Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00921	0.911
27DAP/17DAP	0.96923	0.928
39DAP/27DAP	1.22619	0.873
41DAP/39DAP	1.16618	0.584
42DAP/41DAP	0.97202	1
43DAP/42DAP	1.35401	0.722
47DAP/43DAP	0.90901	0.663
52DAP/47DAP	1.22567	0.798
57DAP/52DAP	0.85092	0.867

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84895	0.078
17DAP/reference	0.78112	0.022
27DAP/reference	0.89154	0.163
39DAP/reference	0.83779	0.012
41DAP/reference	0.80238	0.009
42DAP/reference	0.90157	0.017
43DAP/reference	0.90753	0.054
47DAP/reference	0.9996	0.636
52DAP/reference	1.17843	0.302
57DAP/reference	1.16482	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28965	0.422
27DAP/17DAP	0.93552	0.821
39DAP/27DAP	1.14212	0.565
41DAP/39DAP	1.05404	0.909
42DAP/41DAP	1.01017	0.91
43DAP/42DAP	1.00143	1
47DAP/43DAP	1.07459	0.758
52DAP/47DAP	1.01761	0.991
57DAP/52DAP	1.18332	0.276
57DAP/7DAP	1.31177	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99548	0.758
17DAP/reference	1.03397	0.162
27DAP/reference	1.13328	0.026
39DAP/reference	1.22366	0.024
41DAP/reference	1.19445	0.027
42DAP/reference	1.30432	0.007
43DAP/reference	1.27204	0.026
47DAP/reference	1.21876	0.021
52DAP/reference	1.08655	0.139
57DAP/reference	1.06385	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79831	0.031
17DAP/reference	0.75616	0.005
27DAP/reference	0.8692	0.093
39DAP/reference	0.84752	0.01
41DAP/reference	1.037	0.878
42DAP/reference	0.95003	0.355
43DAP/reference	0.81778	0.092
47DAP/reference	0.97042	0.27
52DAP/reference	0.8755	0.101
57DAP/reference	0.82454	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96537	0.197
17DAP/reference	0.91971	0.214
27DAP/reference	0.99078	0.657
39DAP/reference	0.98368	0.544
41DAP/reference	1.03662	0.588
42DAP/reference	1.06076	0.529
43DAP/reference	0.93034	0.237
47DAP/reference	0.90952	0.12
52DAP/reference	1.05096	0.79
57DAP/reference	1.0743	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19599	0.966
26DAP/20DAP	1.27307	0.449
34DAP/26DAP	0.89509	0.741
51DAP/34DAP	1.42631	0.032
52DAP/51DAP	0.94098	1
53DAP/52DAP	1.14484	0.723
55DAP/53DAP	1.01481	1
57DAP/55DAP	1.30719	0.818
62DAP/57DAP	1.01353	0.994
68DAP/62DAP	1.88097	0.023
68DAP/14DAP	2.01359	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.53723	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.65026	0.187
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.36346	0.092
Ripe Pepper/Ripe Tomato	1.38019	1
Mature Eggplant/Ripe Tomato	1.0867	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19042
1-1-2/M82	1.08488	1
12-2/M82	0.8928
12-4/M82	0.76668	0.272
1-3/M82	1.58179
2-1-1/M82	1.02575	1
2-1/M82	0.96857
2-6/M82	1.01095
3-2/M82	1.31777
4-1-1/M82	0.85234	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.35407	0.268
5-3/M82	1.14059	1
6-2/M82	1.49658	1
6-3/M82	0.86563	1
7-1/M82	0.78069	0.803
7-2/M82	1.03515	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15859	0.365
IL2-6/WTpooled	0.97261	1
IL7-5/WTpooled	0.75504	1
IL7-3/WTpooled	1.08526	1
IL12-4/WTpooled	1.07979	0.891
IL1-4/WTpooled	1.079	1
WT/WTpooled	0.92778	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	1.29331	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95068	1
DC3000/delta hrp 6h	1.03567	0.95
DC3000/delta hrp 12h	0.98962	1
DC3000/delta hrp 24h	0.71139	0.061

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.85239
DC3000 delta B/DC3000 delta AB	2.17258

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10649	0.254
Exp 36h	1.18439	0.693
Exp 60h	1.3093	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94952	1
Var 0h	0.46842	1
Var 12h I row2-row1	1.19636	0.296
Var 12h NI row2-row1	1.15874	0.649
Var 36h I row2-row1	1.34373	0.41
Var 36h NI row2-row1	0.78735	0.706
Var 60h I row2-row1	0.76253	0.285
Var 60h NI row2-row1	0.81201	0.866
Time course 0hI-0hNI	1.02026	0.852
Time course 12hI-12hNI	1.1931	0.015
Time course 36hI-36hNI	1.44319	0.039
Time course 60hI-60hNI	2.88169	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)	1.04204	0.612
transgenic ySAMdc/azygous control (breaker)	1.27736	0.248
transgenic ySAMdc/azygous control (red)	1.07863	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92721	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28945	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.04544	1
Manapal/WT (red)	1.6795	0.222