375	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10744	0.705
17DAP/reference	1.09946	0.437
27DAP/reference	0.88507	0.159
39DAP/reference	0.96577	0.411
41DAP/reference	0.92185	0.223
42DAP/reference	0.87366	0.012
43DAP/reference	1.03845	0.974
47DAP/reference	0.7944	0.066
52DAP/reference	0.7928	0.027
57DAP/reference	1.07564	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35188	0.137
17DAP/reference	1.77432	0.009
27DAP/reference	1.11955	0.735
39DAP/reference	1.05574	0.935
41DAP/reference	1.0749	1
42DAP/reference	1.10744	0.359
43DAP/reference	1.18206	0.313
47DAP/reference	0.92944	0.328
52DAP/reference	1.11766	0.343
57DAP/reference	1.10556	0.374

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01336	0.75
17DAP/reference	1.12922	0.326
27DAP/reference	0.97045	0.624
39DAP/reference	0.96511	0.464
41DAP/reference	0.92014	0.371
42DAP/reference	0.96917	0.671
43DAP/reference	1.001	0.827
47DAP/reference	0.86912	0.224
52DAP/reference	1.10019	0.363
57DAP/reference	1.31314	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25009	0.966
26DAP/20DAP	0.66466	0.512
34DAP/26DAP	1.27206	0.819
51DAP/34DAP	0.66339	0.209
52DAP/51DAP	1.13717	0.776
53DAP/52DAP	0.8894	0.649
55DAP/53DAP	1.58023	0.653
57DAP/55DAP	0.54532	0.017
62DAP/57DAP	0.68782	0.162
68DAP/62DAP	1.21795	0.939
68DAP/14DAP	0.85768	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.78331	0.162

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.1907	0.058
Mature Green Tomato/Ripe Tomato	2.04088	0.016
Immature Eggplant/Mature Eggplant	0.83315	0.105
Ripe Pepper/Ripe Tomato	1.13959	1
Mature Eggplant/Ripe Tomato	3.5272	0.26

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	1.17761
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	1.08207	0.277
IL2-6/WTpooled	0.9437	1
IL7-5/WTpooled	1.32499
IL7-3/WTpooled	0.934	0.418
IL12-4/WTpooled	1.03227	0.891
IL1-4/WTpooled	0.9723	1
WT/WTpooled	1.00294	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	0.74386	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04432	0.914
DC3000/delta hrp 6h	1.02829	1
DC3000/delta hrp 12h	1.02335	1
DC3000/delta hrp 24h	0.64465	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.74009	0.151
DC3000 delta B/DC3000 delta AB	0.87339	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87684	1
Exp 36h	0.76742	0.406
Exp 60h	0.74223	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98987	1
Var 0h	1.02767	1
Var 12h I row2-row1	0.98806	1
Var 12h NI row2-row1	1.11384	1
Var 36h I row2-row1	1.21512	0.908
Var 36h NI row2-row1	1.15835	1
Var 60h I row2-row1	0.96599	0.952
Var 60h NI row2-row1	1.05917	0.904
Time course 0hI-0hNI	0.96948	0.866
Time course 12hI-12hNI	0.89966	0.089
Time course 36hI-36hNI	0.7511	0.027
Time course 60hI-60hNI	0.57552	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)	1.24768	0.212
transgenic ySAMdc/azygous control (breaker)	0.37258	0.131
transgenic ySAMdc/azygous control (red)	1.04694	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94926	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88178	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97253	1
Manapal/WT (break)	1.13619	1
Manapal/WT (red)	1.95637	0.413